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<header>
<format-version>1.2</format-version>
<data-version>2.01</data-version>
<date>16:05:2012 13:09</date>
<saved-by>mchibucos</saved-by>
<auto-generated-by>OBO-Edit 2.2-rc1</auto-generated-by>
<default-namespace>evidence_code2.obo</default-namespace>
<ontology>eco</ontology>
</header>
<term>
<id>ECO:0000000</id>
<name>evidence</name>
<def>
<defstr>A type of information that is used to support an assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>evidence code</synonym_text>
</synonym>
<synonym scope="related">
<synonym_text>evidence_code</synonym_text>
</synonym>
<namespace>evidence_code2.obo</namespace>
<is_root>1</is_root>
</term>
<term>
<id>ECO:0000001</id>
<name>inference from background scientific knowledge</name>
<def>
<defstr>A curator inference that links the current annotation to a different evidence-based annotation via background knowledge of the curator.</defstr>
<dbxref>
<acc>go</acc>
<dbname>ECO</dbname>
</dbxref>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<synonym scope="exact">
<synonym_text>IC</synonym_text>
<dbxref>
<acc>IC</acc>
<dbname>GO</dbname>
</dbxref>
</synonym>
<synonym scope="exact">
<synonym_text>inferred by curator</synonym_text>
<dbxref>
<acc>IC</acc>
<dbname>GO</dbname>
</dbxref>
</synonym>
<is_a>ECO:0000205</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000002</id>
<name>direct assay evidence</name>
<def>
<defstr>Experimental evidence that is based on direct measurement of some aspect of a biological feature.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
<dbxref>
<acc>IDA</acc>
<dbname>GO</dbname>
</dbxref>
</def>
<is_a>ECO:0000006</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000003</id>
<name>reconstitution assay evidence</name>
<is_a>ECO:0000002</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000004</id>
<name>cell fractionation evidence</name>
<def>
<defstr>Used when an annotation is made based on separation of subcellular components based on their physical properties, such as density in sucrose density gradients. This evidence is used mostly for annotations to the cellular component ontology.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IDA: cell fractionation</synonym_text>
</synonym>
<is_a>ECO:0000100</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000005</id>
<name>enzyme assay evidence</name>
<def>
<defstr>Used when an annotation is made based on assays that determine the catalytic activity of enzymes.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IDA: enzyme assays</synonym_text>
</synonym>
<is_a>ECO:0000039</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000006</id>
<name>experimental evidence</name>
<def>
<defstr>An evidence type that is based on the results of a laboratory assay.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
<dbxref>
<acc>ecd</acc>
<dbname>GOC</dbname>
</dbxref>
</def>
<synonym scope="exact">
<synonym_text>EXP</synonym_text>
<dbxref>
<acc>EXP</acc>
<dbname>GO</dbname>
</dbxref>
</synonym>
<synonym scope="exact">
<synonym_text>inferred from experiment</synonym_text>
<dbxref>
<acc>EXP</acc>
<dbname>GO</dbname>
</dbxref>
</synonym>
<is_a>ECO:0000000</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000007</id>
<name>immunofluorescence evidence</name>
<def>
<defstr>Used when an annotation is made based on methods that detect the presence of macromolecules, proteins, and compounds by the use of a fluorescent-labeled antibody.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IDA: immunofluorescence</synonym_text>
</synonym>
<is_a>ECO:0000040</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000008</id>
<name>expression pattern evidence</name>
<def>
<defstr>Experimental evidence that is based on characterization of gene expression.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
<dbxref>
<acc>IEP</acc>
<dbname>GO</dbname>
</dbxref>
</def>
<comment>Use this evidence type when the annotation is inferred from the timing or location of expression of a gene. It may be difficult to determine whether the expression pattern truly indicates that a gene plays a role in a given process.</comment>
<synonym scope="exact">
<synonym_text>IEP</synonym_text>
<dbxref>
<acc>IEP</acc>
<dbname>GO</dbname>
</dbxref>
</synonym>
<synonym scope="exact">
<synonym_text>inferred from expression pattern</synonym_text>
<dbxref>
<acc>IEP</acc>
<dbname>GO</dbname>
</dbxref>
</synonym>
<is_a>ECO:0000006</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000009</id>
<name>transcript expression evidence</name>
<is_a>ECO:0000008</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000010</id>
<name>protein expression evidence</name>
<is_a>ECO:0000008</is_a>
<is_a>ECO:0000039</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000011</id>
<name>genetic interaction evidence</name>
<xref_analog>
<acc>TED:0000006</acc>
<dbname>TAIR</dbname>
</xref_analog>
<is_a>ECO:0000059</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000012</id>
<name>functional complementation evidence</name>
<def>
<defstr>Used when an annotation is made based on a functional complementation assay in which a wild-type copy of the gene in question is inserted into a mutant background in the organism of the gene's origin or a heterologous organism with a mutation in the homologous gene.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IGI: functional complementation</synonym_text>
</synonym>
<is_a>ECO:0000011</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000013</id>
<name>transgenic rescue experiment evidence</name>
<is_a>ECO:0000012</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000015</id>
<name>mutant phenotype evidence</name>
<def>
<defstr>The IMP evidence code covers those cases when the function, process or cellular localization of a gene product is inferred based on differences in the function, process, or cellular localization between two different alleles of the corresponding gene. The IMP code is used for cases where one allele may be designated 'wild-type' and another as 'mutant'. It is also used in cases where allelic variation occurs naturally and no specific allele is designated as wild-type or mutant. Caution should be used when making annotations from gain-of-function mutations as it may be difficult to infer a gene's normal function from a gain of function mutation, although it is sometimes possible.</defstr>
<dbxref>
<acc>IMP</acc>
<dbname>GO</dbname>
</dbxref>
</def>
<is_a>ECO:0000059</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000016</id>
<name>loss-of-function mutant phenotype evidence</name>
<is_a>ECO:0000015</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000017</id>
<name>ectopic expression evidence</name>
<def>
<defstr>Used when an annotation is made based on the analysis of the phenotype of a wild-type or mutant transgenic organism that has been engineered to overexpress or ectopically express the gene product in question.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IMP: analysis of overexpression/ectopic expression phenotype</synonym_text>
</synonym>
<is_a>ECO:0000059</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000018</id>
<name>anti-sense experiment evidence</name>
<def>
<defstr>Used when an annotation is based on a phenotype observed when expressing an anti-sense version of a gene product in a wild-type (for that gene product) background.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IMP: anti-sense experiments</synonym_text>
</synonym>
<is_a>ECO:0000059</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000019</id>
<name>RNAi evidence</name>
<def>
<defstr>Inference based on a phenotype observed when expressing an RNAi construct that includes a fragment of the gene product in a wild-type (for that gene product) background. A double-stranded RNA specifically suppresses the expression of the gene bearing its complementary sequence.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IMP: RNAi experiment</synonym_text>
</synonym>
<is_a>ECO:0000059</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000020</id>
<name>specific protein inhibition experiment evidence</name>
<is_a>ECO:0000039</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000021</id>
<name>physical interaction evidence</name>
<def>
<defstr>Experimental evidence that is based on characterization of an interaction between a gene product and another molecule.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>Molecules interacted with might include protein, nucleic acid, ion, or complex.</comment>
<synonym scope="related">
<synonym_text>inferred from physical interaction</synonym_text>
<dbxref>
<acc>IPI</acc>
<dbname>GOECO</dbname>
</dbxref>
</synonym>
<synonym scope="related">
<synonym_text>IPI</synonym_text>
<dbxref>
<acc>IPI</acc>
<dbname>GOECO</dbname>
</dbxref>
</synonym>
<xref_analog>
<acc>IPI</acc>
<dbname>GOECO</dbname>
<name>inferred from physical interaction</name>
</xref_analog>
<is_a>ECO:0000006</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000022</id>
<name>co-purification evidence</name>
<def>
<defstr>Used in component annotations when a subunit is isolated as part of purification of its larger complex.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IPI: co-purification</synonym_text>
</synonym>
<is_a>ECO:0000021</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000023</id>
<name>ligand binding evidence</name>
<is_a>ECO:0000021</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000024</id>
<name>protein binding evidence</name>
<is_a>ECO:0000023</is_a>
<is_a>ECO:0000039</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000025</id>
<name>hybrid interaction evidence</name>
<is_a>ECO:0000023</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000026</id>
<name>nucleic acid hybridization evidence</name>
<is_a>ECO:0000073</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000027</id>
<name>structural similarity evidence</name>
<def>
<defstr>Used when an annotation is made based on the structural similarity of the annotated gene or gene product to a single other gene or group of genes. In the case of a single gene, an accession for the related gene's sequence is entered in the evidence_with field.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="broad">
<synonym_text>inferred from sequence or structural similarity</synonym_text>
<dbxref>
<acc>ISS</acc>
<dbname>GO</dbname>
</dbxref>
</synonym>
<synonym scope="broad">
<synonym_text>ISS</synonym_text>
<dbxref>
<acc>ISS</acc>
<dbname>GO</dbname>
</dbxref>
</synonym>
<is_a>ECO:0000057</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000028</id>
<name>motif similarity evidence</name>
<def>
<defstr>Used when an annotation is made based on the presence of a recognized domain or motif in a gene product's (usually protein) primary sequence.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>ISS: recognized domains</synonym_text>
</synonym>
<is_a>ECO:0000044</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000029</id>
<name>match to InterPro signature evidence</name>
<is_a>ECO:0000202</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000030</id>
<name>BLAST evidence used in manual assertion</name>
<def>
<defstr>A type of BLAST evidence that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>curated BLAST analysis</synonym_text>
</synonym>
<is_a>ECO:0000206</is_a>
<intersection_of>
<to>ECO:0000206</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000031</id>
<name>protein BLAST evidence used in manual assertion</name>
<def>
<defstr>Protein BLAST evidence that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>curated protein BLAST analysis</synonym_text>
</synonym>
<xref_analog>
<acc>0000012</acc>
<dbname>GO_REF</dbname>
<name>Pairwise alignment (TIGR)</name>
</xref_analog>
<xref_analog>
<acc>0000018</acc>
<dbname>GO_REF</dbname>
<name>dictyBase 'Inferred from Electronic Annotation (BLAST method)'</name>
</xref_analog>
<xref_analog>
<acc>0000027</acc>
<dbname>GO_REF</dbname>
<name>BLAST search criteria for ISS assignment in PAMGO_GAT</name>
</xref_analog>
<is_a>ECO:0000208</is_a>
<intersection_of>
<to>ECO:0000208</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000032</id>
<name>nucleotide BLAST evidence used in manual assertion</name>
<def>
<defstr>Nucleotide BLAST evidence that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>curated nucleic acid BLAST analysis</synonym_text>
</synonym>
<is_a>ECO:0000207</is_a>
<intersection_of>
<to>ECO:0000207</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000033</id>
<name>traceable author statement</name>
<def>
<defstr>An author statement that is based on a cited reference.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
<dbxref>
<acc>TAS</acc>
<dbname>GO</dbname>
</dbxref>
</def>
<comment>The traceable author statement (TAS) evidence code covers author statements that are attributed to a cited source. Typically this type of information comes from review articles. Material from the introductions and discussion sections of non-review papers may also be suitable if another reference is cited as the source of experimental work or analysis. When annotating with this code the curator should use caution and be aware that authors often cite papers dealing with experiments that were performed in organisms different from the one being discussed in the paper at hand. Thus a problem with the TAS code is that it may turn out from following up the references in the paper that no experiments were performed on the gene in the organism actually being characterized in the primary paper. For this reason we recommend (when time and resources allow) that curators track down the cited paper and annotate directly from the experimental paper using the appropriate experimental evidence code. When this is not possible and it is necessary to annotate from reviews, the TAS code is the appropriate code to use for statements that are associated with a cited reference. Once an annotation has been made to a given term using an experimental evidence code, we recommend removing any annotations made to the same term using the TAS evidence code.</comment>
<is_a>ECO:0000204</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000034</id>
<name>non-traceable author statement</name>
<def>
<defstr>An author statement that is not associated with results presented or a cited reference.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>The non-traceable author statement evidence code should be used in all cases where the author makes a statement that a curator wants to capture but for which there are neither results presented nor a specific reference cited in the source used to make the annotation. The source of the information may be peer reviewed papers, textbooks, database records or vouchered specimens.</comment>
<is_a>ECO:0000204</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000035</id>
<name>no biological data found</name>
<def>
<defstr>A curator inference that states that a search found no information about a biological feature.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
<dbxref>
<acc>ND</acc>
<dbname>GO</dbname>
</dbxref>
</def>
<synonym scope="exact">
<synonym_text>ND</synonym_text>
<dbxref>
<acc>ND</acc>
<dbname>GO</dbname>
</dbxref>
</synonym>
<synonym scope="exact">
<synonym_text>no biological data available</synonym_text>
<dbxref>
<acc>ND</acc>
<dbname>GO</dbname>
</dbxref>
</synonym>
<is_a>ECO:0000205</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000037</id>
<name>not_recorded</name>
<def>
<defstr>An evidence that reflects an annotation was made before curators began tracking evidence types.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
<dbxref>
<acc>NR</acc>
<dbname>GO</dbname>
</dbxref>
</def>
<comment>The evidence not_recorded appears in some legacy annotations; it should not be used for new annotations.</comment>
<synonym scope="exact">
<synonym_text>not recorded</synonym_text>
<dbxref>
<acc>NR</acc>
<dbname>GO</dbname>
</dbxref>
</synonym>
<synonym scope="exact">
<synonym_text>NR</synonym_text>
<dbxref>
<acc>NR</acc>
<dbname>GO</dbname>
</dbxref>
</synonym>
<is_obsolete>1</is_obsolete>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000038</id>
<name>transient rescue experiment evidence</name>
<is_a>ECO:0000012</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000039</id>
<name>protein assay evidence</name>
<is_a>ECO:0000002</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000040</id>
<name>immunological assay evidence</name>
<is_a>ECO:0000023</is_a>
<is_a>ECO:0000039</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000041</id>
<name>similarity evidence</name>
<def>
<defstr>An evidence type that is based on comparing likeness of distinct biological entities.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
<dbxref>
<acc>IS</acc>
<dbname>PhenoScape</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>inferred from similarity</synonym_text>
</synonym>
<synonym scope="exact">
<synonym_text>IS</synonym_text>
</synonym>
<is_a>ECO:0000000</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000042</id>
<name>gain-of-function mutant phenotype evidence</name>
<is_a>ECO:0000015</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000044</id>
<name>sequence similarity evidence</name>
<def>
<defstr>A type of similarity based on biomolecular sequence.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<comment>A sequence similarity analysis may involve a gene or a gene product, and it could be based on similarity to a single other gene or to a group of other genes.</comment>
<synonym scope="broad">
<synonym_text>inferred from sequence or structural similarity</synonym_text>
<dbxref>
<acc>ISS</acc>
<dbname>GO</dbname>
</dbxref>
</synonym>
<synonym scope="exact">
<synonym_text>inferred from sequence similarity</synonym_text>
</synonym>
<synonym scope="broad">
<synonym_text>ISS</synonym_text>
<dbxref>
<acc>ISS</acc>
<dbname>GO</dbname>
</dbxref>
</synonym>
<is_a>ECO:0000041</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000045</id>
<name>spatial pattern of protein expression evidence</name>
<is_a>ECO:0000010</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000046</id>
<name>protein expression level evidence</name>
<is_a>ECO:0000010</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000047</id>
<name>spatial pattern of transcript expression evidence</name>
<is_a>ECO:0000009</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000048</id>
<name>transcript expression level evidence</name>
<is_a>ECO:0000009</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000049</id>
<name>reporter gene assay evidence</name>
<def>
<defstr>Used when an annotation is made on the basis of the expression pattern of a reporter gene. The reporter gene may consist of the native promoter of the gene in question that drives the expression of a readily assayable gene product such as GUS or GFP. The reporter gene may also be a marker of a particular type of physiological response.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IEP: expression of a reporter gene</synonym_text>
</synonym>
<is_a>ECO:0000059</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000050</id>
<name>voucher specimen analysis evidence</name>
<def>
<defstr>Used when an annotation is made on the basis of for a phenotype description for a species or higher level group that given by an author who explicitly references an observation of a voucher specimen(s). Voucher specimens are defined as those specimens with permanent museum catalog numbers. Thus it would be possible for a person to examine this particular specimen and observe the annotated phenotype.</defstr>
<dbxref>
<acc>DOA</acc>
<dbname>PhenoScape</dbname>
</dbxref>
</def>
<synonym scope="exact">
<synonym_text>IVS</synonym_text>
</synonym>
<is_a>ECO:0000059</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000051</id>
<name>genetic similarity evidence</name>
<def>
<defstr>A type of similarity based on genotype without respect to expression.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
<dbxref>
<acc>IGTS</acc>
<dbname>PhenoScape</dbname>
</dbxref>
</def>
<comment>A genetic similarity analysis might consider genetic markers, polymorphisms, alleles, or other characteristics sometimes considered as part of the field of traditional genetics. Although an attempt has been made to treat as distinct the concepts of "genetic", "genotypic", "genomic", and "sequence", there is considerable overlap in usage throughout the field of biology.</comment>
<synonym scope="exact">
<synonym_text>IGTS</synonym_text>
</synonym>
<synonym scope="related">
<synonym_text>inferred from genetic similarity</synonym_text>
</synonym>
<is_a>ECO:0000041</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000052</id>
<name>suppressor/enhancer interaction evidence</name>
<synonym scope="related">
<synonym_text>IGI: 'traditional' genetic interactions (e.g. suppressors, synthetic lethals)</synonym_text>
</synonym>
<xref_analog>
<acc>TED:0000063</acc>
<dbname>TAIR</dbname>
</xref_analog>
<is_a>ECO:0000011</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000053</id>
<name>computational combinatorial evidence</name>
<def>
<defstr>A type of combinatorial analysis where data are combined and evaluated by an algorithm.</defstr>
<dbxref>
<acc>go</acc>
<dbname>ECO</dbname>
</dbxref>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>Combinatorial analyses could include experimental or computational results. Examples include: (i) large-scale experiment such as a genome-wide two-hybrid or genome-wide synthetic interactions; (ii) integration of large-scale data sets of various types; and (iii) text-based-computation, e.g. text-mining. For simple sequence comparisons, one should use the sequence similarity analysis evidence type. For microarray results alone, expression pattern analysis is appropriate; whereas, large-scale computational analysis should be used when microarray results are combined with the results of other types of large-scale experiments.</comment>
<xref_analog>
<acc>TED:0000004</acc>
<dbname>TAIR</dbname>
</xref_analog>
<is_a>ECO:0000212</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000054</id>
<name>double mutant phenotype evidence</name>
<def>
<defstr>Used when an annotation is made based on the phenotype of double mutant organism that contains a mutation in the gene product of interest in addition to a second mutation at an unrelated locus.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIT</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IGI: double mutant analysis</synonym_text>
</synonym>
<is_a>ECO:0000011</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000055</id>
<name>array experiment evidence</name>
<is_a>ECO:0000008</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000056</id>
<name>epistatic interaction evidence</name>
<def>
<defstr>Used when an annotation is based on results of epistatis analysis of an allele of the gene in question and a mutant allele at another locus.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IGI: epistatic interactions</synonym_text>
</synonym>
<is_a>ECO:0000011</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000057</id>
<name>phenotypic similarity evidence</name>
<def>
<defstr>A type of similarity based on the expression of a genotype in an environment.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
<dbxref>
<acc>IPTS</acc>
<dbname>PhenoScape</dbname>
</dbxref>
</def>
<comment>Phenotype is defined as the outcome of the expression of a genotype in a given environment. A comparison might involve whole organisms or sub-parts of organisms.</comment>
<synonym scope="related">
<synonym_text>inferred from phenotypic similarity</synonym_text>
</synonym>
<synonym scope="exact">
<synonym_text>IPTS</synonym_text>
</synonym>
<is_a>ECO:0000041</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000058</id>
<name>expression microarray evidence</name>
<is_a>ECO:0000055</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000059</id>
<name>experimental phenotypic evidence</name>
<alt_id>ECO:0000014</alt_id>
<def>
<defstr>Experimental evidence that is based on the expression of a genotype in an environment.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>inferred from phenotype</synonym_text>
</synonym>
<is_a>ECO:0000006</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000060</id>
<name>positional similarity evidence</name>
<def>
<defstr>Used when an annotation is made based on the similarity of the location and or arrangement of structures.</defstr>
<dbxref>
<acc>IPS</acc>
<dbname>PhenoScape</dbname>
</dbxref>
</def>
<synonym scope="exact">
<synonym_text>IPS</synonym_text>
</synonym>
<is_a>ECO:0000057</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000061</id>
<name>quantitative trait analysis evidence</name>
<def>
<defstr>Used when an annotation is made for a gene product that has not been cloned but is associated with a quantitative trait locus.</defstr>
<dbxref>
<acc>tn</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IGI: quantitative trait analysis</synonym_text>
</synonym>
<is_a>ECO:0000059</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000062</id>
<name>genomic microarray evidence</name>
<is_a>ECO:0000055</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000063</id>
<name>compositional similarity evidence</name>
<def>
<defstr>Used when an annotation is made based on the similarity of the histological makeup of structures.</defstr>
<dbxref>
<acc>ICS</acc>
<dbname>PhenoScape</dbname>
</dbxref>
</def>
<synonym scope="exact">
<synonym_text>ICS</synonym_text>
</synonym>
<is_a>ECO:0000057</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000064</id>
<name>functional complementation in heterologous system evidence</name>
<def>
<defstr>Used when an annotation is made based on a functional complementation assay in which a wild-type copy of the gene in question is inserted into a heterologous organism with a mutation in the homologous gene.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IGI: functional complementation in heterologous system</synonym_text>
</synonym>
<is_a>ECO:0000012</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000065</id>
<name>CpG island microarray evidence</name>
<is_a>ECO:0000055</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000066</id>
<name>yeast one-hybrid evidence</name>
<def>
<defstr>Used when an annotation is based on the interaction of a protein with a DNA fragment in a yeast one-hybrid assay. The assay involves screening a library of candidate proteins for the ability bind to a target, cis-regulatory element or any other short, DNA binding sequence placed 5' to a yeast reporter gene.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IPI: yeast one-hybrid assay</synonym_text>
</synonym>
<is_a>ECO:0000025</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000067</id>
<name>developmental similarity evidence</name>
<def>
<defstr>Used when an annotation is made based on the similarity of embryological and/or post-embryonic origin of structures.</defstr>
<dbxref>
<acc>IDS</acc>
<dbname>PhenoScape</dbname>
</dbxref>
</def>
<synonym scope="exact">
<synonym_text>IDS</synonym_text>
</synonym>
<is_a>ECO:0000057</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000068</id>
<name>yeast 2-hybrid evidence</name>
<def>
<defstr>Used when an annotation is based on the interaction between two proteins in a yeast two-hybrid assay. The assay involves screening a trap-tagged library with a bait-tagged vector. The library is tagged with a DNA-binding domain (trap) and the bait is tagged with a transcriptional activation domain. Interaction between a library-trap protein and the bait results in activation of a yeast reporter gene whose transcription can be experimentally assayed.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IPI: yeast two-hybrid assay</synonym_text>
</synonym>
<is_a>ECO:0000025</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000069</id>
<name>differential methylation hybridization evidence</name>
<is_a>ECO:0000026</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000070</id>
<name>co-immunoprecipitation evidence</name>
<def>
<defstr>Used when an annotation is based on the interaction of one gene product with another in a co-immunoprecipitation assay (two or more proteins are precipitated when treated with an antibody specific to a single protein). The interacting protein is referenced in the evidence_with column.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IPI: co-immunoprecipitation</synonym_text>
</synonym>
<is_a>ECO:0000085</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000071</id>
<name>morphological similarity evidence</name>
<def>
<defstr>Used when an annotation is made based on the similarity of the shape, structure or overall configuration of structures.</defstr>
<dbxref>
<acc>IMS</acc>
<dbname>PhenoScape</dbname>
</dbxref>
</def>
<synonym scope="exact">
<synonym_text>IMS</synonym_text>
</synonym>
<is_a>ECO:0000057</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000072</id>
<name>Sos-recruitment assay evidence</name>
<def>
<defstr>Used when an annotation is based on the interaction of two proteins in a Sos-recruitment assay. The assay is a genetic screening system that detects protein-protein interactions and is not based on a transcriptional readout.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IPI: Sos-recruitment assay</synonym_text>
</synonym>
<is_a>ECO:0000021</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000073</id>
<name>experimental genomic evidence</name>
<def>
<defstr>Experimental evidence that characterizes an attribute of the genome underlying a gene product.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<synonym scope="exact">
<synonym_text>inferred from genomic analysis</synonym_text>
</synonym>
<is_a>ECO:0000006</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000074</id>
<name>split-ubiquitin assay evidence</name>
<def>
<defstr>Used when an annotation is based on the interaction of two proteins in a split-ubiquitin assay. The bait protein is fused to the C-terminal ubiquitin (Cub) domain followed by a reporter protein, and the prey protein is fused to a mutated N terminal ubiquiting (NubG) domain. If bait and prey interact, their interaction brings the NubG and Cub domains close enough together to reconstitute split-ubiquitin, resulting in the release of the reporter protein by the action of the UBPs.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IPI: split-ubiquitin assay</synonym_text>
</synonym>
<is_a>ECO:0000021</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000075</id>
<name>gene expression similarity evidence</name>
<def>
<defstr>Used when an annotation is made based on the similarity of expression of genes in structures.</defstr>
<dbxref>
<acc>IGES</acc>
<dbname>PhenoScape</dbname>
</dbxref>
</def>
<synonym scope="exact">
<synonym_text>IGES</synonym_text>
</synonym>
<is_a>ECO:0000057</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000076</id>
<name>far-Western evidence</name>
<def>
<defstr>Used when an annotation is based on the interaction of protein with another in a far-Western assay. The assay involves separating target proteins on an SDS-PAGE gel, blotting to a membrane, hybridization with a protein probe and visualization using a probe-directed antibody. The interacting protein is referenced in the evidence_with column.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IPI: far-Western analysis</synonym_text>
</synonym>
<is_a>ECO:0000021</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000077</id>
<name>methylation-specific polymerase chain reaction evidence</name>
<synonym scope="exact">
<synonym_text>methylation-specific PCR evidence</synonym_text>
</synonym>
<is_a>ECO:0000082</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000078</id>
<name>Southern hybridization evidence</name>
<def>
<defstr>Used when an annotation is based on the hybridization of a probe derived from the gene in question with a gene of known function/process/component. Can also be used when a probe derived from a gene of known function/process/component hybridizes with the gene in question.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>ISS: Southern blotting</synonym_text>
</synonym>
<is_a>ECO:0000026</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000079</id>
<name>affinity chromatography evidence</name>
<def>
<defstr>A type of ligand binding evidence resulting from separation of biochemical mixtures by selective binding of a compound to an immobilized compound on a polymeric matrix, subsequent removal of unattached components, and then displacement of the bond compound.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<comment>"Used when an annotation is made based on affinity chromatography, which is a selective separation technique by which a compound (e.g., an antibody) is immobilized on a polymeric matrix and used to bind selectively other compounds. Following removal of the unattached components, the bound compound is displaced by changing the concentration of protons, salts, or cofactors in the eluent" (from original definition by TAIR:TED). Types of highly specific interaction might include those of antigen and antibody, enzyme and substrate, or receptor and ligand.</comment>
<synonym scope="related">
<synonym_text>IDA: affinity chromatography</synonym_text>
</synonym>
<is_a>ECO:0000023</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000080</id>
<name>phylogenetic evidence</name>
<def>
<defstr>A type of similarity that indicates common ancestry.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
<dbxref>
<acc>IP</acc>
<dbname>PhenoScape</dbname>
</dbxref>
</def>
<synonym scope="exact">
<synonym_text>IP</synonym_text>
<dbxref>
<acc>IP</acc>
<dbname>PhenoScape</dbname>
</dbxref>
</synonym>
<is_a>ECO:0000041</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000081</id>
<name>targeting sequence prediction evidence</name>
<def>
<defstr>Used when a component annotation is made based on the presence of a targeting sequence in a protein's primary sequence. The presence of the targeting sequence may be detected by computational prediction and/or the author's manual examination of the sequence.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>ISS: targeting sequence prediction</synonym_text>
</synonym>
<is_a>ECO:0000028</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000082</id>
<name>polymerase chain reaction evidence</name>
<synonym scope="exact">
<synonym_text>PCR evidence</synonym_text>
</synonym>
<is_a>ECO:0000073</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000083</id>
<name>transmembrane domain prediction evidence</name>
<def>
<defstr>Used when a component annotation is made based on the presence of one or more transmembrane domains in a protein's primary sequence. The presence of the transmembrane domains may be detected by computational prediction and/or the author's manual examination of the sequence.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>ISS: transmembrane domain prediction</synonym_text>
</synonym>
<is_a>ECO:0000028</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000084</id>
<name>gene neighbors evidence</name>
<def>
<defstr>Evidence that supports the identity of a gene product on the basis of the identity of neighboring genes.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
<dbxref>
<acc>mg</acc>
<dbname>GOC</dbname>
</dbxref>
</def>
<comment>Genomic cluster analyses include synteny and operon structure.</comment>
<synonym scope="related">
<synonym_text>ICL</synonym_text>
</synonym>
<synonym scope="exact">
<synonym_text>inferred from genome cluster</synonym_text>
</synonym>
<xref_analog>
<acc>0000025</acc>
<dbname>GO_REF</dbname>
<name>Operon structure as IGC evidence</name>
</xref_analog>
<is_a>ECO:0000177</is_a>
<created_by>mgiglio</created_by>
<creation_date>2009-03-20T11:55:18Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000085</id>
<name>immunoprecipitation evidence</name>
<def>
<defstr>Used when an annotation is made based on a method that precipitates a multivalent antigen by a bivalent antibody.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IDA: immunoprecipitation</synonym_text>
</synonym>
<is_a>ECO:0000040</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000086</id>
<name>intermethylated site amplification evidence</name>
<is_a>ECO:0000073</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000087</id>
<name>immunolocalization evidence</name>
<def>
<defstr>Used when an annotation is made based on methods that detect the presence of macromolecules, proteins, and compounds by the use of antibodies.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IDA: immunolocalization</synonym_text>
</synonym>
<is_a>ECO:0000040</is_a>
<is_a>ECO:0000122</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000088</id>
<name>biological system reconstruction</name>
<def>
<defstr>Evidence based on reconstruction of a biological system that is based on an existing experimentally supported model of that biological system.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
<dbxref>
<acc>mg</acc>
<dbname>GOC</dbname>
</dbxref>
</def>
<comment>The biological system in question might be a multi-step process or a physical complex comprising several components. A common basis for system reconstruction is orthology, where all of the components of an experimentally characterized complex exist in one organism; if a second organism contains orthologs of all components, then the existence of the complex is inferred. In the case of a genome-wide analysis, a gene product is said to fulfill a necessary function for a pathway or complex when, with all of the other necessary functions or components also present, the pathway or complex is reconstructed.</comment>
<synonym scope="related">
<synonym_text>inferred from system reconstruction</synonym_text>
</synonym>
<synonym scope="related">
<synonym_text>ISR</synonym_text>
</synonym>
<is_a>ECO:0000000</is_a>
<created_by>mgiglio</created_by>
<creation_date>2009-03-20T12:00:17Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000089</id>
<name>restriction landmark genomic scanning evidence</name>
<synonym scope="exact">
<synonym_text>RLGS evidence</synonym_text>
</synonym>
<is_a>ECO:0000073</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000090</id>
<name>immunogold labelling evidence</name>
<def>
<defstr>Used when an annotation is made based on immunolocalization method that detects an antigen in cytological preparations by using a gold-labeled secondary antibody.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IDA: immunogold labelling</synonym_text>
</synonym>
<is_a>ECO:0000040</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000092</id>
<name>epitope-tagged protein immunolocalization evidence</name>
<def>
<defstr>Used when an annotation is made based on immunolocalization of recombinant proteins fused with epitopes that are recognized by antibodies.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IDA: immunolocalization of epitope-tagged protein</synonym_text>
</synonym>
<is_a>ECO:0000087</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000093</id>
<name>oligonucleotide microarray evidence</name>
<is_a>ECO:0000055</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000094</id>
<name>biological assay evidence</name>
<def>
<defstr>Direct assay evidence that is derived by using a living organism to measure the effect of a substance, factor, or condition.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IDA: bioassay</synonym_text>
</synonym>
<is_a>ECO:0000002</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000096</id>
<name>electrophoretic mobility shift assay evidence</name>
<def>
<defstr>Used when an annotation is made based on electrophoretic mobility shift of macromolecules, compounds, and proteins. Most commonly used for detecting the binding of protein to DNA.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IDA: electrophoretic mobility shift assay</synonym_text>
</synonym>
<is_a>ECO:0000002</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000097</id>
<name>cDNA microarray evidence</name>
<is_a>ECO:0000055</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000098</id>
<name>in situ hybridization evidence</name>
<def>
<defstr>Used when an annotation is made based on a method that hybridizes a labeled nucleic acid probe to a tissue or cell specimen in which the cellular structures are still intact. Depending on the label and protocol used, the probe may detect complementary DNA or RNA by hybridizing specifically to that gene or sequence.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IDA: in situ hybridization</synonym_text>
</synonym>
<is_a>ECO:0000026</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000100</id>
<name>fractionation evidence</name>
<is_a>ECO:0000002</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000101</id>
<name>Affymetrix array experiment evidence</name>
<is_a>ECO:0000055</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000102</id>
<name>co-fractionation evidence</name>
<def>
<defstr>Used when an annotation is made based on fractionation of a protein with other compounds, factors, or macromolecules.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IDA: co-fractionation</synonym_text>
</synonym>
<is_a>ECO:0000100</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000104</id>
<name>microarray RNA expression level evidence</name>
<def>
<defstr>Used when an annotation is made based on levels of RNA expression determined by microarray experiment.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IEP: transcript levels (e.g. microarray data)</synonym_text>
</synonym>
<is_a>ECO:0000048</is_a>
<is_a>ECO:0000058</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000105</id>
<name>Nimblegen array evidence</name>
<is_a>ECO:0000055</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000106</id>
<name>Northern assay evidence</name>
<def>
<defstr>Used when an annotation is made based on levels of RNA expression determined by a Northern blot experiment.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IEP: transcript levels (e.g. Northerns)</synonym_text>
</synonym>
<is_a>ECO:0000048</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000108</id>
<name>reverse transcription polymerase chain reaction transcription evidence</name>
<def>
<defstr>Used when an annotation is made based on levels of RNA expression determined by an RT-PCR experiment (quantitative or otherwise).</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IEP: transcript levels (e.g. RT-PCR)</synonym_text>
</synonym>
<synonym scope="exact">
<synonym_text>RT-PCR transcription evidence</synonym_text>
</synonym>
<is_a>ECO:0000048</is_a>
<is_a>ECO:0000109</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000109</id>
<name>reverse transcription polymerase chain reaction evidence</name>
<synonym scope="exact">
<synonym_text>RT-PCR evidence</synonym_text>
</synonym>
<is_a>ECO:0000082</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000110</id>
<name>RNA protection assay evidence</name>
<def>
<defstr>Used when an annotation is made based on levels of RNA expression determined by an RNA protection assay.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IEP: RNA protection assay</synonym_text>
</synonym>
<is_a>ECO:0000009</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000112</id>
<name>Western blot evidence</name>
<def>
<defstr>Used when an annotation is made based on levels of protein expression determined by a Western blot assay.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IEP: protein levels (e.g. Western blots)</synonym_text>
</synonym>
<is_a>ECO:0000046</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000114</id>
<name>expression library screen evidence</name>
<def>
<defstr>Used when an annotation is made on the basis of a protein expression library screen where a protein of interest is isolated on the basis of its hybridization to an antibody raised to a homologous protein.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IEP: expression library screening</synonym_text>
</synonym>
<is_a>ECO:0000010</is_a>
<is_a>ECO:0000040</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000116</id>
<name>differential hybridization evidence</name>
<def>
<defstr>Used when an annotation is made based on results of a differential hybridization experiment that demonstrates expression of an RNA under one condition and not another.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IEP: differential hybridization</synonym_text>
</synonym>
<is_a>ECO:0000009</is_a>
<is_a>ECO:0000026</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000118</id>
<name>subtractive hybridization evidence</name>
<def>
<defstr>Used when an annotation is made based on results of a subtractive hybridization experiment that demonstrates expression of an RNA under one condition and not another.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IEP: subtractive hybridization</synonym_text>
</synonym>
<is_a>ECO:0000009</is_a>
<is_a>ECO:0000026</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000120</id>
<name>over expression analysis evidence</name>
<def>
<defstr>Used when an annotation is made based on the analysis of the phenotype of a wild-type or mutant transgenic organism that has been engineered to overexpress the gene product in question.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IMP: analysis of overexpression/ectopic expression phenotype</synonym_text>
</synonym>
<is_a>ECO:0000059</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000122</id>
<name>protein localization evidence</name>
<is_a>ECO:0000039</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000124</id>
<name>fusion protein localization evidence</name>
<is_a>ECO:0000122</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000126</id>
<name>green fluorescent protein fusion protein localization evidence</name>
<synonym scope="exact">
<synonym_text>GFP fusion protein localization evidence</synonym_text>
</synonym>
<synonym scope="related">
<synonym_text>IDA: localization of GFP/YFP fusion protein</synonym_text>
</synonym>
<is_a>ECO:0000124</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000128</id>
<name>yellow fluorescent protein fusion protein localization evidence</name>
<synonym scope="related">
<synonym_text>IDA: localization of GFP/YFP fusion protein</synonym_text>
</synonym>
<synonym scope="exact">
<synonym_text>YFP fusion protein localization evidence</synonym_text>
</synonym>
<is_a>ECO:0000124</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000130</id>
<name>beta-glucuronidase fusion protein localization evidence</name>
<synonym scope="exact">
<synonym_text>GUS fusion protein localization evidence</synonym_text>
</synonym>
<synonym scope="narrow">
<synonym_text>GUS staining evidence</synonym_text>
</synonym>
<synonym scope="related">
<synonym_text>IDA: localization of GUS fusion protein</synonym_text>
</synonym>
<is_a>ECO:0000124</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000132</id>
<name>beta-galactosidase fusion protein localization evidence</name>
<synonym scope="exact">
<synonym_text>LacZ fusion protein localization evidence</synonym_text>
</synonym>
<is_a>ECO:0000124</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000134</id>
<name>transport assay evidence</name>
<synonym scope="related">
<synonym_text>IDA: transport assay</synonym_text>
</synonym>
<is_a>ECO:0000002</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000136</id>
<name>nucleic acid binding evidence</name>
<is_a>ECO:0000023</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000138</id>
<name>ribohomopolymer binding assay evidence</name>
<synonym scope="related">
<synonym_text>IDA: ribohomopolymer binding assay</synonym_text>
</synonym>
<is_a>ECO:0000136</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000140</id>
<name>thin layer chromatography evidence</name>
<def>
<defstr>A type of chromatography evidence that uses a thin layer of adsorbent (such as silica gel, alumina, or cellulose) on a flat, inert substrate.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IDA: thin layer chromatography</synonym_text>
</synonym>
<synonym scope="exact">
<synonym_text>TLC evidence</synonym_text>
</synonym>
<is_a>ECO:0000325</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000142</id>
<name>protein:ion binding evidence</name>
<is_a>ECO:0000024</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000144</id>
<name>Southwestern blot evidence</name>
<def>
<defstr>Used when an annotation is made based on a Southwestern blot analysis, which detects DNA binding of proteins using labeled DNA as probe hybridizing to electrophoretically separated proteins.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IDA: Southwestern analysis</synonym_text>
</synonym>
<is_a>ECO:0000136</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000146</id>
<name>Northwestern blot evidence</name>
<def>
<defstr>Used when an annotation is made based on a Northwestern blot analysis, which detects RNA binding of proteins using labeled RNA as probe hybridizing to electrophoretically separated proteins.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IDA: Northwestern analysis</synonym_text>
</synonym>
<is_a>ECO:0000136</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000148</id>
<name>in vitro binding evidence</name>
<synonym scope="related">
<synonym_text>IDA: in vitro binding assay</synonym_text>
</synonym>
<is_a>ECO:0000021</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000150</id>
<name>in vitro transcription reconstitution assay evidence</name>
<synonym scope="related">
<synonym_text>IDA: in vitro reconstitution assay with recombinant protein</synonym_text>
</synonym>
<is_a>ECO:0000003</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000152</id>
<name>in vitro recombinant protein transcription reconstitution assay evidence</name>
<synonym scope="related">
<synonym_text>IDA: in vitro reconstitution assay with recombinant protein</synonym_text>
</synonym>
<is_a>ECO:0000150</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000154</id>
<name>heterologous protein expression evidence</name>
<synonym scope="related">
<synonym_text>IDA: protein expression in heterologous system</synonym_text>
</synonym>
<is_a>ECO:0000010</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000156</id>
<name>protein separation evidence</name>
<is_a>ECO:0000100</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000158</id>
<name>protein separation followed by direct sequencing evidence</name>
<synonym scope="related">
<synonym_text>IDA: protein separation and direct sequencing</synonym_text>
</synonym>
<is_a>ECO:0000156</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000160</id>
<name>protein separation followed by fragment identification evidence</name>
<synonym scope="related">
<synonym_text>IDA: protein separation and fragment identification</synonym_text>
</synonym>
<is_a>ECO:0000156</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000162</id>
<name>heterologous system uptake evidence</name>
<def>
<defstr>Used when an annotation is made based on small molecule update assays carried out in a heterologous system that contains a recombinant protein.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IDA: uptake assay in heterologous system</synonym_text>
</synonym>
<is_a>ECO:0000134</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000164</id>
<name>electrophysiology assay evidence</name>
<is_a>ECO:0000002</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000166</id>
<name>two-electrode voltage clamp experiment evidence</name>
<synonym scope="related">
<synonym_text>IDA: two-electrode voltage clamp technique</synonym_text>
</synonym>
<is_a>ECO:0000164</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000168</id>
<name>transcription assay</name>
<is_a>ECO:0000002</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000170</id>
<name>transcriptional activation assay</name>
<def>
<defstr>Used when an annotation is made based on assays that show transcriptional activation of a specific target reporter gene.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IDA: transcriptional activation assay</synonym_text>
</synonym>
<is_a>ECO:0000168</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000172</id>
<name>biochemical trait analysis evidence</name>
<def>
<defstr>Used when an annotation is made based on the analysis of a biochemical aspect of a mutant phenotype; for example, the accumulation of a biosynthetic intermediate.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IMP: analysis of biochemical trait</synonym_text>
</synonym>
<is_a>ECO:0000059</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000174</id>
<name>mutant physiological response evidence</name>
<def>
<defstr>Used when an annotation is made based on the physiological response of a mutant to an external stimulus; for example, abnormal growth of the root in response to gravity, delay in flowering in response to varying light conditions.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IMP: analysis of physiological response</synonym_text>
</synonym>
<is_a>ECO:0000059</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000176</id>
<name>mutant visible phenotype evidence</name>
<def>
<defstr>Used when an annotation is made based on the visual examination of a mutant phenotype; for example, abnormalities in organism morphology.</defstr>
<dbxref>
<acc>TED</acc>
<dbname>TAIR</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IMP: analysis of visible trait</synonym_text>
</synonym>
<is_a>ECO:0000059</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000177</id>
<name>genomic context evidence</name>
<def>
<defstr>An evidence type that is based on the location of a gene, which gives rise to a gene product, within the genome.</defstr>
<dbxref>
<acc>go</acc>
<dbname>ECO</dbname>
</dbxref>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>This type of evidence might include identity of neighboring genes, operon structure, synteny, phylogenetic analysis, or other whole-genome analysis.</comment>
<is_a>ECO:0000000</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000178</id>
<name>in vivo assay evidence</name>
<is_a>ECO:0000094</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000179</id>
<name>animal model system study evidence</name>
<def>
<defstr>A type of experimental evidence arising from the investigation of an animal model system.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000006</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000180</id>
<name>clinical study evidence</name>
<def>
<defstr>A type of experimental evidence arising from a controlled investigation that uses human subjects.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000006</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000181</id>
<name>in vitro assay evidence</name>
<is_a>ECO:0000094</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000182</id>
<name>in vitro culture assay evidence</name>
<synonym scope="related">
<synonym_text>ex vivo assay</synonym_text>
</synonym>
<is_a>ECO:0000094</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000183</id>
<name>cell-free assay evidence</name>
<synonym scope="broad">
<synonym_text>in vitro assay</synonym_text>
</synonym>
<is_a>ECO:0000181</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000184</id>
<name>enzyme inhibition experiment evidence</name>
<is_a>ECO:0000005</is_a>
<is_a>ECO:0000020</is_a>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000200</id>
<name>sequence alignment evidence</name>
<alt_id>ECO:00000057</alt_id>
<def>
<defstr>Used when a sequence alignment is the basis for making an annotation, but only when the alignment has been manually reviewed; or if the information is in a published paper, the authors have manually reviewed the evidence. Such alignments may be pairwise alignments or multiple alignments. BLAST produces pairwise alignments and any annotations based solely on the evaluation of BLAST results should use this code.</defstr>
<dbxref>
<acc>http://www.geneontology.org/GO.evidence.shtml</acc>
<dbname>url</dbname>
</dbxref>
</def>
<synonym scope="exact">
<synonym_text>inferred from sequence alignment</synonym_text>
<dbxref>
<acc>ISA</acc>
<dbname>GO</dbname>
</dbxref>
</synonym>
<synonym scope="exact">
<synonym_text>ISA</synonym_text>
<dbxref>
<acc>ISA</acc>
<dbname>GO</dbname>
</dbxref>
</synonym>
<is_a>ECO:0000044</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-03-18T12:21:31Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000201</id>
<name>sequence orthology evidence</name>
<alt_id>ECO:00000060</alt_id>
<def>
<defstr>Orthology is a relationship between genes in different species indicating that the genes derive from a common ancestor. Orthology is established by multiple criteria generally including amino acid and/or nucleotide sequence comparisons and one or more of the following: phylogenetic analysis, coincident expression, conserved map location, functional complementation, immunological cross-reaction, similarity in subcellular localization, subunit structure, substrate specificity, and response to specific inhibitors.</defstr>
<dbxref>
<acc>http://www.geneontology.org/GO.evidence.shtml</acc>
<dbname>url</dbname>
</dbxref>
</def>
<synonym scope="exact">
<synonym_text>inferred from sequence orthology</synonym_text>
<dbxref>
<acc>ISO</acc>
<dbname>GO</dbname>
</dbxref>
</synonym>
<synonym scope="exact">
<synonym_text>ISO</synonym_text>
<dbxref>
<acc>ISO</acc>
<dbname>GO</dbname>
</dbxref>
</synonym>
<synonym scope="related">
<synonym_text>ortholog evidence</synonym_text>
</synonym>
<is_a>ECO:0000044</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-03-18T12:30:06Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000202</id>
<name>match to sequence model evidence</name>
<alt_id>ECO:00000063</alt_id>
<def>
<defstr>Sequence similarity evidence that is based on a sequence-based statistical model that predicts the function of a gene product.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
<dbxref>
<acc>http://www.geneontology.org/GO.evidence.shtml</acc>
<dbname>url</dbname>
</dbxref>
</def>
<comment>Used when evidence from any kind of statistical model of a sequence or group of sequences is used to make a prediction about the function of a protein or RNA. Examples of relevant evidence are: Hidden Markov Models, PROSITE motifs, and tools such as tRNASCAN.</comment>
<synonym scope="exact">
<synonym_text>inferred from sequence model</synonym_text>
<dbxref>
<acc>ISM</acc>
<dbname>GO</dbname>
</dbxref>
</synonym>
<synonym scope="exact">
<synonym_text>ISM</synonym_text>
<dbxref>
<acc>ISM</acc>
<dbname>GO</dbname>
</dbxref>
</synonym>
<is_a>ECO:0000044</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-03-18T12:32:30Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000203</id>
<name>automatic assertion</name>
<alt_id>ECO:00000067</alt_id>
<def>
<defstr>An assertion method that does not involve human review.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>An automatic assertion is based on computationally generated information that is not reviewed by a person prior to making the assertion. For example, one common type of automatic assertion involves creating an association of evidence with an entity based on commonness of attributes of that entity and another entity for which an assertion already exists. The commonness is determined algorithmically.</comment>
<synonym scope="exact">
<synonym_text>IEA</synonym_text>
<dbxref>
<acc>IEA</acc>
<dbname>GOECO</dbname>
</dbxref>
</synonym>
<synonym scope="exact">
<synonym_text>inferred from electronic annotation</synonym_text>
<dbxref>
<acc>IEA</acc>
<dbname>GOECO</dbname>
</dbxref>
</synonym>
<xref_analog>
<acc>0000004</acc>
<dbname>GO_REF</dbname>
<name>Gene Ontology annotation based on Swiss-Prot keyword mapping.</name>
</xref_analog>
<xref_analog>
<acc>0000023</acc>
<dbname>GO_REF</dbname>
<name>Gene Ontology annotation based on Swiss-Prot Subcellular Location vocabulary mapping.</name>
</xref_analog>
<xref_analog>
<acc>IEA</acc>
<dbname>GOECO</dbname>
<name>inferred from electronic annotation</name>
</xref_analog>
<is_a>ECO:0000217</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-03-18T12:36:04Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000204</id>
<name>author statement</name>
<def>
<defstr>An evidence type that is based on an assertion by the author of a paper, which is read by a curator.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000000</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-06-21T11:17:21Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000205</id>
<name>curator inference</name>
<def>
<defstr>An evidence type that is based on conclusions drawn by a curator.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000000</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-08-18T05:55:12Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000206</id>
<name>BLAST evidence</name>
<def>
<defstr>A type of sequence alignment evidence obtained with basic local alignment search tool (BLAST).</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000200</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-08-06T04:48:24Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000207</id>
<name>nucleotide BLAST evidence</name>
<def>
<defstr>BLAST evidence from aligning nucleotide sequence with nucleotide sequence.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000206</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-08-06T04:49:58Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000208</id>
<name>protein BLAST evidence</name>
<def>
<defstr>BLAST evidence from aligning amino acid or translated nucleotide sequence with amino acid or translated nucleotide sequence.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000206</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-08-06T04:50:45Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000209</id>
<name>BLAST evidence used in automatic assertion</name>
<def>
<defstr>A type of BLAST evidence that is used in an automatic assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000206</is_a>
<intersection_of>
<to>ECO:0000206</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000203</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-08-06T04:55:21Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000210</id>
<name>nucleotide BLAST evidence used in automatic assertion</name>
<def>
<defstr>Nucleotide BLAST evidence that is used in an automatic assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000207</is_a>
<intersection_of>
<to>ECO:0000207</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000203</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-08-06T05:09:51Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000211</id>
<name>protein BLAST evidence used in automatic assertion</name>
<def>
<defstr>Protein BLAST evidence that is used in an automatic assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000208</is_a>
<intersection_of>
<to>ECO:0000208</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000203</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-08-06T05:11:04Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000212</id>
<name>combinatorial evidence</name>
<alt_id>ECO:0000036</alt_id>
<alt_id>ECO:0000043</alt_id>
<def>
<defstr>A type of evidence that arises out of the integration of more than one line of evidence.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>A key aspect of this type of evidence is that two or more pieces of information are combined to generate an emergent type of evidence not possible with the constituent pieces of evidence alone. A combinatorial analysis typically involves incorporation of different types of evidence.</comment>
<synonym scope="related">
<synonym_text>inferred from in-silico analysis</synonym_text>
</synonym>
<is_a>ECO:0000000</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-08-06T05:24:57Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000213</id>
<name>combinatorial evidence used in automatic assertion</name>
<def>
<defstr>A type of combinatorial analysis that is used in an automatic assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>Combinatorial analyses could include experimental or computational results. Examples include: (i) large-scale experiment such as a genome-wide two-hybrid or genome-wide synthetic interactions; (ii) integration of large-scale data sets of various types; and (iii) text-based-computation, e.g. text-mining. For simple sequence comparisons, one should use the sequence similarity analysis evidence type. For microarray results alone, expression pattern analysis is appropriate; whereas, large-scale computational analysis should be used when microarray results are combined with the results of other types of large-scale experiments.</comment>
<is_a>ECO:0000212</is_a>
<intersection_of>
<to>ECO:0000212</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000203</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-08-06T05:28:33Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000214</id>
<name>biological aspect of descendant evidence</name>
<def>
<defstr>A type of phylogenetic evidence whereby an aspect of an ancestral gene is inferred through the characterization of an aspect of a descendant gene.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>This type of evidence can be used in support of both positive and "not" GO annotations. It should be used to annotate ancestral genes but not extant ones.</comment>
<is_a>ECO:0000080</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-10-05T11:16:50Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000215</id>
<name>rapid divergence from ancestral sequence evidence</name>
<def>
<defstr>A type of phylogenetic evidence characterized by long phylogenetic tree branch lengths following a duplication event.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>Long branch lengths indicate that descendant sequences may have acquired different or additional functions than the ancestral sequence.</comment>
<is_a>ECO:0000080</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-10-05T03:41:34Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000216</id>
<name>phylogenetic determination of loss of key residues evidence</name>
<def>
<defstr>A type of phylogenetic evidence characterized by the absence of key sequence residues.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>The loss of certain residues important for function can indicate that a sequence lacks a particular function.</comment>
<is_a>ECO:0000080</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-10-05T03:43:17Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000217</id>
<name>assertion method</name>
<def>
<defstr>A means by which a statement is made about an entity.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<created_by>mchibucos</created_by>
<creation_date>2010-11-12T04:17:37Z</creation_date>
<namespace>evidence_code2.obo</namespace>
<is_root>1</is_root>
</term>
<term>
<id>ECO:0000218</id>
<name>manual assertion</name>
<def>
<defstr>An assertion method that involves human review.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>A manual assertion could be based on evidence that is generated by and interpreted by a human or it could involve human review of computationally generated information.</comment>
<is_a>ECO:0000217</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-11-12T04:20:02Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000219</id>
<name>nucleotide sequencing assay evidence</name>
<def>
<defstr>A sequencing assay result for a biopolymer that comprises nucleotides.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>DNA sequencing</synonym_text>
<dbxref>
<acc>0000626</acc>
<dbname>OBI</dbname>
</dbxref>
</synonym>
<is_a>ECO:0000220</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-11-15T12:22:40Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000220</id>
<name>sequencing assay evidence</name>
<def>
<defstr>A type of experimental evidence where the order of molecules that constitute a biopolymer is determined.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
<dbxref>
<acc>0600047</acc>
<dbname>OBI</dbname>
</dbxref>
</def>
<is_a>ECO:0000006</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-11-15T01:44:45Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000221</id>
<name>high throughput nucleotide sequencing assay evidence</name>
<def>
<defstr>A nucleotide sequencing assay result that is derived from a parallelized sequencing technique.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>Typically thousands to millions of reads are produced in parallel.</comment>
<is_a>ECO:0000219</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-11-15T02:19:34Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000222</id>
<name>Illumina sequencing evidence</name>
<def>
<defstr>A high throughput nucleotide sequencing result derived by Illumina (Solexa) sequencing technology.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>In Illumina sequencing technology, adapters are ligated onto the ends of randomly fragmented DNA. After single-stranded fragments are bound to the inside surface of a flow cell channel, they undergo in-place bridge PCR amplification. To begin the sequencing cycle, labeled reversible terminators, primers and DNA polymerase are added, followed by laser excitation of the fluorescent label and high resolution scanning. After non-incorporated nucleotides are washed away and the dye is chemically removed, the next cycle repeats with four labeled reversible terminators, primers and DNA polymerase, again followed by imaging.</comment>
<synonym scope="related">
<synonym_text>Solexa sequencing result</synonym_text>
<dbxref>
<acc>0000724</acc>
<dbname>OBI</dbname>
</dbxref>
</synonym>
<is_a>ECO:0000221</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-11-15T02:38:03Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000223</id>
<name>454 pyrosequencing evidence</name>
<def>
<defstr>A high throughput nucleotide sequencing result derived by 454 pyrosequencing technology.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>454 pyrosequencing technology amplifies individual DNA fragments inside water droplets within an oil solution (emulsion PCR). Within each droplet, a single DNA template is attached to a single primer-coated bead. Each bead is subsequently captured in a picolitre well within the sequencing machine. A luciferase-based readout system is used to identify individual nucleotides added to the nascent DNA.</comment>
<synonym scope="broad">
<synonym_text>pyrosequencing</synonym_text>
<dbxref>
<acc>0000730</acc>
<dbname>OBI</dbname>
</dbxref>
</synonym>
<is_a>ECO:0000221</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-11-15T03:50:14Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000224</id>
<name>SOLiD sequencing evidence</name>
<def>
<defstr>A high throughput nucleotide sequencing result derived by SOLiD sequencing technology.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
<dbxref>
<acc>0000706</acc>
<dbname>OBI</dbname>
</dbxref>
</def>
<comment>SOLiD sequencing technology is based on sequencing by ligation. After library preparation, emulsion PCR and bead enrichment are performed, including 3' modification of templates on selected beads to allow covalent bonding to a slide. 3' modified beads are attached to a glass slide and primers are added. Four fluorescently labeled di-base probes are added and multiple cycles of ligation, detection and cleavage are performed. The number of cycles determines read length. After a number of ligation cycles, the extension product is removed and another round of ligation cycles is performed with a new primer complimentary to the n-1 position of the template. Five rounds of primer reset are performed for each sequence tag.</comment>
<is_a>ECO:0000221</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-11-15T04:17:41Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000225</id>
<name>chain termination sequencing evidence</name>
<def>
<defstr>A nucleotide sequencing assay result derived by the chain termination sequencing method.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
<dbxref>
<acc>0000695</acc>
<dbname>OBI</dbname>
</dbxref>
</def>
<comment>Chain termination sequencing, also called Sanger sequencing after its developer, uses dideoxynucleotide triphosphates (ddNTPs) as DNA chain terminators. Single-stranded DNA template, DNA primer, DNA polymerase, fluorescently or radioactively labeled nucleotides, and one of four ddNTPs are added together in each of four separate sequencing reactions. The synthesized and labeled DNA fragments from each of the four reactions are denatured, separated by size by gel electrophoresis, and visualized by autoradiography or UV light.</comment>
<synonym scope="exact">
<synonym_text>dye terminator sequencing</synonym_text>
</synonym>
<synonym scope="exact">
<synonym_text>Sanger sequencing</synonym_text>
</synonym>
<is_a>ECO:0000219</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-11-15T04:46:31Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000226</id>
<name>chromatin immunoprecipitation evidence</name>
<def>
<defstr>An immunoprecipitation experiment that is used to identify a protein binding site on a genomic DNA sequence.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>Chromatin immunoprecipitation (ChIP) is used to investigate protein-DNA interactions in vivo. DNA and proteins are chemically cross-linked in vivo to form chromatin complexes, followed by cell lysis and DNA shearing. Fragmented DNA-protein complexes are selectively enriched for a protein of interest using a specific antibody (immunoprecipitation). Protein digestion and DNA purification are performed prior to DNA detection via molecular cloning and sequencing, polymerase chain reaction (PCR), microarray analysis (ChIP-on-chip), or direct high-throughput sequencing (ChIP-seq).</comment>
<synonym scope="exact">
<synonym_text>ChIP evidence</synonym_text>
</synonym>
<is_a>ECO:0000085</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-11-16T01:29:08Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000227</id>
<name>chromatin immunoprecipitation-PCR evidence</name>
<def>
<defstr>A chromatin immunoprecipitation (ChIP) experiment that uses polymerase chain reaction (PCR) for DNA detection.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<synonym scope="exact">
<synonym_text>ChIP-PCR evidence</synonym_text>
</synonym>
<is_a>ECO:0000226</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-11-16T05:02:00Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000228</id>
<name>chromatin immunoprecipitation-qPCR evidence</name>
<def>
<defstr>A chromatin immunoprecipitation (ChIP) experiment that uses quantitative polymerase chain reaction (qPCR) for DNA detection.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<synonym scope="exact">
<synonym_text>ChIP-qPCR evidence</synonym_text>
</synonym>
<is_a>ECO:0000226</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-11-16T05:26:47Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000229</id>
<name>chromatin immunoprecipitation-seq evidence</name>
<def>
<defstr>A chromatin immunoprecipitation (ChIP) experiment that uses high-throughput sequencing for DNA detection.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
<dbxref>
<acc>0000716</acc>
<dbname>OBI</dbname>
</dbxref>
</def>
<synonym scope="exact">
<synonym_text>ChIP-seq evidence</synonym_text>
</synonym>
<synonym scope="exact">
<synonym_text>ChIP-SEQ evidence</synonym_text>
<dbxref>
<acc>0000716</acc>
<dbname>OBI</dbname>
</dbxref>
</synonym>
<is_a>ECO:0000226</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-11-16T05:30:41Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000230</id>
<name>chromatin immunoprecipitation-chip evidence</name>
<def>
<defstr>A chromatin immunoprecipitation (ChIP) experiment that uses a tiling microarray for DNA detection.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<synonym scope="exact">
<synonym_text>ChIP-chip evidence</synonym_text>
</synonym>
<synonym scope="exact">
<synonym_text>ChIP-on-chip evidence</synonym_text>
</synonym>
<is_a>ECO:0000226</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-11-16T05:43:55Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000231</id>
<name>quantitative polymerase chain reaction evidence</name>
<def>
<defstr>A polymerase chain reaction experiment where the reaction product is quantified in real-time across cycles by means of fluorescent dyes.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>Quantitative PCR enables both detection and quantification (as absolute number of copies or relative amount when normalized to DNA input or additional normalizing genes) of one or more specific sequences in a DNA sample.</comment>
<synonym scope="exact">
<synonym_text>Q-PCR evidence</synonym_text>
</synonym>
<synonym scope="exact">
<synonym_text>qRT-PCR evidence</synonym_text>
</synonym>
<synonym scope="exact">
<synonym_text>quantitative PCR evidence</synonym_text>
</synonym>
<synonym scope="exact">
<synonym_text>real-time PCR evidence</synonym_text>
</synonym>
<synonym scope="exact">
<synonym_text>real-time polymerase chain reaction evidence</synonym_text>
</synonym>
<is_a>ECO:0000082</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-11-16T05:57:20Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000232</id>
<name>chromosome conformation capture-based evidence</name>
<def>
<defstr>A type of experimental evidence that is based on a five-step technique of cross-linking DNA in vivo, restriction digestion, intramolecular ligation, reversing DNA cross-links, and DNA processing and quantitation.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>Chromosome conformation capture technologies are used to study the structural properties and spatial organization of chromosomes inside cells. All types of chromosome conformation capture technology involve five primary steps: cross-linking of DNA in vivo, restriction digestion, intramolecular ligation, reversing cross-linkages, and DNA enrichment and quantitation. The last step is different for each type of chromosome conformation capture technology, and may include PCR (3C), inverse PCR (4C), or ligation-mediated amplification (5C). Methods for product quantitation can include agarose gel detection or real-time quantitative PCR in the case of 3C, or high-throughput sequencing or microarray analysis for 4C and 5C.</comment>
<synonym scope="narrow">
<synonym_text>3C</synonym_text>
</synonym>
<synonym scope="narrow">
<synonym_text>chromosome conformation capture</synonym_text>
</synonym>
<is_a>ECO:0000073</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-11-17T12:27:14Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000233</id>
<name>chromosome conformation capture evidence</name>
<def>
<defstr>A type of chromosome conformation capture-based evidence that is derived by performing a type of polymerase chain reaction (PCR) in the final product quantitation step.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>3C is used to study the structural properties and spatial organization of chromosomes inside cells. Like other types of chromosome conformation capture technology, 3C differs only in the fifth step, which involves performing either standard polymerase chain reaction (PCR) or quantitative PCR (qPCR) for product quantitation.</comment>
<synonym scope="exact">
<synonym_text>3C</synonym_text>
</synonym>
<is_a>ECO:0000232</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-11-17T12:46:15Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000234</id>
<name>circularized chromosome conformation capture evidence</name>
<def>
<defstr>A type of chromosome conformation capture-based evidence that is derived by inverse polymerase chain reaction (inverse PCR) on a prior circularized 3C library followed by product quantitation with a microarray.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>4C is used to study the structural properties and spatial organization of chromosomes inside cells. Like other types of chromosome conformation capture technology, 4C differs only in the fifth step, which involves inverse polymerase chain reaction (inverse PCR) on a circularized 3C library prior to product quantitation.</comment>
<synonym scope="exact">
<synonym_text>4C</synonym_text>
</synonym>
<synonym scope="exact">
<synonym_text>chromosome conformation capture on chip</synonym_text>
</synonym>
<synonym scope="exact">
<synonym_text>circularized 3C</synonym_text>
</synonym>
<is_a>ECO:0000232</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-11-19T01:20:28Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000235</id>
<name>carbon-copy chromosome conformation capture evidence</name>
<def>
<defstr>A type of chromosome conformation capture-based evidence that is derived by performing ligation-mediated amplification (LMA) prior to product quantitation.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>5C is used to study the structural properties and spatial organization of chromosomes inside cells. Like other types of chromosome conformation capture technology, 5C differs only in the fifth step, which involves ligation-mediated amplification (LMA) followed by product quantitation.</comment>
<synonym scope="exact">
<synonym_text>5C</synonym_text>
</synonym>
<synonym scope="exact">
<synonym_text>carbon-copy 3C</synonym_text>
</synonym>
<is_a>ECO:0000232</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-11-19T01:22:20Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000236</id>
<name>chromosome conformation capture-PCR evidence</name>
<def>
<defstr>A type of chromosome conformation capture evidence that is derived by performing polymerase chain reaction (PCR) in the quantitation step.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<synonym scope="broad">
<synonym_text>3C</synonym_text>
</synonym>
<synonym scope="exact">
<synonym_text>3C-PCR</synonym_text>
</synonym>
<is_a>ECO:0000233</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-11-19T03:00:47Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000237</id>
<name>chromosome conformation capture-qPCR evidence</name>
<def>
<defstr>A type of chromosome conformation capture evidence that is derived by performing quantitative polymerase chain reaction (qPCR) in the quantitation step.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<synonym scope="exact">
<synonym_text>3C-qPCR</synonym_text>
</synonym>
<synonym scope="exact">
<synonym_text>3C-quantitative PCR</synonym_text>
</synonym>
<synonym scope="exact">
<synonym_text>3C-real-time PCR</synonym_text>
</synonym>
<is_a>ECO:0000233</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-11-19T03:06:47Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000238</id>
<name>Hi-C evidence</name>
<def>
<defstr>A type of chromosome conformation capture-based evidence that is derived by performing immunoprecipitation enrichment of ligated fragments events prior to product quantitation.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>Hi-C is used to study the structural properties and spatial organization of chromosomes inside cells. Hi-C is similar to other types of chromosome conformation capture technology, but involves the addition of biotinylated nucleotides during the second or fourth step and enrichment for ligated fragments using immunoprecipitation after the fourth step.</comment>
<is_a>ECO:0000232</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-11-19T04:24:03Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000239</id>
<name>chromosome conformation capture sequencing evidence</name>
<def>
<defstr>A type of chromosome conformation capture-based evidence that is derived by inverse polymerase chain reaction (inverse PCR) on a circularized 3C library prior to product quantitation with high-throughput (HT) sequencing.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>3C-seq is used to study the structural properties and spatial organization of chromosomes inside cells. Like other types of chromosome conformation capture technology, 3C-seq differs only in the fifth step, which involves inverse polymerase chain reaction (PCR) on a circularized 3C library prior to product quantitation.</comment>
<synonym scope="exact">
<synonym_text>3C sequencing</synonym_text>
</synonym>
<synonym scope="exact">
<synonym_text>3C-seq</synonym_text>
</synonym>
<synonym scope="exact">
<synonym_text>4C sequencing</synonym_text>
</synonym>
<synonym scope="exact">
<synonym_text>4C-seq</synonym_text>
</synonym>
<synonym scope="exact">
<synonym_text>circularized 3C sequencing</synonym_text>
</synonym>
<synonym scope="exact">
<synonym_text>circularized 3C-seq</synonym_text>
</synonym>
<is_a>ECO:0000232</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-11-30T03:22:25Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000240</id>
<name>anatomical perturbation evidence</name>
<def>
<defstr>Experimental phenotypic evidence where a structural feature of an organism is disrupted.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000059</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-12-06T12:24:16Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000241</id>
<name>environmental perturbation evidence</name>
<def>
<defstr>Experimental phenotypic evidence where the extra-organismal context of an organism is modified.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>Many environmental factors are subject to modification, such as temperature, pressure, humidity, radiation, and so forth.</comment>
<synonym scope="related">
<synonym_text>mechanical constraint evidence</synonym_text>
</synonym>
<is_a>ECO:0000059</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-12-06T12:33:58Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000242</id>
<name>tissue ablation evidence</name>
<def>
<defstr>A type of anatomical perturbation that is based on disruption of tissue.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>A tissue ablation experiment involves observing the phenotype of an entity whose tissues have been disrupted through genetic or biochemical manipulation, physical destruction, or some other means.</comment>
<synonym scope="exact">
<synonym_text>ablated tissue evidence</synonym_text>
</synonym>
<is_a>ECO:0000240</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-12-06T12:33:58Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000243</id>
<name>tissue grafting evidence</name>
<def>
<defstr>A type of anatomical perturbation that is based on adding tissue to an organism through a graft procedure.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000240</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-12-06T12:33:58Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000244</id>
<name>combinatorial evidence used in manual assertion</name>
<def>
<defstr>A type of combinatorial analysis that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>Combinatorial analyses could include experimental or computational results. Examples include: (i) large-scale experiment such as a genome-wide two-hybrid or genome-wide synthetic interactions; (ii) integration of large-scale data sets of various types; and (iii) text-based-computation, e.g. text-mining. For simple sequence comparisons, one should use the sequence similarity analysis evidence type. For microarray results alone, expression pattern analysis is appropriate; whereas, large-scale computational analysis should be used when microarray results are combined with the results of other types of large-scale experiments.</comment>
<is_a>ECO:0000212</is_a>
<intersection_of>
<to>ECO:0000212</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-09T02:02:12Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000245</id>
<name>computational combinatorial evidence used in manual assertion</name>
<def>
<defstr>A type of computational combinatorial analysis that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<synonym scope="exact">
<synonym_text>inferred from reviewed computational analysis</synonym_text>
<dbxref>
<acc>RCA</acc>
<dbname>GOECO</dbname>
</dbxref>
</synonym>
<synonym scope="exact">
<synonym_text>RCA</synonym_text>
<dbxref>
<acc>RCA</acc>
<dbname>GOECO</dbname>
</dbxref>
</synonym>
<xref_analog>
<acc>RCA</acc>
<dbname>GOECO</dbname>
<name>inferred from reviewed computational analysis</name>
</xref_analog>
<is_a>ECO:0000053</is_a>
<intersection_of>
<to>ECO:0000053</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-09T02:37:54Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000246</id>
<name>computational combinatorial evidence used in automatic assertion</name>
<def>
<defstr>A type of computational combinatorial analysis that is used in an automatic assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000053</is_a>
<intersection_of>
<to>ECO:0000053</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000203</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-09T02:37:54Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000247</id>
<name>sequence alignment evidence used in manual assertion</name>
<def>
<defstr>Sequence alignment evidence that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<synonym scope="exact">
<synonym_text>inferred from sequence alignment</synonym_text>
<dbxref>
<acc>ISA</acc>
<dbname>GOECO</dbname>
</dbxref>
</synonym>
<synonym scope="exact">
<synonym_text>ISA</synonym_text>
<dbxref>
<acc>ISA</acc>
<dbname>GOECO</dbname>
</dbxref>
</synonym>
<xref_analog>
<acc>ISA</acc>
<dbname>GOECO</dbname>
<name>inferred from sequence alignment</name>
</xref_analog>
<is_a>ECO:0000200</is_a>
<intersection_of>
<to>ECO:0000200</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-09T05:12:27Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000248</id>
<name>sequence alignment evidence used in automatic assertion</name>
<def>
<defstr>Sequence alignment evidence that is used in an automatic assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000200</is_a>
<intersection_of>
<to>ECO:0000200</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000203</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-09T05:12:27Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000249</id>
<name>sequence similarity evidence used in automatic assertion</name>
<def>
<defstr>Sequence similarity evidence that is used in an automatic assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000044</is_a>
<intersection_of>
<to>ECO:0000044</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000203</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-09T05:22:30Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000250</id>
<name>sequence similarity evidence used in manual assertion</name>
<def>
<defstr>Sequence similarity evidence that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<xref_analog>
<acc>ISS</acc>
<dbname>GOECO</dbname>
<name>inferred from sequence or structural similarity</name>
</xref_analog>
<is_a>ECO:0000044</is_a>
<intersection_of>
<to>ECO:0000044</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-09T05:22:30Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000251</id>
<name>similarity evidence used in automatic assertion</name>
<def>
<defstr>Similarity evidence that is used in an automatic assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000041</is_a>
<intersection_of>
<to>ECO:0000041</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000203</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-09T05:28:12Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000252</id>
<name>similarity evidence used in manual assertion</name>
<def>
<defstr>Similarity evidence that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000041</is_a>
<intersection_of>
<to>ECO:0000041</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-09T05:28:12Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000253</id>
<name>genetic similarity evidence used in manual assertion</name>
<def>
<defstr>Genetic similarity evidence that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000051</is_a>
<intersection_of>
<to>ECO:0000051</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-10T01:42:44Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000254</id>
<name>genetic similarity evidence used in automatic assertion</name>
<def>
<defstr>Genetic similarity evidence that is used in an automatic assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000051</is_a>
<intersection_of>
<to>ECO:0000051</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000203</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-10T01:42:44Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000255</id>
<name>match to sequence model evidence used in manual assertion</name>
<def>
<defstr>A match to sequence model evidence that is employed in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<xref_analog>
<acc>0000011</acc>
<dbname>GO_REF</dbname>
<name>Hidden Markov Models (TIGR)</name>
</xref_analog>
<xref_analog>
<acc>ISM</acc>
<dbname>GOECO</dbname>
<name>inferred from sequence model</name>
</xref_analog>
<is_a>ECO:0000202</is_a>
<intersection_of>
<to>ECO:0000202</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-10T02:26:35Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000256</id>
<name>match to sequence model evidence used in automatic assertion</name>
<def>
<defstr>A match to sequence model evidence that is employed in an automatic assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<xref_analog>
<acc>0000002</acc>
<dbname>GO_REF</dbname>
<name>Gene Ontology annotation through association of InterPro records with GO terms.</name>
</xref_analog>
<xref_analog>
<acc>0000019</acc>
<dbname>GO_REF</dbname>
<name>Automatic transfer of experimentally verified manual GO annotation data to orthologs using Ensembl Compara</name>
</xref_analog>
<is_a>ECO:0000202</is_a>
<intersection_of>
<to>ECO:0000202</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000203</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-10T02:26:35Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000257</id>
<name>motif similarity evidence used in manual assertion</name>
<def>
<defstr>Motif similarity evidence that is employed in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000028</is_a>
<intersection_of>
<to>ECO:0000028</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-10T02:44:34Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000258</id>
<name>motif similarity evidence used in automatic assertion</name>
<def>
<defstr>Motif similarity evidence that is employed in an automatic assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000028</is_a>
<intersection_of>
<to>ECO:0000028</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000203</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-10T02:44:34Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000259</id>
<name>match to InterPro signature evidence used in automatic assertion</name>
<def>
<defstr>A match to InterPro signature evidence that is employed in an automatic assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000029</is_a>
<intersection_of>
<to>ECO:0000029</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000203</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-10T02:54:51Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000260</id>
<name>match to InterPro signature evidence used in manual assertion</name>
<def>
<defstr>A match to InterPro signature evidence that is employed in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000029</is_a>
<intersection_of>
<to>ECO:0000029</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-10T02:54:51Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000261</id>
<name>targeting sequence prediction evidence used in automatic assertion</name>
<def>
<defstr>A targeting sequence prediction that is employed in an automatic assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000081</is_a>
<intersection_of>
<to>ECO:0000081</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000203</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-10T03:02:49Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000262</id>
<name>targeting sequence prediction evidence used in manual assertion</name>
<def>
<defstr>A targeting sequence prediction that is employed in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000081</is_a>
<intersection_of>
<to>ECO:0000081</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-10T03:02:49Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000263</id>
<name>transmembrane domain prediction evidence used in automatic assertion</name>
<def>
<defstr>Transmembrane domain prediction that is employed in an automatic assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000083</is_a>
<intersection_of>
<to>ECO:0000083</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000203</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-10T03:28:35Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000264</id>
<name>transmembrane domain prediction evidence used in manual assertion</name>
<def>
<defstr>Transmembrane domain prediction that is employed in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000083</is_a>
<intersection_of>
<to>ECO:0000083</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-10T03:28:35Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000265</id>
<name>sequence orthology evidence used in automatic assertion</name>
<def>
<defstr>Sequence orthology evidence that is employed in an automatic assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>Ortholog evidence</synonym_text>
</synonym>
<xref_analog>
<acc>0000003</acc>
<dbname>GO_REF</dbname>
<name>Gene Ontology annotation based on Enzyme Commission mapping.</name>
</xref_analog>
<xref_analog>
<acc>0000019</acc>
<dbname>GO_REF</dbname>
<name>Automatic transfer of experimentally verified manual GO annotation data to orthologs using Ensembl Compara</name>
</xref_analog>
<xref_analog>
<acc>0000035</acc>
<dbname>GO_REF</dbname>
<name>Automatic transfer of experimentally verified manual GO annotation data to plant orthologs using Ensembl Compara</name>
</xref_analog>
<is_a>ECO:0000201</is_a>
<intersection_of>
<to>ECO:0000201</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000203</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-10T03:39:41Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000266</id>
<name>sequence orthology evidence used in manual assertion</name>
<def>
<defstr>Sequence orthology evidence that is employed in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>Ortholog evidence</synonym_text>
</synonym>
<xref_analog>
<acc>ISO</acc>
<dbname>GOECO</dbname>
<name>inferred from sequence orthology</name>
</xref_analog>
<is_a>ECO:0000201</is_a>
<intersection_of>
<to>ECO:0000201</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-10T03:39:41Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000267</id>
<name>enzyme-linked immunoabsorbent assay evidence</name>
<def>
<defstr>An immunological assay that binds an antigen to a substrate and utilizes an antibody directly or indirectly linked to an enzyme to determine the amount of bound antigen.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<synonym scope="exact">
<synonym_text>ELISA</synonym_text>
</synonym>
<synonym scope="exact">
<synonym_text>enzyme-linked immunosorbent assay</synonym_text>
</synonym>
<is_a>ECO:0000040</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-12-14T01:57:13Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000268</id>
<name>flow cytometry evidence</name>
<def>
<defstr>A direct assay that passes a stream of cells or particles past a light source, followed by using a detector to monitor light scatter or fluorochrome excitation to characterize the cells or particles.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<synonym scope="exact">
<synonym_text>FCM</synonym_text>
</synonym>
<is_a>ECO:0000002</is_a>
<created_by>mchibucos</created_by>
<creation_date>2010-12-14T02:07:08Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000269</id>
<name>experimental evidence used in manual assertion</name>
<def>
<defstr>A type of experimental evidence that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<xref_analog>
<acc>EXP</acc>
<dbname>GOECO</dbname>
<name>inferred from experiment</name>
</xref_analog>
<is_a>ECO:0000006</is_a>
<intersection_of>
<to>ECO:0000006</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-20T05:36:49Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000270</id>
<name>expression evidence used in manual assertion</name>
<def>
<defstr>A type of expression pattern evidence that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<xref_analog>
<acc>IEP</acc>
<dbname>GOECO</dbname>
<name>inferred from expression pattern</name>
</xref_analog>
<is_a>ECO:0000008</is_a>
<intersection_of>
<to>ECO:0000008</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-20T05:46:39Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000271</id>
<name>array experiment evidence used in manual assertion</name>
<def>
<defstr>A type of array experiment evidence that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000055</is_a>
<intersection_of>
<to>ECO:0000055</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-20T05:51:58Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000272</id>
<name>Affymetrix array experiment evidence used in manual assertion</name>
<def>
<defstr>A type of Affymetrix array experiment evidence that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000101</is_a>
<intersection_of>
<to>ECO:0000101</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-20T05:53:36Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000273</id>
<name>cDNA microarray evidence used in manual assertion</name>
<def>
<defstr>A type of evidence arising from a cDNA microarray experiment that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000097</is_a>
<intersection_of>
<to>ECO:0000097</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-20T05:55:49Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000274</id>
<name>CpG island microarray evidence used in manual assertion</name>
<def>
<defstr>A type of evidence arising from a CpG island microarray experiment that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000065</is_a>
<intersection_of>
<to>ECO:0000065</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-20T05:58:44Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000275</id>
<name>expression microarray evidence used in manual assertion</name>
<def>
<defstr>A type of expression microarray evidence that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000058</is_a>
<intersection_of>
<to>ECO:0000058</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-20T06:01:26Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000276</id>
<name>genomic microarray evidence used in manual assertion</name>
<def>
<defstr>A type of evidence arising from a genomic microarray experiment that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000062</is_a>
<intersection_of>
<to>ECO:0000062</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-20T06:03:28Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000277</id>
<name>Nimblegen array evidence used in manual assertion</name>
<def>
<defstr>A type of evidence arising from a Nimblegen array experiment that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000105</is_a>
<intersection_of>
<to>ECO:0000105</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-20T06:05:20Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000278</id>
<name>oligonucleotide microarray evidence used in manual assertion</name>
<def>
<defstr>A type of evidence arising from an oligonucleotide microarray experiment that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000093</is_a>
<intersection_of>
<to>ECO:0000093</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-20T06:09:45Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000279</id>
<name>Western blot evidence used in manual assertion</name>
<def>
<defstr>A type of Western blot assay that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000112</is_a>
<intersection_of>
<to>ECO:0000112</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-20T06:20:01Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000280</id>
<name>protein expression level evidence used in manual assertion</name>
<def>
<defstr>A type of protein expression level analysis that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000046</is_a>
<intersection_of>
<to>ECO:0000046</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-20T06:21:54Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000281</id>
<name>expression library screen evidence used in manual assertion</name>
<def>
<defstr>A type of expression library screen data that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000114</is_a>
<intersection_of>
<to>ECO:0000114</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-20T06:24:05Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000282</id>
<name>heterologous protein expression evidence used in manual assertion</name>
<def>
<defstr>A type of heterologous protein expression analysis that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000154</is_a>
<intersection_of>
<to>ECO:0000154</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-20T06:27:04Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000283</id>
<name>spatial pattern of protein expression evidence used in manual assertion</name>
<def>
<defstr>A type of protein expression spatial pattern analysis that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000045</is_a>
<intersection_of>
<to>ECO:0000045</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-20T06:31:44Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000284</id>
<name>protein expression evidence used in manual assertion</name>
<def>
<defstr>A type of protein expression analysis that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000010</is_a>
<intersection_of>
<to>ECO:0000010</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-20T06:33:46Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000285</id>
<name>microarray RNA expression level evidence used in manual assertion</name>
<def>
<defstr>A type of microarray RNA expression level data that is used in manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000104</is_a>
<intersection_of>
<to>ECO:0000104</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-20T06:41:33Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000286</id>
<name>transcript expression level used in manual assertion</name>
<def>
<defstr>A type of transcript expression level data that is used in manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000048</is_a>
<intersection_of>
<to>ECO:0000048</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-20T06:52:03Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000287</id>
<name>differential hybridization evidence used in manual assertion</name>
<def>
<defstr>A type of differential hybridization experiment that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000116</is_a>
<intersection_of>
<to>ECO:0000116</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-20T06:55:14Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000288</id>
<name>RNA protection assay evidence used in manual assertion</name>
<def>
<defstr>A type of RNA protection assay that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000110</is_a>
<intersection_of>
<to>ECO:0000110</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-20T06:57:33Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000289</id>
<name>spatial pattern of transcript expression evidence used in manual assertion</name>
<def>
<defstr>A type of spatial pattern of transcript expression analysis that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000047</is_a>
<intersection_of>
<to>ECO:0000047</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-20T06:59:18Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000290</id>
<name>subtractive hybridization evidence used in manual assertion</name>
<def>
<defstr>A type of subtractive hybridization experiment that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000118</is_a>
<intersection_of>
<to>ECO:0000118</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-20T07:00:48Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000291</id>
<name>transcript expression evidence used in manual assertion</name>
<def>
<defstr>A type of transcript expression evidence that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000009</is_a>
<intersection_of>
<to>ECO:0000009</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2010-12-20T07:02:08Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000292</id>
<name>morpholino experiment evidence</name>
<def>
<defstr>A type of experimental phenotypic evidence that uses anti-sense by introducing morpholino oligonucleotides into the cytosol of a cell.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>Morpholino oligonucleotides modify gene expression by blocking access of other molecules to specific, approximately 25-base-long regions of the base-pairing surfaces of ribonucleic acid (RNA). To achieve this anti-sense knockdown technique, delivery of the morpholino can be achieved via microinjection, electroporation, or another method.</comment>
<synonym scope="broad">
<synonym_text>anti-sense</synonym_text>
</synonym>
<is_a>ECO:0000059</is_a>
<created_by>mchibucos</created_by>
<creation_date>2011-01-10T03:36:25Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000293</id>
<name>systematic evolution of ligands by exponential amplification evidence</name>
<def>
<defstr>A type of evidence arising from a physical interaction analysis where a combinatorial chemistry technique is used to identify oligonucleotides that bind to a target ligand.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
<dbxref>
<acc>http://en.wikipedia.org/wiki/Systematic_Evolution_of_Ligands_by_Exponential_Enrichment</acc>
<dbname>url</dbname>
</dbxref>
</def>
<comment>SELEX begins with the synthesis of a large oligonucleotide library, either single-stranded DNA or RNA, which consists of random fixed-length sequences flanked by constant 5' and 3' ends that serve as primers. The library is exposed to a target ligand, typically a protein or small organic compound. Unbound sequences are removed, typically with affinity chromatography. Bound sequences are eluted and the nucleic acid is extracted, followed by PCR amplification (RNA is first reverse transcribed). PCR product is converted to single stranded (DNA) or transcribed (RNA). Oligonucleotides are bound to the ligand again and the process is repeated with increasing elution stringency. After several rounds of the process, recovered oligonucleotides are sequenced and analyzed to reveal the binding specificity of the protein.</comment>
<synonym scope="related">
<synonym_text>in vitro evolution evidence</synonym_text>
</synonym>
<synonym scope="exact">
<synonym_text>in vitro selection evidence</synonym_text>
</synonym>
<synonym scope="exact">
<synonym_text>SELEX evidence</synonym_text>
</synonym>
<is_a>ECO:0000021</is_a>
<created_by>mchibucos</created_by>
<creation_date>2011-01-10T04:23:50Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000294</id>
<name>bacterial one-hybrid evidence</name>
<def>
<defstr>A type of evidence arising from a hybrid interaction experiment that uses bacterial transformation with two plasmids to assess in vivo binding of a DNA-binding domain (bait) and DNA target site (prey).</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>Bacterial one-hybrid assay is a method for screening a library of candidate proteins (prey plasmid) for the ability to bind to a target, cis-regulatory element or any other short, DNA binding sequence placed 5' to reporter genes (bait plasmid). Transformation of a bacterial host with two different plasmids is required: One is designed to express the "bait". The other plasmid contains a "prey" which, if bound to by the chimeric fusion product, drives expression of downstream reporter genes.</comment>
<synonym scope="exact">
<synonym_text>B1H evidence</synonym_text>
</synonym>
<is_a>ECO:0000025</is_a>
<created_by>mchibucos</created_by>
<creation_date>2011-01-10T06:16:20Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000295</id>
<name>RNA-seq evidence</name>
<def>
<defstr>A type of transcript expression evidence based on high-throughput (HT) sequencing of fragmented cDNA molecules.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>Total RNA is isolated from cells and mRNA is purified by targeting the 3' polyadenylated (poly(A)) tail with poly(T) oligos covalently attached to a substrate. Next, cDNA fragments are generated either by hydrolysis of RNA into 200-300 base oligonucleotides, preceded by reverse transcription, or by reverse transcription initiated by random primers. The cDNA second strand is synthesized, fragments are adapter ligated and high-throughput sequencing is performed by Roche 454, Illumina, ABI-SOLiD, or another HT sequencing technology. Resulting sort reads are aligned against a reference genome, and downstream analysis is performed.</comment>
<synonym scope="related">
<synonym_text>RNA sequencing</synonym_text>
</synonym>
<synonym scope="exact">
<synonym_text>whole transcriptome shotgun sequencing</synonym_text>
<dbxref>
<acc>18611170</acc>
<dbname>PMID</dbname>
</dbxref>
</synonym>
<synonym scope="exact">
<synonym_text>WTSS</synonym_text>
</synonym>
<is_a>ECO:0000009</is_a>
<created_by>mchibucos</created_by>
<creation_date>2011-01-11T12:54:50Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000296</id>
<name>green fluorescent protein transcript localization evidence</name>
<def>
<defstr>A transcriptional activation assay that uses a green fluorescent protein (GFP) reporter gene.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>This term describes transcriptional activation; to describe immunolocalization of the protein, use the term "immunolocalization of green fluorescent protein".</comment>
<synonym scope="exact">
<synonym_text>localization of GFP transcript</synonym_text>
</synonym>
<is_a>ECO:0000170</is_a>
<created_by>mchibucos</created_by>
<creation_date>2011-01-11T02:31:19Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000297</id>
<name>LacZ transcript localization evidence</name>
<def>
<defstr>A transcriptional activation assay that uses a LacZ reporter gene.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>This term describes transcriptional activation; to describe immunolocalization of the protein, use the term "immunolocalization of LacZ protein".</comment>
<is_a>ECO:0000170</is_a>
<created_by>mchibucos</created_by>
<creation_date>2011-01-11T02:53:19Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000298</id>
<name>cleavage arrested development evidence</name>
<def>
<defstr>A type of experimental phenotypic evidence where embryonic development proceeds although cytokinesis is blocked.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>In the embryos of some organisms, inhibition of cytokinesis blocks neither the cell cycle nor the unfolding of the developmental program. As such, embryonic morphology can be frozen, allowing analysis of the developmental fate of each cell present at the time of cleavage arrest.</comment>
<is_a>ECO:0000059</is_a>
<created_by>mchibucos</created_by>
<creation_date>2011-01-11T03:28:49Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000299</id>
<name>cytochalasin experiment evidence</name>
<def>
<defstr>A type of cleavage arrested development that arises after treatment with cytochalasin.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>Cytochalasin inhibits cytokinesis by blocking the formation of contractile microfilaments.</comment>
<is_a>ECO:0000298</is_a>
<created_by>mchibucos</created_by>
<creation_date>2011-01-11T03:30:29Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000300</id>
<name>green fluorescent protein immunolocalization evidence</name>
<def>
<defstr>A type of immunolocalization experiment data that was generated using green fluorescent protein (GFP) as a marker.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>This term describes immunolocalization of the protein; to describe transcriptional activation, use the term "localization of green fluorescent protein transcript".</comment>
<synonym scope="exact">
<synonym_text>GFP immunolocalization evidence</synonym_text>
</synonym>
<is_a>ECO:0000087</is_a>
<created_by>mchibucos</created_by>
<creation_date>2011-01-11T03:48:50Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000301</id>
<name>beta-galactosidase protein immunolocalization evidence</name>
<def>
<defstr>A type of immunolocalization experiment data that was generated using LacZ protein as a marker.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>This term describes immunolocalization of the protein; to describe transcriptional activation, use the term "localization of LacZ transcript".</comment>
<synonym scope="exact">
<synonym_text>LacZ protein immunolocalization evidence</synonym_text>
</synonym>
<is_a>ECO:0000087</is_a>
<created_by>mchibucos</created_by>
<creation_date>2011-01-11T04:06:40Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000302</id>
<name>author statement used in manual assertion</name>
<def>
<defstr>A type of author statement that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000204</is_a>
<intersection_of>
<to>ECO:0000204</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2011-01-20T02:26:47Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000303</id>
<name>non-traceable author statement used in manual assertion</name>
<def>
<defstr>A type of non-traceable author statement that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<synonym scope="exact">
<synonym_text>NAS</synonym_text>
<dbxref>
<acc>NAS</acc>
<dbname>GOECO</dbname>
</dbxref>
</synonym>
<synonym scope="exact">
<synonym_text>non-traceable author statement</synonym_text>
<dbxref>
<acc>NAS</acc>
<dbname>GOECO</dbname>
</dbxref>
</synonym>
<xref_analog>
<acc>NAS</acc>
<dbname>GOECO</dbname>
<name>non-traceable author statement</name>
</xref_analog>
<is_a>ECO:0000034</is_a>
<intersection_of>
<to>ECO:0000034</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2011-01-20T02:29:50Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000304</id>
<name>traceable author statement used in manual assertion</name>
<def>
<defstr>A type of traceable author statement that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<synonym scope="exact">
<synonym_text>TAS</synonym_text>
<dbxref>
<acc>TAS</acc>
<dbname>GOECO</dbname>
</dbxref>
</synonym>
<synonym scope="exact">
<synonym_text>traceable author statement</synonym_text>
<dbxref>
<acc>TAS</acc>
<dbname>GOECO</dbname>
</dbxref>
</synonym>
<xref_analog>
<acc>TAS</acc>
<dbname>GOECO</dbname>
<name>traceable author statement</name>
</xref_analog>
<is_a>ECO:0000033</is_a>
<intersection_of>
<to>ECO:0000033</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2011-01-20T02:31:03Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000305</id>
<name>curator inference used in manual assertion</name>
<def>
<defstr>A type of curator inference that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<xref_analog>
<acc>IC</acc>
<dbname>GOECO</dbname>
<name>inferred by curator</name>
</xref_analog>
<is_a>ECO:0000205</is_a>
<intersection_of>
<to>ECO:0000205</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2011-01-20T02:33:32Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000306</id>
<name>inference from background scientific knowledge used in manual assertion</name>
<def>
<defstr>A type of inference from background scientific knowledge that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000001</is_a>
<intersection_of>
<to>ECO:0000001</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2011-01-20T02:35:11Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000307</id>
<name>no biological data found used in manual assertion</name>
<def>
<defstr>A type of no biological data found that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<xref_analog>
<acc>ND</acc>
<dbname>GOECO</dbname>
<name>no biological data available</name>
</xref_analog>
<is_a>ECO:0000035</is_a>
<intersection_of>
<to>ECO:0000035</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2011-01-20T02:43:18Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000308</id>
<name>biological aspect of ancestor evidence</name>
<def>
<defstr>A type of phylogenetic evidence whereby an aspect of a descendant gene is inferred through the characterization of an aspect of an ancestral gene.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>First, a characteristic of the most recent common ancestor (MRCA) is inferred from experimental evidence in descendants; this is followed by inferring a characteristic of a descendant of the MRCA. This type of evidence can be used in support of both positive and "not" GO annotations.</comment>
<is_a>ECO:0000080</is_a>
<created_by>mchibucos</created_by>
<creation_date>2011-02-04T05:41:26Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000309</id>
<name>cap analysis of gene expression evidence</name>
<def>
<defstr>A type of transcript expression evidence based on high-throughput (HT) sequencing of the 5' ends of cDNA molecules that are selected by a cap-trapper system.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>cDNA is synthesized from microgram quantities of mRNA using first-strand cDNA primer (oligo dT12-18) and reverse transcriptase in the presence of trehalose and sorbitol, followed by selection of full-length cDNA with biotinylated cap-trapper. Linkers are attached to the 5' ends of full-length enriched cDNAs to introduce a recognition site for the restriction endonuclease MmeI, which creates a two base overhang. After amplification, sequencing tags are concatenated for high-throughput sequencing. Resulting sort reads are aligned against a reference genome, and downstream analysis is performed.</comment>
<synonym scope="exact">
<synonym_text>CAGE</synonym_text>
<dbxref>
<acc>16489339</acc>
<dbname>PMID</dbname>
</dbxref>
</synonym>
<is_a>ECO:0000009</is_a>
<created_by>mchibucos</created_by>
<creation_date>2011-02-17T01:33:09Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000310</id>
<name>nano-cap analysis of gene expression evidence</name>
<def>
<defstr>A type of transcript expression evidence based on high-throughput (HT) sequencing of the 5' ends of cDNA molecules that are selected by reverse transcriptase template switching.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<comment>NanoCAGE captures the 5' ends of molecules by template switching. When polymerizing the cDNA of a capped mRNA, the reverse transcriptase adds extra cytosines that are complementary to the cap. Each 5' full length cDNAs is extended upon hybridization of the riboguanosine-tailed template switching oligonucleotides to these extra cytosines. In semisuppressive PCR, the short templates fold intramolecularly and prevent the binding of primers, which precludes amplification; longer molecules are less likely to fold and are thus amplified. Templates derived from reaction artifacts form stable homoduplexes, also precluding amplification. After template switching, semisuppressive PCR, and EcoP151 cleavage, 25-bp tags are ligated to bar code-containing oligonucleotide adaptors. After PCR amplification, the nanoCAGE tags are sequenced by synthesis. NanoCAGE requires as little as 10 nanograms of total RNA.</comment>
<synonym scope="related">
<synonym_text>nanoCAGE</synonym_text>
<dbxref>
<acc>20543846</acc>
<dbname>PMID</dbname>
</dbxref>
</synonym>
<is_a>ECO:0000009</is_a>
<created_by>mchibucos</created_by>
<creation_date>2011-02-17T01:33:34Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000311</id>
<name>imported information</name>
<def>
<defstr>An evidence type that is based on work performed by a person or group prior to a use by different person or group.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000000</is_a>
<created_by>mchibucos</created_by>
<creation_date>2011-03-02T05:24:13Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000312</id>
<name>imported information used in manual assertion</name>
<def>
<defstr>A type of imported information that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000311</is_a>
<intersection_of>
<to>ECO:0000311</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2011-03-02T05:29:44Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000313</id>
<name>imported information used in automatic assertion</name>
<def>
<defstr>A type of imported information that is used in an automatic assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000311</is_a>
<intersection_of>
<to>ECO:0000311</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000203</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2011-03-02T05:33:43Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000314</id>
<name>direct assay evidence used in manual assertion</name>
<def>
<defstr>A type of direct assay evidence that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IDA</synonym_text>
<dbxref>
<acc>IDA</acc>
<dbname>GOECO</dbname>
</dbxref>
</synonym>
<synonym scope="exact">
<synonym_text>inferred from direct assay</synonym_text>
<dbxref>
<acc>IDA</acc>
<dbname>GOECO</dbname>
</dbxref>
</synonym>
<xref_analog>
<acc>IDA</acc>
<dbname>GOECO</dbname>
<name>inferred from direct assay</name>
</xref_analog>
<is_a>ECO:0000002</is_a>
<intersection_of>
<to>ECO:0000002</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2011-10-28T04:59:31Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000315</id>
<name>mutant phenotype evidence used in manual assertion</name>
<def>
<defstr>A type of mutant phenotype evidence that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IMP</synonym_text>
<dbxref>
<acc>IMP</acc>
<dbname>GOECO</dbname>
</dbxref>
</synonym>
<synonym scope="related">
<synonym_text>inferred from mutant phenotype</synonym_text>
<dbxref>
<acc>IMP</acc>
<dbname>GOECO</dbname>
</dbxref>
</synonym>
<xref_analog>
<acc>IMP</acc>
<dbname>GOECO</dbname>
<name>inferred from mutant phenotype</name>
</xref_analog>
<is_a>ECO:0000015</is_a>
<intersection_of>
<to>ECO:0000015</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2011-10-28T05:12:49Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000316</id>
<name>genetic interaction evidence used in manual assertion</name>
<def>
<defstr>A type of genetic interaction experiment evidence that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<synonym scope="exact">
<synonym_text>IGI</synonym_text>
<dbxref>
<acc>IGI</acc>
<dbname>GOECO</dbname>
</dbxref>
</synonym>
<synonym scope="exact">
<synonym_text>inferred from genetic interaction</synonym_text>
<dbxref>
<acc>IGI</acc>
<dbname>GOECO</dbname>
</dbxref>
</synonym>
<xref_analog>
<acc>IGI</acc>
<dbname>GOECO</dbname>
<name>inferred from genetic interaction</name>
</xref_analog>
<is_a>ECO:0000011</is_a>
<intersection_of>
<to>ECO:0000011</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2011-10-28T05:14:42Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000317</id>
<name>genomic context evidence used in manual assertion</name>
<def>
<defstr>A type of genomic context evidence that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<synonym scope="related">
<synonym_text>IGC</synonym_text>
<dbxref>
<acc>IGC</acc>
<dbname>GOECO</dbname>
</dbxref>
</synonym>
<synonym scope="exact">
<synonym_text>inferred from genomic context</synonym_text>
<dbxref>
<acc>IGC</acc>
<dbname>GOECO</dbname>
</dbxref>
</synonym>
<xref_analog>
<acc>IGC</acc>
<dbname>GOECO</dbname>
<name>inferred from genomic context</name>
</xref_analog>
<is_a>ECO:0000177</is_a>
<intersection_of>
<to>ECO:0000177</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2011-10-28T05:22:53Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000318</id>
<name>biological aspect of ancestor evidence used in manual assertion</name>
<def>
<defstr>A type of biological aspect of ancestor evidence that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<synonym scope="exact">
<synonym_text>IBA</synonym_text>
<dbxref>
<acc>IBA</acc>
<dbname>GOECO</dbname>
</dbxref>
</synonym>
<synonym scope="exact">
<synonym_text>inferred from biological aspect of ancestor</synonym_text>
<dbxref>
<acc>IBA</acc>
<dbname>GOECO</dbname>
</dbxref>
</synonym>
<xref_analog>
<acc>IBA</acc>
<dbname>GOECO</dbname>
<name>inferred from biological aspect of ancestor</name>
</xref_analog>
<is_a>ECO:0000308</is_a>
<intersection_of>
<to>ECO:0000308</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2011-10-28T05:23:51Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000319</id>
<name>biological aspect of descendant evidence used in manual assertion</name>
<def>
<defstr>A type of biological aspect of descendant evidence that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<synonym scope="exact">
<synonym_text>IBD</synonym_text>
<dbxref>
<acc>IBD</acc>
<dbname>GOECO</dbname>
</dbxref>
</synonym>
<synonym scope="exact">
<synonym_text>inferred from biological aspect of descendant</synonym_text>
<dbxref>
<acc>IBD</acc>
<dbname>GOECO</dbname>
</dbxref>
</synonym>
<xref_analog>
<acc>IBD</acc>
<dbname>GOECO</dbname>
<name>inferred from biological aspect of descendant</name>
</xref_analog>
<is_a>ECO:0000214</is_a>
<intersection_of>
<to>ECO:0000214</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2011-10-28T05:25:09Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000320</id>
<name>phylogenetic determination of loss of key residues evidence used in manual assertion</name>
<def>
<defstr>A type of phylogenetic determination of loss of key residues evidence that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<synonym scope="exact">
<synonym_text>IKR</synonym_text>
<dbxref>
<acc>IKR</acc>
<dbname>GOECO</dbname>
</dbxref>
</synonym>
<synonym scope="exact">
<synonym_text>IMR</synonym_text>
<dbxref>
<acc>IKR</acc>
<dbname>GOECO</dbname>
</dbxref>
</synonym>
<synonym scope="exact">
<synonym_text>inferred from key residues</synonym_text>
<dbxref>
<acc>IKR</acc>
<dbname>GOECO</dbname>
</dbxref>
</synonym>
<synonym scope="exact">
<synonym_text>inferred from missing residues</synonym_text>
<dbxref>
<acc>IKR</acc>
<dbname>GOECO</dbname>
</dbxref>
</synonym>
<xref_analog>
<acc>IKR</acc>
<dbname>GOECO</dbname>
<name>inferred from key residues</name>
</xref_analog>
<xref_analog>
<acc>IMR</acc>
<dbname>GOECO</dbname>
<name>inferred from missing residues</name>
</xref_analog>
<is_a>ECO:0000216</is_a>
<intersection_of>
<to>ECO:0000216</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2011-10-28T05:25:48Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000321</id>
<name>rapid divergence from ancestral sequence evidence used in manual assertion</name>
<def>
<defstr>A type of rapid divergence from ancestral sequence evidence that is used in a manual assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<synonym scope="exact">
<synonym_text>inferred from rapid divergence</synonym_text>
<dbxref>
<acc>IRD</acc>
<dbname>GOECO</dbname>
</dbxref>
</synonym>
<synonym scope="exact">
<synonym_text>IRD</synonym_text>
<dbxref>
<acc>IRD</acc>
<dbname>GOECO</dbname>
</dbxref>
</synonym>
<xref_analog>
<acc>IRD</acc>
<dbname>GOECO</dbname>
<name>inferred from rapid divergence</name>
</xref_analog>
<is_a>ECO:0000215</is_a>
<intersection_of>
<to>ECO:0000215</to>
</intersection_of>
<intersection_of>
<type>used_in</type>
<to>ECO:0000218</to>
</intersection_of>
<created_by>mchibucos</created_by>
<creation_date>2011-10-28T05:26:42Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000322</id>
<name>imported manually asserted information used in automatic assertion</name>
<def>
<defstr>Evidence that was initially used in manual assertion by one person or group, which is imported by a second person or group and used in automatic assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000313</is_a>
<created_by>mchibucos</created_by>
<creation_date>2011-12-13T12:04:48Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000323</id>
<name>imported automatically asserted information used in automatic assertion</name>
<def>
<defstr>Evidence that was initially used in automatic assertion by one person or group, which is imported by a second person or group and used in automatic assertion.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000313</is_a>
<created_by>mchibucos</created_by>
<creation_date>2011-12-13T02:06:25Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000324</id>
<name>imaging assay evidence</name>
<def>
<defstr>Direct assay evidence derived from analysis of an image.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<is_a>ECO:0000002</is_a>
<created_by>mchibucos</created_by>
<creation_date>2012-02-23T12:01:43Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<term>
<id>ECO:0000325</id>
<name>chromatography evidence</name>
<def>
<defstr>A type of experimental evidence that is based on separation of constituent parts of a mixture (the mobile phase) as they pass differentially through a stationary phase due to differences in partition coefficient and retention on the stationary phase.</defstr>
<dbxref>
<acc>MCC</acc>
<dbname>ECO</dbname>
</dbxref>
</def>
<synonym scope="exact">
<synonym_text>chromatographic evidence</synonym_text>
</synonym>
<is_a>ECO:0000006</is_a>
<created_by>mchibucos</created_by>
<creation_date>2012-05-16T11:46:27Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</term>
<typedef>
<id>used_in</id>
<name>used_in</name>
<created_by>mchibucos</created_by>
<creation_date>2010-12-09T05:00:20Z</creation_date>
<namespace>evidence_code2.obo</namespace>
</typedef>
</obo>