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| Here are the steps that I can think of in doing manual annotation:
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| | | [[Image:literature_original-4thMay.ppt]] |
| 1) Find a paper that shows the function of a gene product or the biological process or cellular location in which it acts.
| | [[Image:literature_original-4thMay.png]] |
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| 2) Find the accession number of the gene product, e.g. from UniProt or GenBank.
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| 3) Find the GO term that is appropriate using AmiGO (e.g. GO:0048256).
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| 4) Choose the evidence code for the experiment that was done (e.g. IDA). <br>(See http://www.geneontology.org/GO.evidence.shtml and
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| http://www.geneontology.org/GO.evidence.codes.shtml)
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| [At this point in the flowchart we could have a list of evidence codes and have the flowchart branch off and say what different fields are needed for which evidence codes.) | |
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| The branches are down below in this page.
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| 5) Note down the pubmed id for the paper. (e.g. PMID: 17277778)<br>(See http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed)
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| 6) Put these in a spreadsheet with the appropriate headings.
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| Or put them in a tab-delimited file.<br> (See http://www.geneontology.org/GO.annotation.shtml#fields)
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| 7) Send to the GO Consortium.
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| This is the list of branches that happen at the evidence code stage:
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| *IC: Inferred by Curator
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| *IDA: Inferred from Direct Assay
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| *IEA: Inferred from Electronic Annotation
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| *IEP: Inferred from Expression Pattern
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| *IGC: Inferred from Genomic Context
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| *IGI: Inferred from Genetic Interaction
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| *IMP: Inferred from Mutant Phenotype
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| *IPI: Inferred from Physical Interaction
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| *ISS: Inferred from Sequence or Structural Similarity
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| *NAS: Non-traceable Author Statement
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| *ND: No biological Data available
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| *RCA: inferred from Reviewed Computational Analysis
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| *TAS: Traceable Author Statement
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| *NR: Not Recorded
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