Prioritization of Avian GO Annotation. 1.59 5 46.62 4 31,819 3 19,979 3 2.1Chicken 2.1829.99108,06949,5163.4Rat 1 3.579.28228,69664,01837.1Mouse 11.414.91415,83036,43736.3Human.

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Prioritization of Avian GO Annotation

, , Chicken ,06949,5163.4Rat ,69664, Mouse ,83036, Human proteins/gene % predicted proteins No. Proteins (NRPD) No. Entrez Genes Genome Build 2 Species Structural Annotation 1. The rat genome was published only 8 months prior to the chicken genome, yet rat has 2x as many genes in Entrez Gene and 3x as many proteins. 2. After two genome builds chicken still has 5% of genomic sequence that has not been assigned a chromosome and mini-chromosomes have not been sequenced. 3. Chicken genes and proteins are under-represented in public databases. 4. Of the chicken proteins available from NRPD, almost half are predicted based upon computational analysis. 5. On average chicken has only 1 protein per gene so very little is known about isoforms and alternate transcripts in the chicken gene products. NRPD: Non-redundant Protein Database

Phase 1: “Breadth” 7, 478 Chicken entries in UniProtKB  GOA provides IEA mapping for UniProtKB entries Initial strategy for AgBase biocurators was to add GO to chicken gene products that had none. Since 46% of the chicken proteins in NRPD were predicted, they would have no GO  IEA, ISS, ISO….

HumanMouseRatChicken no GO AgBase computational GO manual GO % of gene products annotated the proportion of GO for chicken is over-represented because of their under-representation in public databases Functional Annotation

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