PAINT progress report for 2014

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Aim 3. We will perform phylogenetically-based propagation of annotations. [This effort cut by 1 FTE as a result of final funding level].

During the grant year, we made excellent progress on this aim. Thanks to the additional software and infrastructure development over the previous two years, we were able to focus our efforts this year on curated phylogenetic annotation. Our progress this year, in terms of the number of genes annotated through phylogenetic annotation, was approximately what we had projected in our original grant proposal for year 3, even though the effort was substantially decreased due to initial budget cuts.

Progress

  • We annotated gene families covering approximately 3000 human genes. This represents about 15% of all protein-coding genes (nearly meeting our original goal for year 3 of 18%, which assumed substantially greater resource allocation).
  • Of these, the project added new annotations for 2552 human genes, over 75% of the genes covered during this period. This project is thus making a large impact on the computational representation of human gene function.
  • The project also added new annotations for an additional 101,636 genes across 84 other genomes.
  • Other statistics: 706 families have now been curated. This has resulted in the annotation of 1954 internal tree nodes, comprising 976 molecular function annotations, 1335 biological process annotations and 1129 cellular component annotations. These annotations were propagated within the tree to annotate the 104,188 genes listed above, yielding a total of 202,379 biological process annotations, 143,080 molecular function annotations and 130,050 cellular component annotations.