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Title: Final Report - Phylogenomic tools and web resources for the Systems Biology Knowledgebase

The major advance during this last reporting period (8/15/12 to present) is our release of data on the PhyloFacts website: phylogenetic trees, multiple sequence alignments and other data for protein families are now available for download from http://phylogenomics.berkeley.edu/data/. This project as a whole aimed to develop high-throughput functional annotation systems that exploit information from protein 3D structure and evolution to provide highly precise inferences of various aspects of gene function, including molecular function, biological process, pathway association, Pfam domains, cellular localization and so on. We accomplished these aims by developing and testing different systems on a database of protein family trees: the PhyloFacts Phylogenomic Encyclopedia (at http://phylogenomics.berkeley.edu/phylofacts/ ).
Authors:
 [1]
  1. Univ. of California, Berkeley, CA (United States)
Publication Date:
OSTI Identifier:
1163480
Report Number(s):
DOE-UCBERKELEY--04916
DOE Contract Number:
SC0004916
Resource Type:
Technical Report
Research Org:
Univ. of California, Berkeley, CA (United States)
Sponsoring Org:
USDOE
Country of Publication:
United States
Language:
English
Subject:
60 APPLIED LIFE SCIENCES; 97 MATHEMATICS AND COMPUTING; 96 KNOWLEDGE MANAGEMENT AND PRESERVATION ortholog; big data; functional annotation