Abstract：
:We report a daily-updated sequenced/species Tree Of Life (sTOL) as a reference for the increasing number of cellular organisms with their genomes sequenced. The sTOL builds on a likelihood-based weight calibration algorithm to consolidate NCBI taxonomy information in concert with unbiased sampling of molecular characters from whole genomes of all sequenced organisms. Via quantifying the extent of agreement between taxonomic and molecular data, we observe there are many potential improvements that can be made to the status quo classification, particularly in the Fungi kingdom; we also see that the current state of many animal genomes is rather poor. To augment the use of sTOL in providing evolutionary contexts, we integrate an ontology infrastructure and demonstrate its utility for evolutionary understanding on: nuclear receptors, stem cells and eukaryotic genomes. The sTOL (http://supfam.org/SUPERFAMILY/sTOL) provides a binary tree of (sequenced) life, and contributes to an analytical platform linking genome evolution, function and phenotype.
journal_name
Sci Repjournal_title
Scientific reportsauthors
Fang H,Oates ME,Pethica RB,Greenwood JM,Sardar AJ,Rackham OJ,Donoghue PC,Stamatakis A,de Lima Morais DA,Gough Jdoi
10.1038/srep02015subject
Has Abstractpub_date
2013-01-01 00:00:00pages
2015issn
2045-2322pii
srep02015journal_volume
3pub_type
杂志文章abstract：:An amendment to this paper has been published and can be accessed via a link at the top of the paper. ...
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