Protonet 4.0: A Hierarchical Classification of One Million Protein Sequences

Protonet 4.0: A Hierarchical Classification of One Million Protein Sequences

ProtoNet is an automatic hierarchical classification of the protein sequence space. In 2004, the ProtoNet (version 4.0) presents the analysis of over one million proteins merged from SwissProt and TrEMBL databases. In addition to rich visualization and analysis tools to navigate the clustering hiera...

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Bibliographic Details
Main Authors: KAPLAN, Noam, SASSON, Ori, Inbar, Uri, Friedlich, Moriah, Fromer, Menachem, Fleischer, Hillel, Portugaly, Elon, Linial, Nathan, Linial, Michal
Format: text
Language:English
Published: Institutional Knowledge at Singapore Management University 2005
Subjects:
Bioinformatics
Computer Sciences
Online Access:https://ink.library.smu.edu.sg/sis_research/89
http://dx.doi.org/10.1093/nar/gki007
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Institution: Singapore Management University
Language: English
Description
Summary:ProtoNet is an automatic hierarchical classification of the protein sequence space. In 2004, the ProtoNet (version 4.0) presents the analysis of over one million proteins merged from SwissProt and TrEMBL databases. In addition to rich visualization and analysis tools to navigate the clustering hierarchy, we incorporated several improvements that allow a simplified view of the scaffold of the proteins. An unsupervised, biologically valid method that was developed resulted in a condensation of the ProtoNet hierarchy to only 12% of the clusters. A large portion of these clusters was automatically assigned high confidence biological names according to their correspondence with functional annotations. ProtoNet is available at: http://www.protonet.cs.huji.ac.il.

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