Warning: Undefined array key "mm" in /www/wwwroot/www.ai-bt.com/si.php on line 10 Deprecated: trim(): Passing null to parameter #1 ($string) of type string is deprecated in /www/wwwroot/www.ai-bt.com/si.php on line 10 A comprehensive protein-centric ID mapping service for molecular data integration.

Literature DB >> 21478197

A comprehensive protein-centric ID mapping service for molecular data integration.

Hongzhan Huang¹, Peter B McGarvey, Baris E Suzek, Raja Mazumder, Jian Zhang, Yongxing Chen, Cathy H Wu.

Abstract

MOTIVATION: Identifier (ID) mapping establishes links between various biological databases and is an essential first step for molecular data integration and functional annotation. ID mapping allows diverse molecular data on genes and proteins to be combined and mapped to functional pathways and ontologies. We have developed comprehensive protein-centric ID mapping services providing mappings for 90 IDs derived from databases on genes, proteins, pathways, diseases, structures, protein families, protein interaction, literature, ontologies, etc. The services are widely used and have been regularly updated since 2006. AVAILABILITY: www.uniprot.org/mappingandproteininformation-resource.org/pirwww/search/idmapping.shtml CONTACT: huang@dbi.udel.edu.

Mesh：

Substances：
Proteins

Year: 2011 PMID： 21478197 PMCID： PMC3072559 DOI： 10.1093/bioinformatics/btr101

Source DB: PubMed Journal: Bioinformatics ISSN： 1367-4803 Impact factor: 6.937

14 in total

1. bioDBnet: the biological database network.

Authors: Uma Mudunuri; Anney Che; Ming Yi; Robert M Stephens
Journal: Bioinformatics Date: 2009-01-07 Impact factor: 6.937

2. Infrastructure for the life sciences: design and implementation of the UniProt website.

Authors: Eric Jain; Amos Bairoch; Severine Duvaud; Isabelle Phan; Nicole Redaschi; Baris E Suzek; Maria J Martin; Peter McGarvey; Elisabeth Gasteiger
Journal: BMC Bioinformatics Date: 2009-05-08 Impact factor: 3.169

3. The Synergizer service for translating gene, protein and other biological identifiers.

Authors: Gabriel F Berriz; Frederick P Roth
Journal: Bioinformatics Date: 2008-08-12 Impact factor: 6.937

4. MassNet: a functional annotation service for protein mass spectrometry data.

Authors: Daeui Park; Byoung-Chul Kim; Seong-Woong Cho; Seong-Jin Park; Jong-Soon Choi; Seung Il Kim; Jong Bhak; Sunghoon Lee
Journal: Nucleic Acids Res Date: 2008-04-29 Impact factor: 16.971

5. Systems integration of biodefense omics data for analysis of pathogen-host interactions and identification of potential targets.

Authors: Peter B McGarvey; Hongzhan Huang; Raja Mazumder; Jian Zhang; Yongxing Chen; Chengdong Zhang; Stephen Cammer; Rebecca Will; Margie Odle; Bruno Sobral; Margaret Moore; Cathy H Wu
Journal: PLoS One Date: 2009-09-25 Impact factor: 3.240

6. DAVID gene ID conversion tool.

Authors: Da Wei Huang; Brad T Sherman; Robert Stephens; Michael W Baseler; H Clifford Lane; Richard A Lempicki
Journal: Bioinformation Date: 2008-07-30

7. CRONOS: the cross-reference navigation server.

Authors: Brigitte Waegele; Irmtraud Dunger-Kaltenbach; Gisela Fobo; Corinna Montrone; H-Werner Mewes; Andreas Ruepp
Journal: Bioinformatics Date: 2008-11-13 Impact factor: 6.937

8. The Universal Protein Resource (UniProt) 2009.

Authors:
Journal: Nucleic Acids Res Date: 2008-10-04 Impact factor: 16.971

9. An improved method for identifying functionally linked proteins using phylogenetic profiles.

Authors: Shawn Cokus; Sayaka Mizutani; Matteo Pellegrini
Journal: BMC Bioinformatics Date: 2007-05-22 Impact factor: 3.169

10. The Protein Identifier Cross-Referencing (PICR) service: reconciling protein identifiers across multiple source databases.

Authors: Richard G Côté; Philip Jones; Lennart Martens; Samuel Kerrien; Florian Reisinger; Quan Lin; Rasko Leinonen; Rolf Apweiler; Henning Hermjakob
Journal: BMC Bioinformatics Date: 2007-10-18 Impact factor: 3.169

33 in total

A comprehensive protein-centric ID mapping service for molecular data integration.

1. bioDBnet: the biological database network.

2. Infrastructure for the life sciences: design and implementation of the UniProt website.

3. The Synergizer service for translating gene, protein and other biological identifiers.

4. MassNet: a functional annotation service for protein mass spectrometry data.

5. Systems integration of biodefense omics data for analysis of pathogen-host interactions and identification of potential targets.

6. DAVID gene ID conversion tool.

7. CRONOS: the cross-reference navigation server.

8. The Universal Protein Resource (UniProt) 2009.

9. An improved method for identifying functionally linked proteins using phylogenetic profiles.

10. The Protein Identifier Cross-Referencing (PICR) service: reconciling protein identifiers across multiple source databases.

1. A fast Peptide Match service for UniProt Knowledgebase.

2. UniProt Protein Knowledgebase.

Review 3. Protein Bioinformatics Databases and Resources.

4. Human germline and pan-cancer variomes and their distinct functional profiles.

5. iPTMnet: an integrated resource for protein post-translational modification network discovery.

6. ComPPI: a cellular compartment-specific database for protein-protein interaction network analysis.

7. Leaf transcriptomic signatures for somatic embryogenesis potential of Elaeis guineensis.

8. A Thermodynamic Model for Water Activity and Redox Potential in Evolution and Development.

9. UniProt Tools.

Review 10. Metagenomics: a path to understanding the gut microbiome.