How to Illuminate the Druggable Genome Using Pharos.
bioinformatics
dark genome
disease
drug discovery
drug targets
phenotype
proteins
target validation
Journal
Current protocols in bioinformatics
ISSN: 1934-340X
Titre abrégé: Curr Protoc Bioinformatics
Pays: United States
ID NLM: 101157830
Informations de publication
Date de publication:
03 2020
03 2020
Historique:
entrez:
4
1
2020
pubmed:
4
1
2020
medline:
16
7
2021
Statut:
ppublish
Résumé
Pharos is an integrated web-based informatics platform for the analysis of data aggregated by the Illuminating the Druggable Genome (IDG) Knowledge Management Center, an NIH Common Fund initiative. The current version of Pharos (as of October 2019) spans 20,244 proteins in the human proteome, 19,880 disease and phenotype associations, and 226,829 ChEMBL compounds. This resource not only collates and analyzes data from over 60 high-quality resources to generate these types, but also uses text indexing to find less apparent connections between targets, and has recently begun to collaborate with institutions that generate data and resources. Proteins are ranked according to a knowledge-based classification system, which can help researchers to identify less studied "dark" targets that could be potentially further illuminated. This is an important process for both drug discovery and target validation, as more knowledge can accelerate target identification, and previously understudied proteins can serve as novel targets in drug discovery. Two basic protocols illustrate the levels of detail available for targets and several methods of finding targets of interest. An Alternate Protocol illustrates the difference in available knowledge between less and more studied targets. © 2020 by John Wiley & Sons, Inc. Basic Protocol 1: Search for a target and view details Alternate Protocol: Search for dark target and view details Basic Protocol 2: Filter a target list to get refined results.
Identifiants
pubmed: 31898878
doi: 10.1002/cpbi.92
pmc: PMC7818358
mid: NIHMS1655423
doi:
Substances chimiques
Ligands
0
Receptors, G-Protein-Coupled
0
Types de publication
Journal Article
Research Support, N.I.H., Extramural
Langues
eng
Sous-ensembles de citation
IM
Pagination
e92Subventions
Organisme : NCI NIH HHS
ID : U24 CA224370
Pays : United States
Organisme : NCATS NIH HHS
ID : U24 TR002278
Pays : United States
Informations de copyright
© 2020 John Wiley & Sons, Inc.
Références
Methods. 2015 Mar;74:83-9
pubmed: 25484339
Front Pharmacol. 2018 May 22;9:431
pubmed: 29872392
Nature. 2011 Feb 10;470(7333):163-5
pubmed: 21307913
J Biomed Semantics. 2017 Nov 09;8(1):50
pubmed: 29122012
Nat Genet. 2000 May;25(1):25-9
pubmed: 10802651
J Biol Chem. 2019 Jul 19;294(29):11062-11086
pubmed: 31171722
Bioinformatics. 2017 Aug 15;33(16):2601-2603
pubmed: 28398460
PLoS Biol. 2018 Dec 11;16(12):e3000067
pubmed: 30532236
Nucleic Acids Res. 2019 Jan 8;47(D1):D607-D613
pubmed: 30476243
Nat Rev Drug Discov. 2002 Sep;1(9):727-30
pubmed: 12209152
Proc Natl Acad Sci U S A. 2014 Mar 18;111(11):4191-6
pubmed: 24599592
Nature. 2017 May 25;545(7655):505-509
pubmed: 28514442
Mamm Genome. 2019 Aug;30(7-8):192-200
pubmed: 31270560
Nucleic Acids Res. 2017 Jan 4;45(D1):D995-D1002
pubmed: 27903890
Nucleic Acids Res. 2002 Jan 1;30(1):52-5
pubmed: 11752252
Trends Genet. 1997 Apr;13(4):163
pubmed: 9097728
Nat Rev Drug Discov. 2018 May;17(5):317-332
pubmed: 29472638
Nucleic Acids Res. 2016 Jan 4;44(D1):D481-7
pubmed: 26656494
Nucleic Acids Res. 2004 Jan 1;32(Database issue):D115-9
pubmed: 14681372
Nucleic Acids Res. 2017 Jan 4;45(D1):D985-D994
pubmed: 27899665
Nat Rev Drug Discov. 2018 May;17(5):301-302
pubmed: 29348682
BMC Bioinformatics. 2013 May 31;14:171
pubmed: 23725347
Database (Oxford). 2016 Jul 03;2016:
pubmed: 27374120