Pathway-level information extractor (PLIER) for gene expression data.
Journal
Nature methods
ISSN: 1548-7105
Titre abrégé: Nat Methods
Pays: United States
ID NLM: 101215604
Informations de publication
Date de publication:
07 2019
07 2019
Historique:
received:
15
12
2017
accepted:
16
05
2019
entrez:
29
6
2019
pubmed:
30
6
2019
medline:
13
7
2019
Statut:
ppublish
Résumé
A major challenge in gene expression analysis is to accurately infer relevant biological insights, such as variation in cell-type proportion or pathway activity, from global gene expression studies. We present pathway-level information extractor (PLIER) ( https://github.com/wgmao/PLIER and http://gobie.csb.pitt.edu/PLIER ), a broadly applicable solution for this problem that outperforms available cell proportion inference algorithms and can automatically identify specific pathways that regulate gene expression. Our method improves interstudy replicability and reveals biological insights when applied to trans-eQTL (expression quantitative trait loci) identification.
Identifiants
pubmed: 31249421
doi: 10.1038/s41592-019-0456-1
pii: 10.1038/s41592-019-0456-1
pmc: PMC7262669
mid: NIHMS1529573
doi:
Types de publication
Journal Article
Research Support, N.I.H., Extramural
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
607-610Subventions
Organisme : NIDDK NIH HHS
ID : R01 DK046943
Pays : United States
Organisme : NIMH NIH HHS
ID : R03 MH109008
Pays : United States
Organisme : NIAID NIH HHS
ID : U19 AI117873
Pays : United States
Organisme : NHGRI NIH HHS
ID : R01 HG009299
Pays : United States
Organisme : NIDDK NIH HHS
ID : U24 DK112331
Pays : United States
Organisme : NHGRI NIH HHS
ID : U54 HG008540
Pays : United States
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