Sökning: onr:"swepub:oai:DiVA.org:kth-337788" >
Identifying genetic...
-
Li, XiaotingDepartment of Biological Sciences, Columbia University, New York, NY 10027, USA
(författare)
Identifying genetic regulatory variants that affect transcription factor activity
- Artikel/kapitelEngelska2023
Förlag, utgivningsår, omfång ...
-
Elsevier BV,2023
-
printrdacarrier
Nummerbeteckningar
-
LIBRIS-ID:oai:DiVA.org:kth-337788
-
https://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-337788URI
-
https://doi.org/10.1016/j.xgen.2023.100382DOI
Kompletterande språkuppgifter
-
Språk:engelska
-
Sammanfattning på:engelska
Ingår i deldatabas
Klassifikation
-
Ämneskategori:ref swepub-contenttype
-
Ämneskategori:art swepub-publicationtype
Anmärkningar
-
QC 20231215
-
Genetic variants affecting gene expression levels in humans have been mapped in the Genotype-Tissue Expression (GTEx) project. Trans-acting variants impacting many genes simultaneously through a shared transcription factor (TF) are of particular interest. Here, we developed a generalized linear model (GLM) to estimate protein-level TF activity levels in an individual-specific manner from GTEx RNA sequencing (RNA-seq) profiles. It uses observed differential gene expression after TF perturbation as a predictor and, by analyzing differential expression within pairs of neighboring genes, controls for the confounding effect of variation in chromatin state along the genome. We inferred genotype-specific activities for 55 TFs across 49 tissues. Subsequently performing genome-wide association analysis on this virtual trait revealed TF activity quantitative trait loci (aQTLs) that, as a set, are enriched for functional features. Altogether, the set of tools we introduce here highlights the potential of genetic association studies for cellular endophenotypes based on a network-based multi-omics approach. The transparent peer review record is available.
Ämnesord och genrebeteckningar
Biuppslag (personer, institutioner, konferenser, titlar ...)
-
Lappalainen, TuuliKTH,Genteknologi,Science for Life Laboratory, SciLifeLab,New York Genome Center, New York, NY 10013, USA; Department of Systems Biology, Columbia University, New York, NY 10032, USA(Swepub:kth)u1o81n30
(författare)
-
Bussemaker, Harmen J.Department of Biological Sciences, Columbia University, New York, NY 10027, USA; Department of Systems Biology, Columbia University, New York, NY 10032, USA
(författare)
-
Department of Biological Sciences, Columbia University, New York, NY 10027, USAGenteknologi
(creator_code:org_t)
Sammanhörande titlar
-
Ingår i:Cell Genomics: Elsevier BV3:92666-979X
Internetlänk
Hitta via bibliotek
Till lärosätets databas