Evidence map›Paper›PMID 36823318›Full record

ArticleNature genetics2023

Brain expression quantitative trait locus and network analyses reveal downstream effects and putative drivers for brain-related diseases.

Niek de Klein, Ellen A Tsai, Martijn Vochteloo, Denis Baird, Yunfeng Huang, Chia-Yen Chen, Sipko van Dam, Roy Oelen, Patrick Deelen, Olivier B Bakker and 11 more

Open access · hybridFull text read
In one paragraph

Article in Nature genetics, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 189 papers, 15 of them syntheses that pooled it.

0numbers the graph read from it
0cells of the map it votes in
189citing papers in PubMed, 15 pooled it
74.8field-weighted citation impact, top 1% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

189 citing papers in PubMed, 15 syntheses or guidelines pooled it, 236 citations in OpenAlex.

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129 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

21 authors at 4 institutions in 3 countries.

Niek de Klein *Department of Genetics, University Medical Center Groningen, University of Groningen, Groningen, The Netherlands.ORCID http://orcid.org/0000-0003-4640-9904
Ellen A Tsai *Translational Biology, Research and Development, Biogen Inc., Cambridge, MA, USA.ORCID http://orcid.org/0000-0002-5625-1189
Martijn Vochteloo *Department of Genetics, University Medical Center Groningen, University of Groningen, Groningen, The Netherlands.ORCID http://orcid.org/0000-0002-6385-0550
Denis BairdTranslational Biology, Research and Development, Biogen Inc., Cambridge, MA, USA.
Yunfeng HuangTranslational Biology, Research and Development, Biogen Inc., Cambridge, MA, USA.
Chia-Yen ChenTranslational Biology, Research and Development, Biogen Inc., Cambridge, MA, USA.
Sipko van DamDepartment of Genetics, University Medical Center Groningen, University of Groningen, Groningen, The Netherlands.
Roy OelenDepartment of Genetics, University Medical Center Groningen, University of Groningen, Groningen, The Netherlands.
Patrick DeelenDepartment of Genetics, University Medical Center Groningen, University of Groningen, Groningen, The Netherlands.ORCID http://orcid.org/0000-0002-5654-3966
Olivier B BakkerDepartment of Genetics, University Medical Center Groningen, University of Groningen, Groningen, The Netherlands.ORCID http://orcid.org/0000-0002-1447-1327
Omar El GarwanyDepartment of Genetics, University Medical Center Groningen, University of Groningen, Groningen, The Netherlands.ORCID http://orcid.org/0000-0003-2023-435X
Zhengyu OuyangBioInfoRx, Inc., Madison, WI, USA.
Eric E MarshallTranslational Biology, Research and Development, Biogen Inc., Cambridge, MA, USA.
Maria I ZavodszkyTranslational Biology, Research and Development, Biogen Inc., Cambridge, MA, USA.
Wouter van RheenenDepartment of Neurology, UMC Utrecht Brain Center, University Medical Center Utrecht, Utrecht University, Utrecht, The Netherlands.ORCID http://orcid.org/0000-0002-5860-1533
Mark K BakkerDepartment of Neurology, UMC Utrecht Brain Center, University Medical Center Utrecht, Utrecht University, Utrecht, The Netherlands.ORCID http://orcid.org/0000-0002-7887-9014
Jan VeldinkDepartment of Neurology, UMC Utrecht Brain Center, University Medical Center Utrecht, Utrecht University, Utrecht, The Netherlands.ORCID http://orcid.org/0000-0001-5572-9657
Tom R GauntMRC Integrative Epidemiology Unit, Bristol Medical School, University of Bristol, Bristol, UK.ORCID http://orcid.org/0000-0003-0924-3247
Heiko RunzTranslational Biology, Research and Development, Biogen Inc., Cambridge, MA, USA. heiko.runz@gmail.com.ORCID http://orcid.org/0000-0002-2133-7345
Lude FrankeDepartment of Genetics, University Medical Center Groningen, University of Groningen, Groningen, The Netherlands. l.h.franke@umcg.nl.ORCID http://orcid.org/0000-0002-5159-8802
Harm-Jan WestraDepartment of Genetics, University Medical Center Groningen, University of Groningen, Groningen, The Netherlands. h.j.westra@umcg.nl.ORCID http://orcid.org/0000-0001-7038-567X
University Medical Center Groningen · NLBiogen (United States) · USUtrecht University · NLUniversity of Bristol · GB

Funding

Medical Research Council MC_UU_00011/4
6 · The paper itself

Abstract

Identification of therapeutic targets from genome-wide association studies (GWAS) requires insights into downstream functional consequences. We harmonized 8,613 RNA-sequencing samples from 14 brain datasets to create the MetaBrain resource and performed cis- and trans-expression quantitative trait locus (eQTL) meta-analyses in multiple brain region- and ancestry-specific datasets (n ≤ 2,759). Many of the 16,169 cortex cis-eQTLs were tissue-dependent when compared with blood cis-eQTLs. We inferred brain cell types for 3,549 cis-eQTLs by interaction analysis. We prioritized 186 cis-eQTLs for 31 brain-related traits using Mendelian randomization and co-localization including 40 cis-eQTLs with an inferred cell type, such as a neuron-specific cis-eQTL (CYP24A1) for multiple sclerosis. We further describe 737 trans-eQTLs for 526 unique variants and 108 unique genes. We used brain-specific gene-co-regulation networks to link GWAS loci and prioritize additional genes for five central nervous system diseases. This study represents a valuable resource for post-GWAS research on central nervous system diseases.

Indexed as

Brain DiseasesQuantitative Trait LociBrainGene Regulatory NetworksGenome-Wide Association StudyHumansPhenotypePolymorphism, Single Nucleotide

Identifiers

PMID36823318
PMCPMC10011140
OpenAlexW4321611595

What OpenQuestion holds

Textfull text, public
LicenceCC BY
measurements read56
identifiers read1
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.