Evidence mapPaperPMID 39072016Full record

ArticlemedRxiv : the preprint server for health sciences2025

Shared and unique 3D genomic features of substance use disorders across multiple cell types.

Khanh B Trang, Alessandra Chesi, Sylvanus Toikumo, James A Pippin, Matthew C Pahl, Joan M O'Brien, Laufey T Amundadottir, Kevin M Brown, Wenli Yang, Jaclyn Welles and 13 more

Abstract readPreprint
In one paragraph

Article in medRxiv : the preprint server for health sciences, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing papers in PubMed
field-weighted citation impact
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

0 citing papers in PubMed.

No citing paper in PubMed yet.

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

23 authors.

Khanh B TrangCenter for Spatial and Functional Genomics, Children's Hospital of Philadelphia, Philadelphia, PA, USA.ORCID 0000-0002-9434-508X
Alessandra ChesiCenter for Spatial and Functional Genomics, Children's Hospital of Philadelphia, Philadelphia, PA, USA.ORCID 0000-0002-0954-7446
Sylvanus ToikumoMental Illness Research, Education and Clinical Center, Crescenz Veterans Affairs Medical Center, Philadelphia, PA, USA.ORCID 0000-0002-6024-0693
James A PippinCenter for Spatial and Functional Genomics, Children's Hospital of Philadelphia, Philadelphia, PA, USA.
Matthew C PahlCenter for Spatial and Functional Genomics, Children's Hospital of Philadelphia, Philadelphia, PA, USA.
Joan M O'BrienScheie Eye Institute, Department of Ophthalmology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, PA, USA.ORCID 0000-0003-4109-2928
Laufey T AmundadottirLaboratory of Translational Genomics, Division of Cancer Epidemiology and Genetics, National Cancer Institute, Bethesda, MD, USA.ORCID 0000-0003-1859-8971
Kevin M BrownLaboratory of Translational Genomics, Division of Cancer Epidemiology and Genetics, National Cancer Institute, Bethesda, MD, USA.ORCID 0000-0002-8558-6711
Wenli YangInstitute for Diabetes, Obesity and Metabolism, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA.ORCID 0000-0002-1873-2336
Jaclyn WellesInstitute for Diabetes, Obesity and Metabolism, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA.ORCID 0000-0001-7787-2825
Dominic SantoleriInstitute for Diabetes, Obesity and Metabolism, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA.ORCID 0000-0002-4468-6564
Paul M TitchenellInstitute for Diabetes, Obesity and Metabolism, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA.ORCID 0000-0002-9941-5649
Patrick SealeInstitute for Diabetes, Obesity and Metabolism, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA.ORCID 0000-0001-7119-1615
Babette S ZemelDivision of Gastroenterology, Hepatology, and Nutrition, Children's Hospital of Philadelphia, PA, USA.ORCID 0000-0002-6164-7348
Yadav WagleyDepartment of Orthopedic Surgery, University of Michigan Medical School Ann Arbor, MI, USA.ORCID 0000-0002-1261-4267
Kurt D HankensonDepartment of Orthopedic Surgery, University of Michigan Medical School Ann Arbor, MI, USA.ORCID 0000-0001-6361-143X
Klaus H KaestnerInstitute for Diabetes, Obesity and Metabolism, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA.ORCID 0000-0002-1228-021X
Stewart A AndersonDepartment of Child and Adolescent Psychiatry, Children's Hospital of Philadelphia, Philadelphia, PA, USA.ORCID 0000-0002-7655-5016
Matthew S KayserDepartment of Psychiatry, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA.
Andrew D WellsCenter for Spatial and Functional Genomics, Children's Hospital of Philadelphia, Philadelphia, PA, USA.ORCID 0000-0002-3630-2145
Henry R KranzlerMental Illness Research, Education and Clinical Center, Crescenz Veterans Affairs Medical Center, Philadelphia, PA, USA.ORCID 0000-0002-1018-0450
Rachel L KemberMental Illness Research, Education and Clinical Center, Crescenz Veterans Affairs Medical Center, Philadelphia, PA, USA.ORCID 0000-0001-8820-2659
Struan F A GrantCenter for Spatial and Functional Genomics, Children's Hospital of Philadelphia, Philadelphia, PA, USA.ORCID 0000-0003-2025-5302

Funding

Univ of Pennsylvania Diabetes Endocrinology Res CTRP30DK019525 · UNIVERSITY OF PENNSYLVANIA · 1986 to 2025
$10.9M
Discovery of osteoblast and osteoclast bone mass effector genes using advanced genomicsR01AG072705 · UNIVERSITY OF MICHIGAN AT ANN ARBOR · 2025 to 2025
$639k
Leveraging GWAS Findings to Map Variants and Identify Novel Effector Genes for Alcohol-Related TraitsR01AA030056 · UNIVERSITY OF PENNSYLVANIA · 2025 to 2025
$625k
Variant-to-gene mapping for brain related traits and disordersR35HG011959 · UNIVERSITY OF PENNSYLVANIA · 2025 to 2025
$455k
NHGRI NIH HHS R35 HG011959NIAAA NIH HHS R01 AA030056NIA NIH HHS R01 AG072705NICHD NIH HHS R01 HD100406NIDDK NIH HHS P30 DK019525NIDDK NIH HHS UM1 DK126194
6 · The paper itself

Abstract

Recent genome-wide association studies (GWAS) revealed shared genetic components among substance use disorders (SUDs). However, the extent of underlying shared causal variants, effector genes, and cellular contexts, remain unclear. We integrated 3D genomic datasets (high-resolution promoter-focused Capture-C/Hi-C, ATAC-seq, RNA-seq) from 59 diverse human cell types with recent GWAS summary statistics for alcohol (AUD), tobacco (TUD), opioid (OUD), and cannabis use disorder (CanUD). Using stratified LD regression, we determined the proportion of SNP heritability attributable to features in these cell types. We observed significant enrichments (

Identifiers

PMID39072016
PMCPMC11275669

What Socratic holds

Textmetadata
LicenceCC BY-NC-ND
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 Socratic graph.