Evidence map›Paper›PMID 41006818›Full record

ArticleInternational journal of obesity (2005)2025

Integrating genetic and transcriptomic data to identify genes underlying obesity risk loci.

Hanfei Xu, Shreyash Gupta, Ian Dinsmore, Abbey Kollu, Anne Marie Cawley, Mohammad Y Anwar, Hung-Hsin Chen, Lauren E Petty, Sudha Seshadri, Misa Graff and 18 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in International journal of obesity (2005), 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing 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

2 citing papers in PubMed.

  1. Management of Childhood Obesity.International journal of molecular sciences · 2026
    Review
  2. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

28 authors.

Hanfei XuDepartment of Biostatistics, School of Public Health, Boston University, Boston, MA, USA. hfxu@bu.edu.ORCID 0000-0003-1318-0816
Shreyash GuptaDepartment of Population Health Sciences, Geisinger, Danville, PA, USA.ORCID 0009-0001-0661-7429
Ian DinsmoreDepartment of Genomic Health, Geisinger, Danville, PA, USA.
Abbey KolluDepartment of Psychology and Neuroscience, University of North Carolina, Chapel Hill, NC, USA.
Anne Marie CawleyMarsico Lung Institute, University of North Carolina, Chapel Hill, NC, USA.
Mohammad Y AnwarDepartment of Epidemiology, Gillings School of Global Public Health, University of North Carolina, Chapel Hill, NC, USA.
Hung-Hsin ChenInstitute of Biomedical Sciences, Academia Sinica, Taipei, Nangang District, Taiwan.ORCID 0000-0002-1921-2797
Lauren E PettyVanderbilt Genetics Institute, Division of Genetic Medicine, Vanderbilt University Medical Center, Nashville, TN, USA.
Sudha SeshadriDepartment of Biostatistics, School of Public Health, Boston University, Boston, MA, USA.
Misa GraffDepartment of Epidemiology, Gillings School of Global Public Health, University of North Carolina, Chapel Hill, NC, USA.ORCID 0000-0001-6380-1735
Jennifer E BelowVanderbilt Genetics Institute, Division of Genetic Medicine, Vanderbilt University Medical Center, Nashville, TN, USA.
Jennifer A BrodyDepartment of Medicine, Cardiovascular Health Research Unit, University of Washington, Seattle, WA, USA.
Geetha ChittoorDepartment of Population Health Sciences, Geisinger, Danville, PA, USA.ORCID 0000-0001-6443-6012
Susan P Fisher-HochDepartment of Epidemiology, School of Public Health, UT Health Houston, Regional Academic Health Center, Brownsville, TX, USA.
Nancy L Heard-CostaFramingham Heart Study, Framingham, MA, USA.ORCID 0000-0001-9730-0306
Daniel LevyPopulation Sciences Branch, National Heart, Lung, and Blood Institute of the National Institutes of Health, Bethesda, MD, USA.
Honghuang LinDepartment of Medicine, University of Massachusetts Chan Medical School, Worcester, MA, USA.ORCID 0000-0003-3043-3942
Ruth J F LoosCharles Bronfman Institute for Personalized Medicine at Mount Sinai, Icahn School of Medicine at Mount Sinai, New York, NY, USA.ORCID 0000-0002-8532-5087
Joseph B MccormickDepartment of Epidemiology, School of Public Health, UT Health Houston, Regional Academic Health Center, Brownsville, TX, USA.ORCID 0000-0002-5844-8102
Jerome I RotterDepartment of Pediatrics, The Institute for Translational Genomics and Population Sciences, The Lundquist Institute for Biomedical Innovation at Harbor-UCLA Medical Center, Torrance, CA, USA.ORCID 0000-0001-7191-1723
Tooraj MirshahiDepartment of Genomic Health, Geisinger, Danville, PA, USA.ORCID 0000-0002-0754-3820
Christopher D StillCenter for Obesity and Metabolic Health, Geisinger, Danville, PA, USA.
Anita DestefanoDepartment of Biostatistics, School of Public Health, Boston University, Boston, MA, USA.
L Adrienne CupplesDepartment of Biostatistics, School of Public Health, Boston University, Boston, MA, USA.
Karen L MohlkeDepartment of Genetics, School of Medicine, University of North Carolina, Chapel Hill, NC, USA.ORCID 0000-0001-6721-153X
Kari E North *Department of Epidemiology, Gillings School of Global Public Health, University of North Carolina, Chapel Hill, NC, USA.ORCID 0000-0002-8903-0366
Anne E Justice *Department of Population Health Sciences, Geisinger, Danville, PA, USA.ORCID 0000-0002-8903-8712
Ching-Ti Liu *Department of Biostatistics, School of Public Health, Boston University, Boston, MA, USA. ctliu@bu.edu.ORCID 0000-0002-0703-0742

Funding

EPIDEMIOLOGY OF NEURAL RESERVE AND NEUROBIOLOGY IN AGINGR01AG017917 · NIA · RUSH UNIVERSITY MEDICAL CENTER · PI DAVID ALAN BENNETT · 2001 to 2023
$11.9M
SUPPLEMENT TO RUSH ALZHEIMERS DISEASE CENTER COREP30AG010161 · RUSH UNIVERSITY MEDICAL CENTER · 1991 to 2005
$10.7M
MOUSE BREEDIDNG COLONY FOR ALZHEIMER RESEARCHP30AG013846 · BOSTON UNIVERSITY MEDICAL CAMPUS · 1996 to 2005
$7.0M
RISK FACTORS, PATHOLOGY, AND CLINICAL EXPRESSIONS OF ADR01AG015819 · NIA · RUSH UNIVERSITY MEDICAL CENTER · PI DAVID ALAN BENNETT · 1998 to 2024
$6.0M
Polygenic Risk Scores for Diverse Populations - Bridging Research and Clinical CareR01HL151152 · NHLBI · FRED HUTCHINSON CANCER CENTER · PI Christopher R Gignoux, Charles L Kooperberg · 2023 to 2023
$5.2M
Translational Analysis CoreP30DK058404 · VANDERBILT UNIVERSITY MEDICAL CENTER · 2002 to 2025
$4.9M
EPIDEMIOLOGY OF DEMENTIA IN THE FRAMINGHAM STUDYR01AG008122 · BOSTON UNIVERSITY MEDICAL CAMPUS · 1989 to 2005
$3.9M
Obesity and Type II Diabetes PilotP20MD000170 · UNIVERSITY OF TEXAS HLTH SCI CTR HOUSTON · 2003 to 2005
$3.8M
Rush Alzheimer's Disease Research CenterP30AG072975 · RUSH UNIVERSITY MEDICAL CENTER · 2025 to 2025
$3.1M
Leveraging Hispanic/Latino diversity to map and characterize cardiovascular disease lociR01HL163262 · NHLBI · UNIV OF NORTH CAROLINA CHAPEL HILL · 2024 to 2025
$1.4M
Integrative multi-omics for discovery of molecular pathways associated with diabetic retinopathyR01EY036258 · VANDERBILT UNIVERSITY MEDICAL CENTER · 2025 to 2025
$741k
IDENTIFICATION OF COMMON GENETIC VARIANTS FOR ATRIAL FIBRILLATION AND PR INTERVALR01HL092577 · MASSACHUSETTS GENERAL HOSPITAL · 2025 to 2025
$715k
NCATS NIH HHS UL1 TR000371NEI NIH HHS R01 EY036258NHGRI NIH HHS R01 HG010297NHLBI NIH HHS 75N92019D00031NHLBI NIH HHS HHSN268201500001CNHLBI NIH HHS HHSN268201500001INHLBI NIH HHS N01 HC025195NHLBI NIH HHS R01 HL092577NHLBI NIH HHS R01 HL142302NHLBI NIH HHS R01 HL143885NHLBI NIH HHS R01 HL151152NHLBI NIH HHS R01 HL163262NIA NIH HHS P30 AG010161NIA NIH HHS P30 AG013846NIA NIH HHS P30 AG072975NIA NIH HHS R01 AG008122NIA NIH HHS R01 AG015819NIA NIH HHS R01 AG017917NIA NIH HHS R01 AG054076NIA NIH HHS RF1 AG054156NIA NIH HHS U01 AG046152NIA NIH HHS U01 AG061356NICHD NIH HHS R01 HD057194NIDDK NIH HHS P30 DK058404NIDDK NIH HHS R01 DK099269NIDDK NIH HHS R01 DK122503NIMHD NIH HHS P20 MD000170
6 · The paper itself

Abstract

backgroundGenome-wide association studies (GWAS) have identified numerous body mass index (BMI) loci. However, most underlying mechanisms from risk locus to BMI remain unknown. Leveraging omics data through integrative analyses could provide more comprehensive views of biological pathways on BMI.

methodsWe analyzed genotype and blood gene expression data from up to 5619 samples in the Framingham Heart Study (FHS). Using 3992 single-nucleotide polymorphisms (SNPs) at 97 BMI loci and 1408 transcripts within 1 Mb, we performed separate association analyses of transcript with BMI and SNP with transcript (P

resultsAmong 308 significant SNP-transcript-BMI associations, we identified seven genes (NT5C2, GSTM3, SNAPC3, SPNS1, TMEM245, YPEL3, and ZNF646) in five association regions. We generalized results for SNAPC3 and YPEL3 in Hispanic ancestry sample, for YPEL3 in the nucleus accumbens, ZNF646 and GSTM3 in VAT, and NT5C2, SNAPC3, TMEM245, YPEL3, and ZNF646 in liver.

conclusionThe identified genes help link the genetic variation at obesity-risk loci to biological mechanisms and health outcomes, thus translating GWAS findings to function.

Indexed as

ObesityTranscriptomeBody Mass IndexFemaleGenetic Predisposition to DiseaseGenome-Wide Association StudyHumansMaleMiddle AgedPolymorphism, Single NucleotideRisk Factors

Identifiers

PMID41006818
PMCPMC12583137

What Socratic holds

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Registered trials

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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.