Evidence map›Paper›PMID 35763030›Full record

SynthesisDiabetologia2022

Genome-wide meta-analysis and omics integration identifies novel genes associated with diabetic kidney disease.

Niina Sandholm, Joanne B Cole, Viji Nair, Xin Sheng, Hongbo Liu, Emma Ahlqvist, Natalie van Zuydam, Emma H Dahlström, Damian Fermin, Laura J Smyth and 22 more

Open access · hybridAbstract readMeta-Analysis
In one paragraph

Synthesis in Diabetologia, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 41 papers, 2 of them syntheses that pooled it.

0numbers the graph read from it
0cells of the map it votes in
41citing papers in PubMed, 2 pooled it
14.0field-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

41 citing papers in PubMed, 2 syntheses or guidelines pooled it, 66 citations in OpenAlex.

  1. Pooled it
  2. Pooled it
  3. Review
  4. Review
  5. Article
  6. Article
  7. Article
  8. Review
  9. Exome-Wide Analysis Identifies a RareKidney international reports · 2026
    Article
  10. Article
  11. Article
  12. Article
  13. Article
  14. Article
  15. Article
  16. Article
  17. Article
  18. Article
  19. Article
  20. Review
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

32 authors at 11 institutions in 6 countries.

Niina SandholmFolkhälsan Institute of Genetics, Folkhälsan Research Center, Helsinki, Finland.ORCID https://orcid.org/0000-0003-4322-6942
Joanne B ColePrograms in Metabolism and Medical & Population Genetics, Broad Institute of MIT and Harvard, Cambridge, MA, USA.ORCID https://orcid.org/0000-0001-9520-2788
Viji NairMichigan Medicine, Ann Arbor, MI, USA.
Xin ShengRenal, Electrolyte, and Hypertension Division, Department of Medicine, University of Pennsylvania, Perelman School of Medicine, Philadelphia, PA, USA.ORCID https://orcid.org/0000-0002-3620-3577
Hongbo LiuRenal, Electrolyte, and Hypertension Division, Department of Medicine, University of Pennsylvania, Perelman School of Medicine, Philadelphia, PA, USA.ORCID https://orcid.org/0000-0002-0733-8616
Emma AhlqvistDepartment of Clinical Sciences, Lund University Diabetes Centre, Lund University and Skåne University Hospital, Malmö, Sweden.ORCID https://orcid.org/0000-0002-6513-2384
Natalie van ZuydamPat Macpherson Centre for Pharmacogenetics & Pharmacogenomics, Cardiovascular & Diabetes Medicine, School of Medicine, University of Dundee, Dundee, UK.ORCID https://orcid.org/0000-0002-9809-1398
Emma H DahlströmFolkhälsan Institute of Genetics, Folkhälsan Research Center, Helsinki, Finland.ORCID https://orcid.org/0000-0003-1271-8696
Damian FerminMichigan Medicine, Ann Arbor, MI, USA.
Laura J SmythMolecular Epidemiology Research Group, Centre for Public Health, Queen's University Belfast, Belfast, UK.ORCID https://orcid.org/0000-0001-6419-4826
Rany M SalemHerbert Wertheim School of Public Health and Human Longevity Science, University of California San Diego, La Jolla, CA, USA.ORCID https://orcid.org/0000-0001-8816-6862
Carol ForsblomFolkhälsan Institute of Genetics, Folkhälsan Research Center, Helsinki, Finland.ORCID https://orcid.org/0000-0002-3354-7454
Erkka ValoFolkhälsan Institute of Genetics, Folkhälsan Research Center, Helsinki, Finland.ORCID https://orcid.org/0000-0003-0672-554X
Valma HarjutsaloFolkhälsan Institute of Genetics, Folkhälsan Research Center, Helsinki, Finland.ORCID https://orcid.org/0000-0003-3568-9779
Eoin P BrennanDiabetes Complications Research Centre, Conway Institute, School of Medicine, University College Dublin, Dublin, Ireland.ORCID https://orcid.org/0000-0003-4908-5474
Gareth J McKayMolecular Epidemiology Research Group, Centre for Public Health, Queen's University Belfast, Belfast, UK.ORCID https://orcid.org/0000-0001-8197-6280
Darrell AndrewsDiabetes Complications Research Centre, Conway Institute, School of Medicine, University College Dublin, Dublin, Ireland.ORCID https://orcid.org/0000-0002-3452-6858
Ross DoyleDiabetes Complications Research Centre, Conway Institute, School of Medicine, University College Dublin, Dublin, Ireland.ORCID https://orcid.org/0000-0002-0169-4572
Helen C LookerChronic Kidney Disease Section, National Institute of Diabetes and Digestive and Kidney Diseases, Phoenix, AZ, USA.
Robert G NelsonChronic Kidney Disease Section, National Institute of Diabetes and Digestive and Kidney Diseases, Phoenix, AZ, USA.ORCID https://orcid.org/0000-0001-7307-3786
Colin PalmerPat Macpherson Centre for Pharmacogenetics & Pharmacogenomics, Cardiovascular & Diabetes Medicine, School of Medicine, University of Dundee, Dundee, UK.ORCID https://orcid.org/0000-0002-6415-6560
Amy Jayne McKnightMolecular Epidemiology Research Group, Centre for Public Health, Queen's University Belfast, Belfast, UK.ORCID https://orcid.org/0000-0002-7482-709X
Catherine GodsonDiabetes Complications Research Centre, Conway Institute, School of Medicine, University College Dublin, Dublin, Ireland.ORCID https://orcid.org/0000-0003-0655-1041
Alexander P MaxwellMolecular Epidemiology Research Group, Centre for Public Health, Queen's University Belfast, Belfast, UK.ORCID https://orcid.org/0000-0002-6110-7253
Leif GroopDepartment of Clinical Sciences, Lund University Diabetes Centre, Lund University and Skåne University Hospital, Malmö, Sweden.ORCID https://orcid.org/0000-0002-0187-3263
Mark I McCarthyOxford Centre for Diabetes, Endocrinology & Metabolism, Radcliffe Department of Medicine, University of Oxford, Oxford, UK.
Matthias KretzlerMichigan Medicine, Ann Arbor, MI, USA.ORCID https://orcid.org/0000-0003-4064-0582
Katalin SusztakRenal, Electrolyte, and Hypertension Division, Department of Medicine, University of Pennsylvania, Perelman School of Medicine, Philadelphia, PA, USA.ORCID https://orcid.org/0000-0002-1005-3726
Joel N HirschhornPrograms in Metabolism and Medical & Population Genetics, Broad Institute of MIT and Harvard, Cambridge, MA, USA. Joel.Hirschhorn@childrens.harvard.edu.
Jose C FlorezPrograms in Metabolism and Medical & Population Genetics, Broad Institute of MIT and Harvard, Cambridge, MA, USA.ORCID https://orcid.org/0000-0002-1730-9325
Per-Henrik GroopFolkhälsan Institute of Genetics, Folkhälsan Research Center, Helsinki, Finland. per-henrik.groop@helsinki.fi.ORCID https://orcid.org/0000-0003-4055-6954
GENIE Consortium
University of Helsinki · FIQueen's University Belfast · GBUniversity College Dublin · IEBroad Institute · USMichigan Medicine · USUniversity of Pennsylvania · USCentre for Human Genetics · GBNational Institute of Diabetes and Digestive and Kidney Diseases · USLund University · SEUniversity of California San Diego · USUniversity of Dundee · GB

Funding

Regional Pilot And Feasibility Study Grants ProgramP30DK020572 · NIDDK · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI DAVID P OLSON · 2013 to 2026
$24.3M
Epidemiology, Pathophysiology and Treatment of Diabetic NephropathyZIADK069062 · NIDDK · NATIONAL INSTITUTE OF DIABETES AND DIGESTIVE AND KIDNEY DISEASES · PI NELSON, ROBERT G · 2009 to 2023
$10.1M
A functional genomics pipeline for genetic discovery in diabetic kidney diseaseR01DK132299 · NIDDK · BROAD INSTITUTE, INC. · PI JOSE CARLOS FLOREZ, JOEL N HIRSCHHORN · 2022 to 2026
$3.2M
Integrative genomic, epigenetic and functional studies in diabetic kidney diseaseR01DK105154 · NIDDK · BROAD INSTITUTE, INC. · PI FLOREZ, JOSE CARLOS, HIRSCHHORN, JOEL N · 2016 to 2019
$3.0M
Genetically harmonized dietary intake and causal relationships with diabetes-related outcomesK99DK127196 · NIDDK · MASSACHUSETTS GENERAL HOSPITAL · PI COLE, JOANNE BURNETTE · 2021 to 2022
$178k
Medical Research Council MC_PC_15025Medical Research Council MC_PC_22005NIDDK NIH HHS K99 DK127196NIDDK NIH HHS P30 DK020572NIDDK NIH HHS R01 DK105154NIDDK NIH HHS R01 DK132299
6 · The paper itself

Abstract

aims/hypothesisDiabetic kidney disease (DKD) is the leading cause of kidney failure and has a substantial genetic component. Our aim was to identify novel genetic factors and genes contributing to DKD by performing meta-analysis of previous genome-wide association studies (GWAS) on DKD and by integrating the results with renal transcriptomics datasets.

methodsWe performed GWAS meta-analyses using ten phenotypic definitions of DKD, including nearly 27,000 individuals with diabetes. Meta-analysis results were integrated with estimated quantitative trait locus data from human glomerular (N=119) and tubular (N=121) samples to perform transcriptome-wide association study. We also performed gene aggregate tests to jointly test all available common genetic markers within a gene, and combined the results with various kidney omics datasets.

resultsThe meta-analysis identified a novel intronic variant (rs72831309) in the TENM2 gene associated with a lower risk of the combined chronic kidney disease (eGFR<60 ml/min per 1.73 m CONCLUSIONS/

interpretationAltogether, the results point to novel genes contributing to the pathogenesis of DKD. DATA AVAILABILITY: The GWAS meta-analysis results can be accessed via the type 1 and type 2 diabetes (T1D and T2D, respectively) and Common Metabolic Diseases (CMD) Knowledge Portals, and downloaded on their respective download pages ( https://t1d.hugeamp.org/downloads.html ; https://t2d.hugeamp.org/downloads.html ; https://hugeamp.org/downloads.html ).

Indexed as

Diabetes Mellitus, Type 2Diabetic NephropathiesDoublecortin-Like KinasesFibrosisGenome-Wide Association StudyHumansIntracellular Signaling Peptides and ProteinsKidneyPolymorphism, Single NucleotideProtein Serine-Threonine KinasesDCLK1 protein, humanDoublecortin-Like KinasesIntracellular Signaling Peptides and ProteinsProtein Serine-Threonine KinasesDiabetes complicationsDiabetic kidney diseaseGeneticsGenome-wide association study; Meta-analysis; Transcriptomics

Identifiers

PMID35763030
PMCPMC9345823
OpenAlexW4283655055

What Socratic holds

Textmetadata
LicenceCC BY
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.