Evidence map›Paper›PMID 33060578›Full record

ArticleNature communications2020

Aberrant methylation underlies insulin gene expression in human insulinoma.

Esra Karakose, Huan Wang, William Inabnet, Rajesh V Thakker, Steven Libutti, Gustavo Fernandez-Ranvier, Hyunsuk Suh, Mark Stevenson, Yayoi Kinoshita, Michael Donovan and 11 more

Open access · goldAbstract read
In one paragraph

Article in Nature communications, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
12citing papers in PubMed, 1 pooled it
1.8field-weighted citation impact, top 14% 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

12 citing papers in PubMed, 1 synthesis or guideline pooled it, 15 citations in OpenAlex.

  1. Pooled it
  2. Review
  3. Article
  4. Review
  5. Article
  6. Approach to the Patient: Insulinoma.The Journal of clinical endocrinology and metabolism · 2024
    Article
  7. Article
  8. Article
  9. Review
  10. Article
  11. Article
  12. 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

21 authors at 5 institutions in 2 countries.

Esra KarakoseFrom the Diabetes Obesity and Metabolism Institute, The Department of Surgery, The Department of Pathology, The Department of Genetics and Genomics Sciences and The Institute for Genomics and Multiscale Biology, The Icahn School of Medicine at Mount Sinai, New York, NY, 10029, USA.
Huan WangSema4, Stamford, CT, 06902, USA.ORCID 0000-0001-5628-5250
William InabnetFrom the Diabetes Obesity and Metabolism Institute, The Department of Surgery, The Department of Pathology, The Department of Genetics and Genomics Sciences and The Institute for Genomics and Multiscale Biology, The Icahn School of Medicine at Mount Sinai, New York, NY, 10029, USA.
Rajesh V ThakkerThe Academic Endocrine Unit, University of Oxford, OX3 7LJ, Oxford, UK.ORCID 0000-0002-1438-3220
Steven LibuttiThe Cancer Institute of New Jersey, New Brunswick, NJ, 08901, USA.
Gustavo Fernandez-RanvierFrom the Diabetes Obesity and Metabolism Institute, The Department of Surgery, The Department of Pathology, The Department of Genetics and Genomics Sciences and The Institute for Genomics and Multiscale Biology, The Icahn School of Medicine at Mount Sinai, New York, NY, 10029, USA.ORCID 0000-0002-1467-5098
Hyunsuk SuhFrom the Diabetes Obesity and Metabolism Institute, The Department of Surgery, The Department of Pathology, The Department of Genetics and Genomics Sciences and The Institute for Genomics and Multiscale Biology, The Icahn School of Medicine at Mount Sinai, New York, NY, 10029, USA.
Mark StevensonThe Academic Endocrine Unit, University of Oxford, OX3 7LJ, Oxford, UK.ORCID 0000-0001-8616-0205
Yayoi KinoshitaFrom the Diabetes Obesity and Metabolism Institute, The Department of Surgery, The Department of Pathology, The Department of Genetics and Genomics Sciences and The Institute for Genomics and Multiscale Biology, The Icahn School of Medicine at Mount Sinai, New York, NY, 10029, USA.
Michael DonovanFrom the Diabetes Obesity and Metabolism Institute, The Department of Surgery, The Department of Pathology, The Department of Genetics and Genomics Sciences and The Institute for Genomics and Multiscale Biology, The Icahn School of Medicine at Mount Sinai, New York, NY, 10029, USA.
Yevgeniy AntipinFrom the Diabetes Obesity and Metabolism Institute, The Department of Surgery, The Department of Pathology, The Department of Genetics and Genomics Sciences and The Institute for Genomics and Multiscale Biology, The Icahn School of Medicine at Mount Sinai, New York, NY, 10029, USA.
Yan LiThe Department of Genetics and Genome Sciences, Case Western Reserve University, Cleveland, OH, 44106, USA.
Xiaoxiao LiuThe Department of Genetics and Genome Sciences, Case Western Reserve University, Cleveland, OH, 44106, USA.ORCID 0000-0001-8115-8624
Fulai JinThe Department of Genetics and Genome Sciences, Case Western Reserve University, Cleveland, OH, 44106, USA.ORCID 0000-0003-0025-4337
Peng WangFrom the Diabetes Obesity and Metabolism Institute, The Department of Surgery, The Department of Pathology, The Department of Genetics and Genomics Sciences and The Institute for Genomics and Multiscale Biology, The Icahn School of Medicine at Mount Sinai, New York, NY, 10029, USA.ORCID 0000-0002-9031-9861
Andrew UzilovFrom the Diabetes Obesity and Metabolism Institute, The Department of Surgery, The Department of Pathology, The Department of Genetics and Genomics Sciences and The Institute for Genomics and Multiscale Biology, The Icahn School of Medicine at Mount Sinai, New York, NY, 10029, USA.ORCID 0000-0002-5411-9280
Carmen ArgmannFrom the Diabetes Obesity and Metabolism Institute, The Department of Surgery, The Department of Pathology, The Department of Genetics and Genomics Sciences and The Institute for Genomics and Multiscale Biology, The Icahn School of Medicine at Mount Sinai, New York, NY, 10029, USA.ORCID 0000-0002-1110-8012
Eric E SchadtFrom the Diabetes Obesity and Metabolism Institute, The Department of Surgery, The Department of Pathology, The Department of Genetics and Genomics Sciences and The Institute for Genomics and Multiscale Biology, The Icahn School of Medicine at Mount Sinai, New York, NY, 10029, USA.ORCID 0000-0002-7892-8808
Andrew F StewartFrom the Diabetes Obesity and Metabolism Institute, The Department of Surgery, The Department of Pathology, The Department of Genetics and Genomics Sciences and The Institute for Genomics and Multiscale Biology, The Icahn School of Medicine at Mount Sinai, New York, NY, 10029, USA. andrew.stewart@mssm.edu.ORCID 0000-0001-7866-5959
Donald K ScottFrom the Diabetes Obesity and Metabolism Institute, The Department of Surgery, The Department of Pathology, The Department of Genetics and Genomics Sciences and The Institute for Genomics and Multiscale Biology, The Icahn School of Medicine at Mount Sinai, New York, NY, 10029, USA.ORCID 0000-0002-1414-9223
Luca LambertiniFrom the Diabetes Obesity and Metabolism Institute, The Department of Surgery, The Department of Pathology, The Department of Genetics and Genomics Sciences and The Institute for Genomics and Multiscale Biology, The Icahn School of Medicine at Mount Sinai, New York, NY, 10029, USA.ORCID 0000-0003-3326-219X
Icahn School of Medicine at Mount Sinai · USSema4 (United States) · USCase Western Reserve University · USUniversity of Oxford · GBRutgers Cancer Institute · US

Funding

Translational Research CoreP30DK020541 · NIDDK · ALBERT EINSTEIN COLLEGE OF MEDICINE, INC · PI STREAMSON C CHUA · 2015 to 2026
$27.7M
The Human Islet Distribution Coordinating Center (UC4)UC4DK098085 · NIDDK · BECKMAN RESEARCH INSTITUTE/CITY OF HOPE · PI EVANS-MOLINA, CARMELLA, NILAND, JOYCE CAROL · 2012 to 2017
$25.6M
Robust mapping of chromatin loops from sparse or single cell Hi-C data with DeepLoopR01HG009658 · NHGRI · CASE WESTERN RESERVE UNIVERSITY · PI Fulai Jin · 2017 to 2026
$5.1M
Elucidating human beta cell transcriptional regulome with low-input genomic technologiesR01DK113185 · NIDDK · CASE WESTERN RESERVE UNIVERSITY · PI Yan Li · 2018 to 2026
$4.0M
Epigenetic Control of Human Beta Cell ProliferationR01DK116873 · NIDDK · ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI · PI ARGMANN, CARMEN, SCOTT, DONALD K. · 2018 to 2022
$3.2M
STAG2 mutations and 3D genome organization in glioblastoma multiformeR01CA267872 · NCI · GEORGETOWN UNIVERSITY · PI Fulai Jin, TODD A WALDMAN · 2022 to 2026
$2.7M
Understanding the variation of induced β-cell differentiation.R01DK131437 · NIDDK · CASE WESTERN RESERVE UNIVERSITY · PI JIN, FULAI, LI, YAN · 2022 to 2025
$2.4M
Department of HealthMedical Research Council G1000467Medical Research Council G9825289NCI NIH HHS R01 CA267872NHGRI NIH HHS R01 HG009658NIDDK NIH HHS P30 DK020541NIDDK NIH HHS R01 DK113185NIDDK NIH HHS R01 DK116873NIDDK NIH HHS R01 DK131437NIDDK NIH HHS UC4 DK098085Wellcome Trust
6 · The paper itself

Abstract

Human insulinomas are rare, benign, slowly proliferating, insulin-producing beta cell tumors that provide a molecular "recipe" or "roadmap" for pathways that control human beta cell regeneration. An earlier study revealed abnormal methylation in the imprinted p15.5-p15.4 region of chromosome 11, known to be abnormally methylated in another disorder of expanded beta cell mass and function: the focal variant of congenital hyperinsulinism. Here, we compare deep DNA methylome sequencing on 19 human insulinomas, and five sets of normal beta cells. We find a remarkably consistent, abnormal methylation pattern in insulinomas. The findings suggest that abnormal insulin (INS) promoter methylation and altered transcription factor expression create alternative drivers of INS expression, replacing canonical PDX1-driven beta cell specification with a pathological, looping, distal enhancer-based form of transcriptional regulation. Finally, NFaT transcription factors, rather than the canonical PDX1 enhancer complex, are predicted to drive INS transactivation.

Indexed as

Gene Expression Regulation, NeoplasticAdultAgedBinding SitesComputational BiologyDNA MethylationFemaleHomeodomain ProteinsHumansInsulinInsulinomaInsulin-Secreting CellsMaleMetabolic DiseasesMiddle AgedPancreatic NeoplasmsHomeodomain ProteinsInsulinpancreatic and duodenal homeobox 1 proteinTrans-ActivatorsTranscription Factors

Identifiers

PMID33060578
PMCPMC7566641
OpenAlexW3092722307

What OpenQuestion 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 OpenQuestion graph.