Evidence map›Paper›PMID 40721591›Full record

ArticleScientific data2025

Temporal multiomics gene expression data of human embryonic stem cell-derived cardiomyocyte differentiation.

Abdurrahman Keskin, Hani J Shayya, Dario Sirabella, Achchhe Patel, Barbara Corneo, Marko Jovanovic

Abstract readDataset
In one paragraph

Article in Scientific data, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing 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

3 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
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

6 authors.

Abdurrahman KeskinDepartment of Biological Sciences, Columbia University, New York, NY, 10027, USA.ORCID 0000-0002-5016-6864
Hani J ShayyaMortimer B. Zuckerman Mind, Brain and Behavior Institute, Columbia University, New York, NY, 10027, USA.
Dario SirabellaColumbia Stem Cell Initiative, Stem Cell Core, Columbia University Irving Medical Center, New York, NY, 10032, USA.
Achchhe PatelColumbia Stem Cell Initiative, Stem Cell Core, Columbia University Irving Medical Center, New York, NY, 10032, USA.
Barbara CorneoColumbia Stem Cell Initiative, Stem Cell Core, Columbia University Irving Medical Center, New York, NY, 10032, USA.ORCID 0000-0001-5189-6749
Marko JovanovicDepartment of Biological Sciences, Columbia University, New York, NY, 10027, USA. mj2794@columbia.edu.

Funding

Extensive multiplexing of protein nucleic-acid interactions to comprehensively study gene expression regulation from chromatin to mRNA degradationR01HG012216 · NHGRI · COLUMBIA UNIV NEW YORK MORNINGSIDE · PI GUTTMAN, MITCHELL, JOVANOVIC, MARKO · 2022 to 2025
$3.1M
Defining the programmed proteome rejuvenation underlying gametogenesisR01AG071869 · NIA · UNIVERSITY OF CALIFORNIA BERKELEY · PI BRAR, GLORIA ANN, JOVANOVIC, MARKO · 2021 to 2025
$2.9M
Regulation of Protein Production Dynamics:RNA Binding Proteins and the Ribosome CodeR35GM128802 · NIGMS · COLUMBIA UNIV NEW YORK MORNINGSIDE · PI JOVANOVIC, MARKO · 2018 to 2022
$2.3M
The unfolded protein response as a mechanism for cellular identity in the developing olfactory systemF30DC019263 · NIDCD · COLUMBIA UNIVERSITY HEALTH SCIENCES · PI SHAYYA, HANI JOHN · 2020 to 2023
$191k
National Science Foundation (NSF) award 2224211NHGRI NIH HHS R01 HG012216NIA NIH HHS R01 AG071869NIDCD NIH HHS F30 DC019263NIGMS NIH HHS R35 GM128802U.S. Department of Health & Human Services | National Institutes of Health (NIH) F30DC019263U.S. Department of Health & Human Services | National Institutes of Health (NIH) R01AG071869U.S. Department of Health & Human Services | National Institutes of Health (NIH) R01HG012216U.S. Department of Health & Human Services | National Institutes of Health (NIH) R35GM128802
6 · The paper itself

Abstract

Human embryonic stem cells (hESCs) serve as a valuable in vitro model for studying early human developmental processes due to their ability to differentiate into all three germ layers. Here, we present a comprehensive multi-omics dataset generated by differentiating hESCs into cardiomyocytes via the mesodermal lineage, collecting samples at 10 distinct time points. We measured mRNA levels by mRNA sequencing (mRNA-seq), translation levels by ribosome profiling (Ribo-seq), and protein levels by quantitative mass spectrometry-based proteomics. Technical validation confirmed high quality and reproducibility across all datasets, with strong correlations between replicates. This extensive dataset provides critical insights into the complex regulatory mechanisms of cardiomyocyte differentiation and serves as a valuable resource for the research community, aiding in the exploration of mammalian development and gene regulation.

Indexed as

Cell DifferentiationHuman Embryonic Stem CellsMyocytes, CardiacHumansMultiomicsProteomicsRNA, MessengerTranscriptomeRNA, Messenger

Identifiers

PMID40721591
PMCPMC12304179

What OpenQuestion holds

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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.