Evidence map›Paper›PMID 41889850›Full record

ArticlebioRxiv : the preprint server for biology2026

Patches: A Representation Learning Framework for Decoding Shared and Condition-Specific Transcriptional Programs in Wound Healing.

Ozgur Beker, Simon Van Deursen, Michel Tarnow, Dreyton Amador, Jonathan Chin Cheong, Jose Francisco Pomarino Nima, Mark D Robinson, Yvon Woappi, Bianca Dumitrascu

Abstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in bioRxiv : the preprint server for biology, 2026. 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

9 authors.

Ozgur BekerDepartment of Statistics, Columbia University, New York City, USA.ORCID 0000-0001-6226-7235
Simon Van DeursenDepartment of Physiology and Cellular Biophysics, Columbia University, New York City, USA.
Michel TarnowDepartment of Biosystems Science and Engineering, ETH Zurich, Basel, Switzerland.
Dreyton AmadorDepartment of Physiology and Cellular Biophysics, Columbia University, New York City, USA.
Jonathan Chin CheongDepartment of Physiology and Cellular Biophysics, Columbia University, New York City, USA.ORCID 0000-0003-2226-4202
Jose Francisco Pomarino NimaDepartment of Biomedical Engineering, Columbia University, New York City, USA.
Mark D RobinsonDepartment of Molecular Life Sciences and SIB Swiss Institute of Bioinformatics, University of Zurich, Zurich, Switzerland.ORCID 0000-0002-3048-5518
Yvon WoappiDepartment of Physiology and Cellular Biophysics, Columbia University, New York City, USA.ORCID 0000-0003-3177-4730
Bianca DumitrascuDepartment of Statistics, Columbia University, New York City, USA.ORCID 0000-0001-8328-2354

Funding

Delineating epigenetic coordination of regenerative cell plasticityR00GM140262 · NIGMS · COLUMBIA UNIVERSITY HEALTH SCIENCES · PI WOAPPI, YVON · 2022 to 2024
$747k
NIGMS NIH HHS R00 GM140262
6 · The paper itself

Abstract

Single-cell genomics enables the study of cell states and cell state transitions across biological conditions like aging, drug treatment, or injury. However, existing computational methods often struggle to simultaneously disentangle shared and condition-specific transcriptional patterns, particularly in experimental designs with missing data, unmatched cell populations, or complex attribute combinations. To address these challenges,

Identifiers

PMID41889850
PMCPMC13015382

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC
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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.