Evidence mapPaperPMID 42539175Full record

ArticlebioRxiv : the preprint server for biology2026

Integrating single-cell and bulk transcriptomic perturbation resources reveals complementary therapeutic spaces for drug repurposing.

Enock Niyonkuru, Umair Khan, Xinyu Tang, Laura Almonte, Eden Chun, Brenda Ametepe, Carlota Pereda Serras, Boris Oskotsky, Brice Gaudillière, David K Stevenson and 4 more

Abstract readPreprint
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

14 authors.

Enock NiyonkuruBakar Computational Health Sciences Institute, University of California, San Francisco; San Francisco, CA, USA.ORCID 0000-0002-7981-8133
Umair KhanBakar Computational Health Sciences Institute, University of California, San Francisco; San Francisco, CA, USA.ORCID 0000-0002-6361-4996
Xinyu TangBakar Computational Health Sciences Institute, University of California, San Francisco; San Francisco, CA, USA.ORCID 0000-0002-4567-4012
Laura AlmonteBakar Computational Health Sciences Institute, University of California, San Francisco; San Francisco, CA, USA.
Eden ChunBakar Computational Health Sciences Institute, University of California, San Francisco; San Francisco, CA, USA.ORCID 0009-0006-8857-101X
Brenda AmetepeBakar Computational Health Sciences Institute, University of California, San Francisco; San Francisco, CA, USA.ORCID 0009-0007-5914-4999
Carlota Pereda SerrasBakar Computational Health Sciences Institute, University of California, San Francisco; San Francisco, CA, USA.ORCID 0000-0003-1625-215X
Boris OskotskyBakar Computational Health Sciences Institute, University of California, San Francisco; San Francisco, CA, USA.ORCID 0000-0002-9364-7051
Brice GaudillièreDepartment of Anesthesiology, Perioperative and Pain Medicine, Stanford School of Medicine, Stanford, CA, USA.ORCID 0000-0002-3475-5706
David K StevensonDepartment of Pediatrics, Stanford University School of Medicine, Stanford, CA, USA.ORCID 0000-0002-7127-0281
Jessica NeelyDivision of Pediatric Rheumatology, Department of Pediatrics, University of California, San Francisco; San Francisco, CA, USA.ORCID 0000-0003-0420-7933
Linda C GiudiceDepartment of Obstetrics, Gynecology, and Reproductive Sciences, University of California, San Francisco; San Francisco, CA, USA.ORCID 0000-0002-1677-0822
Tomiko OskotskyBakar Computational Health Sciences Institute, University of California, San Francisco; San Francisco, CA, USA.ORCID 0000-0001-7393-5120
Marina SirotaBakar Computational Health Sciences Institute, University of California, San Francisco; San Francisco, CA, USA.ORCID 0000-0002-7246-6083

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Transcriptome-based drug repurposing can accelerate therapeutic discovery, but is limited by fragmented resources, inconsistent quality control, and reliance on single perturbation databases. We developed CDRPipe (

Identifiers

PMID42539175
PMCPMC13419695

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.