Evidence map›Paper›PMID 42020848›Full record

ArticleNature biotechnology2026

Reference-free discovery with barcoded single-cell sequencing.

Roozbeh Dehghannasiri, Marek Kokot, Alexander L Starr, Jamie Maziarz, Tal Gordon, Serena Y Tan, Peter L Wang, Ayelet Voskoboynik, Jacob M Musser, Sebastian Deorowicz and 1 more

Abstract read
PubMed Publisher
In one paragraph

Article in Nature biotechnology, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing 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

1 citing paper in PubMed.

  1. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

11 authors.

Roozbeh Dehghannasiri *Department of Biomedical Data Science, Stanford University, Stanford, CA, USA.ORCID http://orcid.org/0000-0001-7413-3437
Marek Kokot *Department of Algorithmics and Software, Silesian University of Technology, Gliwice, Poland.ORCID http://orcid.org/0000-0002-6420-1587
Alexander L StarrDepartment of Biology, Stanford University, Stanford, CA, USA.
Jamie MaziarzDepartment of Molecular, Cellular, and Developmental Biology, Yale University, New Haven, CT, USA.ORCID http://orcid.org/0000-0002-7137-7804
Tal GordonInstitute for Stem Cell Biology and Regenerative Medicine, Stanford University, Stanford, CA, USA.
Serena Y TanDepartment of Pathology, Stanford University Medical Center, Stanford, CA, USA.ORCID http://orcid.org/0000-0001-5409-0695
Peter L WangDepartment of Biomedical Data Science, Stanford University, Stanford, CA, USA.ORCID http://orcid.org/0000-0001-9651-3860
Ayelet VoskoboynikInstitute for Stem Cell Biology and Regenerative Medicine, Stanford University, Stanford, CA, USA.
Jacob M MusserDepartment of Molecular, Cellular, and Developmental Biology, Yale University, New Haven, CT, USA.
Sebastian DeorowiczDepartment of Algorithmics and Software, Silesian University of Technology, Gliwice, Poland. sebastian.deorowicz@polsl.pl.ORCID http://orcid.org/0000-0002-9496-733X
Julia SalzmanDepartment of Biomedical Data Science, Stanford University, Stanford, CA, USA. julia.salzman@stanford.edu.ORCID http://orcid.org/0000-0001-7630-3436

Funding

Computational- and experimental- driven discovery of splicing regulation and circRNA functionR35GM139517 · NIGMS · STANFORD UNIVERSITY · PI Julia Salzman · 2021 to 2026
$2.9M
Evolutionary Conserved Mechanisms that Control Central Nervous System Development Regeneration and DegenerationR01AG076908 · NIA · STANFORD UNIVERSITY · PI Ayelet Voskoboynik · 2022 to 2026
$1.9M
Narodowe Centrum Nauki (National Science Centre) DEC-2022/45/B/ST6/03032NIGMS NIH HHS R35 GM139517U.S. Department of Health & Human Services | NIH | National Institute of General Medical Sciences (NIGMS) R35GM139517U.S. Department of Health & Human Services | NIH | National Institute on Aging (U.S. National Institute on Aging) R01AG076908
6 · The paper itself

Abstract

Single-cell RNA sequencing (scRNA-seq) analyses typically focus on alignment and differential gene expression, being blind to other transcriptome variation. Here we present sc-SPLASH for statistics-first, reference-free discovery on barcoded scRNA-seq and spatial transcriptomics; its independent BKC submodule optimizes barcoded data preprocessing and is approximately 50-fold faster than UMI-tools. sc-SPLASH discovers secreted repeat proteins in immune-like cells of sponge (Spongilla; missing from the reference) and tunicate (Ciona).

Identifiers

PMID42020848

What OpenQuestion holds

Textmetadata
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 OpenQuestion graph.