Evidence map›Paper›PMID 40777278›Full record

ArticlebioRxiv : the preprint server for biology2025

Clonal lineage tracing of innate immune cells in human cancer.

Vincent Liu, Katalin Sandor, Patrick K Yan, Max Miao, Yajie Yin, Robert R Stickels, Andy Y Chen, Kamir Hiam-Galvez, Jacob Gutierrez, Wenxi Zhang and 8 more

Abstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in bioRxiv : the preprint server for biology, 2025. 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. Review
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

18 authors.

Vincent LiuDepartment of Genetics, Stanford University, Stanford, CA, USA.ORCID 0000-0002-6790-6603
Katalin SandorDepartment of Pathology, Stanford University, Stanford, CA, USA.ORCID 0000-0003-2892-4865
Patrick K YanDepartment of Pathology, Stanford University, Stanford, CA, USA.
Max MiaoDepartment of Genetics, Stanford University, Stanford, CA, USA.
Yajie YinDepartment of Pathology, Stanford University, Stanford, CA, USA.
Robert R StickelsDepartment of Pathology, Stanford University, Stanford, CA, USA.
Andy Y ChenDepartment of Pathology, Stanford University, Stanford, CA, USA.
Kamir Hiam-GalvezDepartment of Pathology, Stanford University, Stanford, CA, USA.
Jacob GutierrezComputational and Systems Biology Program, Memorial Sloan Kettering Cancer Center, New York, NY, USA.
Wenxi ZhangDepartment of Pathology, Stanford University, Stanford, CA, USA.
Sairaj M SajjathRobin Chemers Neustein Laboratory of Mammalian Cell Biology and Development, Howard Hughes Medical Institute, The Rockefeller University, New York, NY 10065, USA.
Raeline ValbuenaDepartment of Genetics, Stanford University, Stanford, CA, USA.
Steven WangDepartment of Genetics, Stanford University, Stanford, CA, USA.
Bence DánielDepartment of Pathology, Stanford University, Stanford, CA, USA.ORCID 0000-0002-2410-8767
Leif S LudwigBerlin Institute of Health at Charité - Universitätsmedizin Berlin, Berlin, Germany.ORCID 0000-0002-2916-2164
Brooke E HowittDepartment of Pathology, Stanford University, Stanford, CA, USA.ORCID 0000-0002-0309-6680
Caleb LareauComputational and Systems Biology Program, Memorial Sloan Kettering Cancer Center, New York, NY, USA.ORCID 0000-0003-4179-4807
Ansuman T SatpathyDepartment of Pathology, Stanford University, Stanford, CA, USA.ORCID 0000-0002-5167-537X

Funding

X-RAY CRYSTALLOGRAPHYP30CA008748 · NCI · SLOAN-KETTERING INSTITUTE FOR CANCER RES · PI SELWYN M VICKERS · 1985 to 2026
$347.4M
Single-cell Mapping Center for Human Regulatory Elements and Gene ActivityUM1HG012076 · NHGRI · STANFORD UNIVERSITY · PI Michael Ryan Corces, Ansuman Satpathy · 2021 to 2026
$13.8M
The Human DNA virome: from petabase scale to single-cell resolutionU01AT012984 · NCCIH · SLOAN-KETTERING INST CAN RESEARCH · PI Caleb Andrew Lareau · 2024 to 2026
$5.2M
Charting somatic evolution via single-cell multiomicsR00HG012579 · NHGRI · SLOAN-KETTERING INST CAN RESEARCH · PI LAREAU, CALEB ANDREW · 2023 to 2025
$747k
NCCIH NIH HHS U01 AT012984NCI NIH HHS P30 CA008748NHGRI NIH HHS R00 HG012579NHGRI NIH HHS UM1 HG012076
6 · The paper itself

Abstract

Innate immune cells constitute the majority of the tumor microenvironment (TME), where they mediate both natural anti-tumor immunity and immunotherapy responses. While single-cell T- and B-cell receptor sequencing has provided fundamental insights into the clonal dynamics of human adaptive immunity, the lack of appropriate tools has precluded similar analysis of innate immune cells. Here, we describe a method that leverages somatic mitochondrial DNA (mtDNA) mutations to reconstruct clonal lineage relationships between single cells across cell types in native human tissues. We jointly sequenced single-cell transposase-accessible chromatin and mtDNA to profile

Identifiers

PMID40777278
PMCPMC12330704

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.