Evidence map›Paper›PMID 39294124›Full record

ArticleNature communications2024

Multiomic single cell sequencing identifies stemlike nature of mixed phenotype acute leukemia.

Cheryl A C Peretz, Vanessa E Kennedy, Anushka Walia, Cyrille L Delley, Andrew Koh, Elaine Tran, Iain C Clark, Corey E Hayford, Chris D'Amato, Yi Xue and 12 more

Abstract read
In one paragraph

Article in Nature communications, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.

0numbers the graph read from it
0cells of the map it votes in
12citing 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

12 citing papers in PubMed.

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4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

22 authors.

Cheryl A C Peretz *Division of Hematology and Oncology, Department of Pediatrics, University of California San Francisco, San Francisco, CA, USA.
Vanessa E Kennedy *Division of Hematology and Oncology, Department of Medicine, University of California San Francisco, San Francisco, CA, USA.
Anushka WaliaDivision of Hematology and Oncology, Department of Medicine, University of California San Francisco, San Francisco, CA, USA.
Cyrille L DelleyDepartment of Bioengineering and Therapeutic Sciences, University of California San Francisco, San Francisco, CA, USA.
Andrew KohDivision of Hematology and Oncology, Department of Medicine, University of California San Francisco, San Francisco, CA, USA.
Elaine TranDivision of Hematology and Oncology, Department of Medicine, University of California San Francisco, San Francisco, CA, USA.
Iain C ClarkDepartment of Bioengineering, University of California Berkeley, Berkeley, CA, USA.ORCID 0000-0001-9082-0253
Corey E HayfordFluent Biosciences Inc., Watertown, MA, USA.
Chris D'AmatoFluent Biosciences Inc., Watertown, MA, USA.
Yi XueFluent Biosciences Inc., Watertown, MA, USA.
Kristina M FontanezFluent Biosciences Inc., Watertown, MA, USA.
Aaron A May-ZhangFluent Biosciences Inc., Watertown, MA, USA.ORCID 0000-0002-9017-0657
Trinity SmithersFluent Biosciences Inc., Watertown, MA, USA.ORCID 0009-0008-5033-6000
Yigal AgamFluent Biosciences Inc., Watertown, MA, USA.
Qian WangNational Clinical Research Center for Hematologic Diseases, Jiangsu Institute of Hematology, The First Affiliated Hospital of Soochow University, Suzhou, People's Republic of China.
Hai-Ping DaiNational Clinical Research Center for Hematologic Diseases, Jiangsu Institute of Hematology, The First Affiliated Hospital of Soochow University, Suzhou, People's Republic of China.ORCID 0000-0003-1125-7744
Ritu RoyHelen Diller Family Comprehensive Cancer Center, University of California San Francisco, San Francisco, CA, USA.ORCID 0000-0003-2065-7846
Aaron C LoganDivision of Hematology and Oncology, Department of Medicine, University of California San Francisco, San Francisco, CA, USA.ORCID 0000-0002-1179-5879
Alexander E PerlDepartment of Medicine, Division of Hematology-Oncology, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, PA, USA.
Adam AbateDepartment of Bioengineering and Therapeutic Sciences, University of California San Francisco, San Francisco, CA, USA.ORCID 0000-0001-9614-4831
Adam OlshenHelen Diller Family Comprehensive Cancer Center, University of California San Francisco, San Francisco, CA, USA.
Catherine C SmithHelen Diller Family Comprehensive Cancer Center, University of California San Francisco, San Francisco, CA, USA. catherine.smith@ucsf.edu.ORCID 0000-0003-0160-7026

Funding

UCSF Paul Calabresi K12 Career Development Program in Clinical OncologyK12CA260225 · NCI · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI BERGSLAND, EMILY K, BIVONA, TREVER G · 2021 to 2025
$2.6M
Illumina NovaSeq 6000 Sequencing SystemS10OD028511 · OD · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI CHOW, ERIC D · 2020 to 2020
$583k
Damon Runyon Cancer Research Foundation (Cancer Research Fund of the Damon Runyon-Walter Winchell Foundation) CI-99-18Foundation for the National Institutes of Health (Foundation for the National Institutes of Health, Inc.) K12CA260225NCI NIH HHS K12 CA260225NIH HHS S10 OD028511
6 · The paper itself

Abstract

Despite recent work linking mixed phenotype acute leukemia (MPAL) to certain genetic lesions, specific driver mutations remain undefined for a significant proportion of patients and no genetic subtype is predictive of clinical outcomes. Moreover, therapeutic strategy for MPAL remains unclear, and prognosis is overall poor. We performed multiomic single cell profiling of 14 newly diagnosed adult MPAL patients to characterize the inter- and intra-tumoral transcriptional, immunophenotypic, and genetic landscapes of MPAL. We show that neither genetic profile nor transcriptome reliably correlate with specific MPAL immunophenotypes. Despite this, we find that MPAL blasts express a shared stem cell-like transcriptional profile indicative of high differentiation potential. Patients with the highest differentiation potential demonstrate inferior survival in our dataset. A gene set score, MPAL95, derived from genes highly enriched in the most stem-like MPAL cells, is applicable to bulk RNA sequencing data and is predictive of survival in an independent patient cohort, suggesting a potential strategy for clinical risk stratification.

Indexed as

Leukemia, Biphenotypic, AcuteSingle-Cell AnalysisAdultAgedFemaleGene Expression ProfilingGene Expression Regulation, LeukemicHumansImmunophenotypingMaleMiddle AgedMutationNeoplastic Stem CellsPhenotypePrognosisSequence Analysis, RNA

Identifiers

PMID39294124
PMCPMC11411136

What Socratic holds

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LicenceCC BY
Read underepoch 390

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 Socratic graph.