ArticleNature methods2015
Robust enumeration of cell subsets from tissue expression profiles.
2 registry-linked trialsAbstract read
In one paragraph
Article in Nature methods, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. It is linked to 2 registered trials, which are not on this map. Cited by 9,232 papers.
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9,232citing papers in PubMed
–field-weighted citation impact
What it found
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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.
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.
Canadian Atezolizumab Precision Targeting for Immunotherapy Intervention
Advanced Immune Gene and Cell Therapies for Liver Metastases
Who cites it
9,232 citing papers in PubMed.
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- PRTN3 drives immunosuppression in KRAS-mutant lung adenocarcinoma through proteolytic inactivation of CXCL9.Journal for immunotherapy of cancer · 2026Article
- ERG Orchestrates a Dedifferentiation-Senescence-Inflammation Triad in Prostate Cancer.Molecular cancer research : MCR · 2026Article
- Bisphenol A Exposure Perturbs the Immune Microenvironment in Alzheimer's Disease: Insights from Network Toxicology and Single-Cell Transcriptomics.Journal of molecular neuroscience : MN · 2026Article
- Sex-specific molecular signatures in persistent pain after whiplash injury: an exploratory analysis.Pain reports · 2026Article
- SSX1 and TRIM58 expression stratifies lung squamous cell carcinoma by tumor immune microenvironment characteristics and informs potential immunotherapy responsiveness.Clinical & translational oncology : official publication of the Federation of Spanish Oncology Societies and of the National Cancer Institute of Mexico · 2026Article
9,172 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
9 authors.
Aaron M Newman1] Institute for Stem Cell Biology and Regenerative Medicine, Stanford University, Stanford, California, USA. [2] Department of Medicine, Division of Oncology, Stanford Cancer Institute, Stanford University, Stanford, California, USA.
Chih Long Liu1] Institute for Stem Cell Biology and Regenerative Medicine, Stanford University, Stanford, California, USA. [2] Department of Medicine, Division of Oncology, Stanford Cancer Institute, Stanford University, Stanford, California, USA.
Michael R Green1] Department of Medicine, Division of Oncology, Stanford Cancer Institute, Stanford University, Stanford, California, USA. [2] Center for Cancer Systems Biology, Stanford University, Stanford, California, USA.ORCID 0000000163099472
Andrew J Gentles1] Center for Cancer Systems Biology, Stanford University, Stanford, California, USA. [2] Department of Radiology, Stanford University, Stanford, California, USA.ORCID 0000000209419858
Weiguo FengDepartment of Radiation Oncology, Stanford University, Stanford, California, USA.
Yue XuDepartment of Cardiothoracic Surgery, Division of Thoracic Surgery, Stanford University, Stanford, California, USA.
Chuong D HoangDepartment of Cardiothoracic Surgery, Division of Thoracic Surgery, Stanford University, Stanford, California, USA.
Maximilian Diehn1] Institute for Stem Cell Biology and Regenerative Medicine, Stanford University, Stanford, California, USA. [2] Department of Radiation Oncology, Stanford University, Stanford, California, USA. [3] Stanford Cancer Institute, Stanford University, Stanford, California, USA.
Ash A Alizadeh1] Institute for Stem Cell Biology and Regenerative Medicine, Stanford University, Stanford, California, USA. [2] Department of Medicine, Division of Oncology, Stanford Cancer Institute, Stanford University, Stanford, California, USA. [3] Center for Cancer Systems Biology, Stanford University, Stanford, California, USA. [4] Stanford Cancer Institute, Stanford University, Stanford, California, USA. [5] Department of Medicine, Division of Hematology, Stanford Cancer Institute, Stanford University, Stanford, California, USA.ORCID 0000000251535625
Funding
Using a tonsil organoid system to probe conditions for the induction of protective antibody and T cell responses to influenza.U19AI057229 · NIAID · STANFORD UNIVERSITY · PI Mark Morris Davis · 2003 to 2026
$88.5MLeveraging innovative technologies in basic and clinical cancer researchT32CA009302 · NCI · STANFORD UNIVERSITY · PI LAURA D ATTARDI, Aaron M Newman · 1985 to 2026
$19.1MVaccination and infection: indicators of immunological health and responsivenessU19AI090019 · NIAID · STANFORD UNIVERSITY · PI DAVIS, MARK MORRIS · 2010 to 2015
$17.3MMODELING THE ROLE OF PROGRESSION IN FOLLICULAR LYMPHOMAU54CA149145 · NCI · STANFORD UNIVERSITY · PI PLEVRITIS, SYLVIA KATINA · 2010 to 2014
$12.1MSpatial-Genomic Integrative Multi-Species Analysis of Lymph Node MetastasisU54CA209971 · NCI · STANFORD UNIVERSITY · PI NOLAN, GARRY P, PLEVRITIS, SYLVIA KATINA · 2016 to 2021
$11.0MModeling the Molecular Determinants of Induced Anti-Tumor Immune Responses in Mantle Cell LymphomaU01CA194389 · NCI · STANFORD UNIVERSITY · PI ALIZADEH, ASH ARASH, DAVIS, MARK MORRIS · 2015 to 2019
$3.1MClinically-Relevant Regulatory Networks in the Lung Tumor MicroenvironmentU01CA154969 · NCI · STANFORD UNIVERSITY · PI CLARKE, MICHAEL, PLEVRITIS, SYLVIA KATINA · 2011 to 2015
$2.8MGenetic Basis of Signaling Heterogeneity in Human Follicular LymphomaR01CA151748 · NCI · STANFORD UNIVERSITY · PI LEVY, RONALD · 2011 to 2015
$2.4MNCI NIH HHS 5T32 CA09302-35NCI NIH HHS R01 CA151748NCI NIH HHS T32 CA009302NCI NIH HHS U01 CA154969NCI NIH HHS U01 CA194389NCI NIH HHS U54 CA149145NCI NIH HHS U54 CA209971NIAID NIH HHS U19 AI057229NIAID NIH HHS U19 AI090019
Abstract
We introduce CIBERSORT, a method for characterizing cell composition of complex tissues from their gene expression profiles. When applied to enumeration of hematopoietic subsets in RNA mixtures from fresh, frozen and fixed tissues, including solid tumors, CIBERSORT outperformed other methods with respect to noise, unknown mixture content and closely related cell types. CIBERSORT should enable large-scale analysis of RNA mixtures for cellular biomarkers and therapeutic targets (http://cibersort.stanford.edu/).
Indexed as
TranscriptomeBiomarkersGene Expression RegulationHumansPalatine TonsilReproducibility of ResultsRNASoftwareTissue Culture TechniquesTissue PreservationBiomarkersRNA
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Read underepoch 390
Registered trials
NCT04273061ClinicalTrials.gov
NCT04622423ClinicalTrials.gov
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.