Cancer cell states recur across tumor types and form specific interactions with the tumor microenvironment

Transcriptional census of epithelial-mesenchymal plasticity in cancer

(2022) David P. Cook et al.   Science Advances

CODEX multiplexed tissue imaging with DNA-conjugated antibodies

(2021) Sarah Black et al.   Nature Protocols

The Repertoire of Serous Ovarian Cancer Non-genetic Heterogeneity Revealed by Single-Cell Sequencing of Normal Fallopian Tube Epithelial Cells

(2020) Zhiyuan Hu et al.   CANCER CELL

Integrating microarray-based spatial transcriptomics and single-cell RNA-seq reveals tissue architecture in pancreatic ductal adenocarcinomas

(2020) Reuben Moncada et al.   NATURE BIOTECHNOLOGY

Regenerative lineages and immune-mediated pruning in lung cancer metastasis

(2020) Ashley M. Laughney et al.   NATURE MEDICINE

Emergence of a High-Plasticity Cell State during Lung Cancer Evolution

(2020) Nemanja Despot Marjanovic et al.   CANCER CELL

Single-cell transcriptomic architecture and intercellular crosstalk of human intrahepatic cholangiocarcinoma

(2020) Min Zhang et al.   JOURNAL OF HEPATOLOGY

A single-cell landscape of high-grade serous ovarian cancer

(2020) Benjamin Izar et al.   NATURE MEDICINE

Therapy-Induced Evolution of Human Lung Cancer Revealed by Single-Cell RNA Sequencing

(2020) Ashley Maynard et al.   CELL

Onco-fetal Reprogramming of Endothelial Cells Drives Immunosuppressive Macrophages in Hepatocellular Carcinoma

(2020) Ankur Sharma et al.   CELL

The Stress-Like Cancer Cell State Is a Consistent Component of Tumorigenesis

(2020) Maayan Baron et al.   Cell Systems

Reference-based analysis of lung single-cell sequencing reveals a transitional profibrotic macrophage

(2019) Dvir Aran et al.   NATURE IMMUNOLOGY

Interferons α and β in cancer: therapeutic opportunities from new insights

(2019) Ernest C. Borden   NATURE REVIEWS DRUG DISCOVERY

Stem cell-associated heterogeneity in Glioblastoma results from intrinsic tumor plasticity shaped by the microenvironment

(2019) Anne Dirkse et al.   Nature Communications

Comprehensive Integration of Single-Cell Data

(2019) Tim Stuart et al.   CELL

An Integrative Model of Cellular States, Plasticity, and Genetics for Glioblastoma

(2019) Cyril Neftel et al.   CELL

Mitogenic and progenitor gene programmes in single pilocytic astrocytoma cells

(2019) Zachary J. Reitman et al.   Nature Communications

Chemoresistance Evolution in Triple-Negative Breast Cancer Delineated by Single-Cell Sequencing

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Toward Minimal Residual Disease-Directed Therapy in Melanoma

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EMT Subtype Influences Epithelial Plasticity and Mode of Cell Migration

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cGAS–STING and Cancer: Dichotomous Roles in Tumor Immunity and Development

(2018) Kevin W. Ng et al.   TRENDS IN IMMUNOLOGY

Targeting stromal remodeling and cancer stem cell plasticity overcomes chemoresistance in triple negative breast cancer

(2018) Aurélie S. Cazet et al.   Nature Communications

Biological Consequences of Major Histocompatibility Class-II Expression by Tumor Cells in Cancer

(2018) Margaret L Axelrod et al.   CLINICAL CANCER RESEARCH

Single cell RNA sequencing of human liver reveals distinct intrahepatic macrophage populations

(2018) Sonya A. MacParland et al.   Nature Communications

SCENIC: single-cell regulatory network inference and clustering

(2017) Sara Aibar et al.   NATURE METHODS

Expression of the MHC class II in triple-negative breast cancer is associated with tumor-infiltrating lymphocytes and interferon signaling

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Combating subclonal evolution of resistant cancer phenotypes

(2017) Samuel W. Brady et al.   Nature Communications

Single-cell RNA-seq supports a developmental hierarchy in human oligodendroglioma

(2016) Itay Tirosh et al.   NATURE

Visualization and analysis of gene expression in tissue sections by spatial transcriptomics

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Dissecting the multicellular ecosystem of metastatic melanoma by single-cell RNA-seq

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A Single-Cell Transcriptomic Map of the Human and Mouse Pancreas Reveals Inter- and Intra-cell Population Structure

(2016) Maayan Baron et al.   Cell Systems

Droplet Barcoding for Single-Cell Transcriptomics Applied to Embryonic Stem Cells

(2015) Allon M. Klein et al.   CELL

TM4SF1 as a prognostic marker of pancreatic ductal adenocarcinoma is involved in migration and invasion of cancer cells

(2015) BIAO ZHENG et al.   INTERNATIONAL JOURNAL OF ONCOLOGY

Epithelial-to-mesenchymal transition is not required for lung metastasis but contributes to chemoresistance

(2015) Kari R. Fischer et al.   NATURE

A Big Bang model of human colorectal tumor growth

(2015) Andrea Sottoriva et al.   NATURE GENETICS

Virtual microdissection identifies distinct tumor- and stroma-specific subtypes of pancreatic ductal adenocarcinoma

(2015) Richard A Moffitt et al.   NATURE GENETICS

Toward understanding and exploiting tumor heterogeneity

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STING-Dependent Cytosolic DNA Sensing Promotes Radiation-Induced Type I Interferon-Dependent Antitumor Immunity in Immunogenic Tumors

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Cancer Epigenetics: Tumor Heterogeneity, Plasticity of Stem-like States, and Drug Resistance

(2014) Hariharan Easwaran et al.   MOLECULAR CELL

Single-cell RNA-seq highlights intratumoral heterogeneity in primary glioblastoma

(2014) A. P. Patel et al.   SCIENCE

An expression atlas of human primary cells: inference of gene function from coexpression networks

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Laminin, gamma 2 (LAMC2): A Promising New Putative Pancreatic Cancer Biomarker Identified by Proteomic Analysis of Pancreatic Adenocarcinoma Tissues

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Chemotherapeutics and Radiation Stimulate MHC Class I Expression through Elevated Interferon-beta Signaling in Breast Cancer Cells

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Hallmarks of Cancer: The Next Generation

(2011) Douglas Hanahan et al.   CELL

The Two Faces of Interferon-  in Cancer

(2011) M. R. Zaidi et al.   CLINICAL CANCER RESEARCH

Type I interferon is selectively required by dendritic cells for immune rejection of tumors

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Subtypes of pancreatic ductal adenocarcinoma and their differing responses to therapy

(2011) Eric A Collisson et al.   NATURE MEDICINE

Tumor angiogenesis: molecular pathways and therapeutic targets

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A flexible R package for nonnegative matrix factorization

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Beta2-GPI: a novel factor in the development of hepatocellular carcinoma

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The basics of epithelial-mesenchymal transition

(2009) Raghu Kalluri et al.   JOURNAL OF CLINICAL INVESTIGATION

Tumor-associated macrophages (TAM) as major players of the cancer-related inflammation

(2009) G. Solinas et al.   JOURNAL OF LEUKOCYTE BIOLOGY

Identification of claudin-4 as a marker highly overexpressed in both primary and metastatic prostate cancer

(2008) K A Landers et al.   BRITISH JOURNAL OF CANCER

Squamous cell carcinoma of the pancreas: Case report

(2008) Karen M. King et al.   Current Oncology

The role of metallothionein in oncogenesis and cancer prognosis

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