Cellular architecture of human brain metastases

Mitochondrial stress induced by continuous stimulation under hypoxia rapidly drives T cell exhaustion

(2021) Nicole E. Scharping et al.   NATURE IMMUNOLOGY

Metabolic support of tumour-infiltrating regulatory T cells by lactic acid

(2021) McLane J. Watson et al.   NATURE

A single-cell and spatially resolved atlas of human breast cancers

(2021) Sunny Z. Wu et al.   NATURE GENETICS

The Human Tumor Atlas Network: Charting Tumor Transitions across Space and Time at Single-Cell Resolution

(2020) Orit Rozenblatt-Rosen et al.   CELL

Single-Cell Mapping of Human Brain Cancer Reveals Tumor-Specific Instruction of Tissue-Invading Leukocytes

(2020) Ekaterina Friebel et al.   CELL

Interrogation of the Microenvironmental Landscape in Brain Tumors Reveals Disease-Specific Alterations of Immune Cells

(2020) Florian Klemm et al.   CELL

Visualizing and interpreting cancer genomics data via the Xena platform

(2020) Mary J. Goldman et al.   NATURE BIOTECHNOLOGY

Lymph node metastases develop through a wider evolutionary bottleneck than distant metastases

(2020) Johannes G. Reiter et al.   NATURE GENETICS

Single-cell RNA sequencing demonstrates the molecular and cellular reprogramming of metastatic lung adenocarcinoma

(2020) Nayoung Kim et al.   Nature Communications

Generalizing RNA velocity to transient cell states through dynamical modeling

(2020) Volker Bergen et al.   NATURE BIOTECHNOLOGY

Impaired mitochondrial oxidative phosphorylation limits the self-renewal of T cells exposed to persistent antigen

(2020) Santosha A. Vardhana et al.   NATURE IMMUNOLOGY

Emerging Immunotherapies in the Treatment of Brain Metastases

(2020) Edwin Nieblas‐Bedolla et al.   ONCOLOGIST

Distinct Populations of Immune-Suppressive Macrophages Differentiate from Monocytic Myeloid-Derived Suppressor Cells in Cancer

(2020) Taekyoung Kwak et al.   Cell Reports

Tinagl1 Suppresses Triple-Negative Breast Cancer Progression and Metastasis by Simultaneously Inhibiting Integrin/FAK and EGFR Signaling

(2019) Minhong Shen et al.   CANCER CELL

Brain metastases

(2019) Achal Singh Achrol et al.   Nature Reviews Disease Primers

Determining cell type abundance and expression from bulk tissues with digital cytometry

(2019) Aaron M. Newman et al.   NATURE BIOTECHNOLOGY

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

(2019) Cyril Neftel et al.   CELL

Metascape provides a biologist-oriented resource for the analysis of systems-level datasets

(2019) Yingyao Zhou et al.   Nature Communications

PEG10 promoter-driven expression of reporter genes enables molecular imaging of lethal prostate cancer

(2019) Mariya Shapovalova et al.   CANCER RESEARCH

Synaptic proximity enables NMDAR signalling to promote brain metastasis

(2019) Qiqun Zeng et al.   NATURE

Landscape and Dynamics of Single Immune Cells in Hepatocellular Carcinoma

(2019) Qiming Zhang et al.   CELL

Pan-cancer whole-genome analyses of metastatic solid tumours

(2019) Peter Priestley et al.   NATURE

Immune effector monocyte–neutrophil cooperation induced by the primary tumor prevents metastatic progression of breast cancer

(2019) Catharina Hagerling et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Tumor microenvironment-derived S100A8/A9 is a novel prognostic biomarker for advanced melanoma patients and during immunotherapy with anti-PD-1 antibodies

(2019) Nikolaus B. Wagner et al.   Journal for ImmunoTherapy of Cancer

CONICS integrates scRNA-seq with DNA sequencing to map gene expression to tumor sub-clones

(2018) Sören Müller et al.   BIOINFORMATICS

Single-Cell Transcriptome Analyses Reveal Endothelial Cell Heterogeneity in Tumors and Changes following Antiangiogenic Treatment

(2018) Qi Zhao et al.   CANCER RESEARCH

Single-Cell Map of Diverse Immune Phenotypes in the Breast Tumor Microenvironment

(2018) Elham Azizi et al.   CELL

Integrating single-cell transcriptomic data across different conditions, technologies, and species

(2018) Andrew Butler et al.   NATURE BIOTECHNOLOGY

Understanding the tumor immune microenvironment (TIME) for effective therapy

(2018) Mikhail Binnewies et al.   NATURE MEDICINE

STAT3 labels a subpopulation of reactive astrocytes required for brain metastasis

(2018) Neibla Priego et al.   NATURE MEDICINE

Reactive astrocytic S1P3 signaling modulates the blood–tumor barrier in brain metastases

(2018) Brunilde Gril et al.   Nature Communications

DNA methyltransferase inhibition upregulates MHC-I to potentiate cytotoxic T lymphocyte responses in breast cancer

(2018) Na Luo et al.   Nature Communications

Compensation of Signal Spillover in Suspension and Imaging Mass Cytometry

(2018) Stéphane Chevrier et al.   Cell Systems

RNA velocity of single cells

(2018) Gioele La Manno et al.   NATURE

A molecular atlas of cell types and zonation in the brain vasculature

(2018) Michael Vanlandewijck et al.   NATURE

Roles of the immune system in cancer: from tumor initiation to metastatic progression

(2018) Hugo Gonzalez et al.   GENES & DEVELOPMENT

Innate and acquired immune surveillance in the postdissemination phase of metastasis

(2017) Hugo Gonzalez et al.   FEBS Journal

Cancer genomics: Human metastases under scrutiny

(2017) G. Steven Bova   NATURE

Integrative clinical genomics of metastatic cancer

(2017) Dan R. Robinson et al.   NATURE

Decoupling genetics, lineages, and microenvironment in IDH-mutant gliomas by single-cell RNA-seq

(2017) Andrew S. Venteicher et al.   SCIENCE

The H19-PEG10/IGF2BP3 axis promotes gastric cancer progression in patients with high lymph node ratios

(2017) Satoru Ishii et al.   Oncotarget

The Tumor Microenvironment Represses T Cell Mitochondrial Biogenesis to Drive Intratumoral T Cell Metabolic Insufficiency and Dysfunction

(2016) Nicole E. Scharping et al.   IMMUNITY

PEG10 promotes human breast cancer cell proliferation, migration and invasion

(2016) XINRAN LI et al.   INTERNATIONAL JOURNAL OF ONCOLOGY

Visualization of immediate immune responses to pioneer metastatic cells in the lung

(2016) Mark B. Headley et al.   NATURE

Carcinoma–astrocyte gap junctions promote brain metastasis by cGAMP transfer

(2016) Qing Chen et al.   NATURE

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

(2016) Itay Tirosh et al.   NATURE

The impact of cerebral metastases growth pattern on neurosurgical treatment

(2016) Marcel A. Kamp et al.   NEUROSURGICAL REVIEW

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

(2016) I. Tirosh et al.   SCIENCE

Identification of Meflin as a Potential Marker for Mesenchymal Stromal Cells

(2016) Keiko Maeda et al.   Scientific Reports

destiny: diffusion maps for large-scale single-cell data in R

(2015) Philipp Angerer et al.   BIOINFORMATICS

Diffusion maps for high-dimensional single-cell analysis of differentiation data

(2015) Laleh Haghverdi et al.   BIOINFORMATICS

Immune Checkpoint Targeting in Cancer Therapy: Toward Combination Strategies with Curative Potential

(2015) Padmanee Sharma et al.   CELL

FlowSOM: Using self-organizing maps for visualization and interpretation of cytometry data

(2015) Sofie Van Gassen et al.   CYTOMETRY PART A

Epigenetic silencing of TH1-type chemokines shapes tumour immunity and immunotherapy

(2015) Dongjun Peng et al.   NATURE

Microenvironment-induced PTEN loss by exosomal microRNA primes brain metastasis outgrowth

(2015) Lin Zhang et al.   NATURE

Palladium-based mass tag cell barcoding with a doublet-filtering scheme and single-cell deconvolution algorithm

(2015) Eli R Zunder et al.   Nature Protocols

Serpins Promote Cancer Cell Survival and Vascular Co-Option in Brain Metastasis

(2014) Manuel Valiente et al.   CELL

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

(2014) A. P. Patel et al.   SCIENCE

GSVA: gene set variation analysis for microarray and RNA-Seq data

(2013) Sonja Hänzelmann et al.   BMC BIOINFORMATICS

PEG1/MEST and IGF2 DNA methylation in CIN and in cervical cancer

(2013) A. C. Vidal et al.   Clinical & Translational Oncology

Normalization of mass cytometry data with bead standards

(2013) Rachel Finck et al.   CYTOMETRY PART A

Dopamine Receptor D3 Expressed on CD4+ T Cells Favors Neurodegeneration of Dopaminergic Neurons during Parkinson's Disease

(2013) H. Gonzalez et al.   JOURNAL OF IMMUNOLOGY

Inferring tumour purity and stromal and immune cell admixture from expression data

(2013) Kosuke Yoshihara et al.   Nature Communications

Matrix Metalloproteinases: Regulators of the Tumor Microenvironment

(2010) Kai Kessenbrock et al.   CELL

Macrophage Diversity Enhances Tumor Progression and Metastasis

(2010) Bin-Zhi Qian et al.   CELL

flowCore: a Bioconductor package for high throughput flow cytometry

(2009) Florian Hahne et al.   BMC BIOINFORMATICS

Genes that mediate breast cancer metastasis to the brain

(2009) Paula D. Bos et al.   NATURE

Cthrc1 Selectively Activates the Planar Cell Polarity Pathway of Wnt Signaling by Stabilizing the Wnt-Receptor Complex

(2008) Shinji Yamamoto et al.   DEVELOPMENTAL CELL