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Results Found: 12
  • Single-cell Map of Diverse Immune Phenotypes in the Breast Tumor Microenvironment - 5' RNA sequencing and TCR sequencing

    Authors
    Azizi, Elham
    Carr, Ambrose James
    Plitas, George
    Cornish, Andrew Erickson
    15 more author(s)...
    Description

    Single-cell RNA sequencing was performed on three patients using the 10x genomics TCR profiling kits. For each patient, populations of T-cells were assayed for both TCR sequence and trancriptome-wide RNA-sequence. Two donors have a replicate experiment. From the GEO summary: "Knowledge of immune cell phenotypes in the tumor microenvironment is essential for understanding mechanisms of cancer progression...

    Subject
    Breast Neoplasms
    Gene Expression Profiling
    Gene Expression Regulation, Neoplastic
    Immunotherapy
    Lymphocytes, Tumor-Infiltrating
    Receptors, Antigen, T-Cell
    Transcriptome
    Tumor Microenvironment/immunology
    Access Rights
    Free to All
  • Tumor cell-intrinsic RIG-I in murine melanoma promotes checkpoint inhibitor-mediated anticancer immunity

    Description

    Durable clinical responses to immune checkpoint inhibitors (ICB) remain limited to a minority of patients, and the molecular pathways that modulate ICB efficacy remain incompletely defined. Here we demonstrate that immunotherapy with anti-CTLA-4 and its combination with anti-PD-1 rely on melanoma cell-intrinsic activation of the cytosolic RNA receptor RIG-I. Mechanistically, tumor cell-intrinsic RIG-I...

    Subject
    Immunotherapy
    RNA Helicases
    Access Rights
    Free to All
  • Single-cell Map of Diverse Immune Phenotypes in the Breast Tumor Microenvironment 3' RNA Sequencing

    Authors
    Azizi, Elham
    Carr, Ambrose James
    Plitas, George
    Cornish, Andrew Erickson
    15 more author(s)...
    Description

    Single-cell RNA sequencing was performed on eight donors using the InDrop v2 protocol. For each donor populations of CD45+ immune cells were assayed for trancriptome-wide RNA-sequence. At least one replicate was taken for each donor. From the GEO summary: "Knowledge of immune cell phenotypes in the tumor microenvironment is essential for understanding mechanisms of cancer progression and immunotherapy...

    Subject
    Breast Neoplasms
    Gene Expression Profiling
    Gene Expression Regulation, Neoplastic
    Immunotherapy
    Lymphocytes, Tumor-Infiltrating
    Receptors, Antigen, T-Cell
    Transcriptome
    Tumor Microenvironment/immunology
    Access Rights
    Free to All
  • Flow Cytometry Datasets Associated with Single-cell Map of Diverse Immune Phenotypes in the Breast Tumor Microenvironment research

    Authors
    Cornish, Andrew Erickson
    Description

    The purpose of the dataset from the Flow Repository: "To determine the degree to which populations of intratumoral T cells, especially but not limited to T regs, initially found in single cell RNA sequencing data may be reproduced in mass cytometry data." From the description on Flow Repository: The data included for each of the 3 patients (BC12, BC13, and BC14, respectively) is presented in nine...

    Subject
    Breast Neoplasms
    Gene Expression Profiling
    Gene Expression Regulation, Neoplastic
    Immunotherapy
    Leukocytes, Mononuclear
    Lymphocytes, Tumor-Infiltrating
    Tumor Microenvironment/immunology
    Timeframe
    2018
    Access Rights
    Free to All
  • Hepatocellular Carcinoma (MSK, Clin Cancer Res 2018): MSK-IMPACT sequencing of 127 Hepatocellular Carcinoma tumor samples with matched normals.

    Description

    This dataset contains summary data visualizations and clinical data from a broad sampling of hepatocellular carcinomas. The data was gathered utilizing the MSK-IMPACT targeted sequencing test. The clinical data includes mutation count, information about mutated genes, patient demographics, modality details, and disease status. The data set also includes copy-number segment data downloadable as .seg...

    Subject
    Carcinoma, Hepatocellular
    DNA Mutational Analysis
    Immunotherapy
    Liver Neoplasms
    Access Rights
    Free to All
  • TMB and Immunotherapy (MSKCC, Nat Genet 2019): Genomic and survival data from 1661 tumor-normal pairs from 1661 patients with various cancer types sequenced with the MSK-IMPACT assay.

    Description

    This dataset contains summary data visualizations and clinical data from a broad sampling of 1,661 samples of across multiple cancer types showing tumor mutational load and survival following immunotherapy from 1,661 patients. The data was gathered utilizing the MSK-IMPACT targeted sequencing test. The clinical data includes tumor type (based on the opensource OncoTree ontology developed at MSK),...

    Subject
    DNA Mutational Analysis
    Immunotherapy
    Mutation
    Tumor Burden
    Access Rights
    Free to All
  • Molecular portraits of tumor mutational and micro-environmental sculpting by immune checkpoint blockade therapy

    Authors
    Riaz, Nadeem
    Havel, Jonathan J.
    Makarov, Vladimir
    Desrichard, Alexis
    1 more author(s)...
    Description

    Summary from the GEO: "Immune checkpoint blockade (ICB) has demonstrated significant promise for the treatment of advanced malignancies. Anti-CTLA4 and ant-PD1 therapy can activate the immune system and result in durable control in diseases such as melanoma and non-small cell lung cancer. 109 RNASeq samples (58 On-treatment and 51 Pre-treatment) from 65 patients." Abstract from the publication that...

    Subject
    Carcinoma, Non-Small-Cell Lung
    Immunotherapy
    Melanoma
    Access Rights
    Free to All
  • Phenotyping tumor-immune microenvironment in vivo in skin cancer patients

    Authors
    Sahu, Aditi
    Byers, Candice
    Chandrani, Pratik
    Tembo, Teguru C.
    1 more author(s)...
    Description

    Summary from GEO: "Phenotyping of tumors into hot, altered, or cold based on assessment of only T-cell infiltration in static tumor biopsies provides suboptimal prediction of immunotherapy response. In vivo dynamic mechanisms within the tumor microenvironment such as tumor angiogenesis and leukocyte trafficking also play a central role in modulating anti-tumor immunity and therefore immunotherapy...

    Subject
    Basal Cell Carcinoma
    Gene Expression
    Immunotherapy
    Phenotype
    Skin Neoplasms
    Access Rights
    Free to All
  • Nivolumab plus ipilimumab in advanced salivary gland cancer: a phase 2 trial

    Authors
    Burman, Bharat
    Jain, Swati
    Fitzgerald, Conall W.R.
    Sherman, Eric J.
    22 more author(s)...
    Description

    Description from Zenodo: "This is a de-identified dataset accompanying the Nature Medicine publication titled "Nivolumab plus ipilimumab in advanced salivary gland cancer: a phase 2 trial", by Vos et al. (DOI: https://doi.org/10.1038/s41591-023-02518-x). It contains the clinical features and processed data of 64 patients with salivary gland cancer, treated with nivolumab and ipilimumab immunotherapy....

    Subject
    Clinical Trial, Phase II
    Immunotherapy
    Ipilimumab
    Nivolumab
    Salivary Gland Neoplasms
    Access Rights
    Free to All
  • Tumor MHC Class I Expression Associates with Interleukin-2 Response in Melanoma (raw data)

    Authors
    Pourmaleki, Maryam
    Jones, Caitlin J.
    Ariyan, Charlotte Eielson
    Zeng, Zheng
    28 more author(s)...
    Description

    Raw data (multiplexed IF and NanoString) supporting the findings of the publication "Tumor MHC Class I Expression Associates with Intralesional IL2 Response in Melanoma." The processed multiplexed IF data and sample ID key are available at (https://zenodo.org/record/7627120). All code used to produce the results of this study are available at https://github.com/cBio-MSKCC/Halo_Melanoma_IL2. Note:...

    Subject
    Immunotherapy
    Interleukin-2
    Melanoma
    Microscopy, Fluorescence
    Tumor Microenvironment
    Access Rights
    Free to All