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Results Found: 7
  • Colorectal Adenocarcinoma (TCGA, PanCancer Atlas) data

    Description

    This dataset contains summary data visualizations and clinical data from a broad sampling of 594 colorectal adenocarcinomas from 594 patients. The data was gathered as part of the PanCancer Atlas initiative, which aims to answer big, overarching questions about cancer by examining the full set of tumors characterized in the robust TCGA dataset. The clinical data includes mutation count, information...

    Subject
    Adenocarcinoma, Mucinous
    Colonic Neoplasms
    Colorectal Neoplasms
    DNA Mutational Analysis
    Rectal Neoplasms
    Access Rights
    Free to All
  • MSK-IMPACT Clinical Sequencing Cohort (MSKCC, Nat Med 2017): Targeted sequencing of 10,000 clinical cases using the MSK-IMPACT assay

    Description

    This dataset contains summary data visualizations and clinical data from the targeted sequencing of 10,000 clinical cases using the MSK-IMPACT assay. The clinical data includes mutation count, information about mutated genes, tumor mutational burden calculations, tissue site from which the sample was derived, tumor purity among other relevant data points. The data set also includes copy-number segment...

    Subject
    Adenocarcinoma
    Adenocarcinoma of Lung
    Adenocarcinoma, Mucinous
    Breast Neoplasms
    Carcinoma, Ductal, Breast
    Carcinoma, Hepatocellular
    Carcinoma, Lobular
    Carcinoma, Non-Small-Cell Lung
    Carcinoma, Renal Cell
    Carcinoma, Squamous Cell
    Carcinosarcoma
    Cholangiocarcinoma
    Colonic Neoplasms
    Colorectal Neoplasms
    Cystadenocarcinoma, Serous
    DNA Mutational Analysis
    Gallbladder Neoplasms
    Glioblastoma
    Liposarcoma
    Lung Neoplasms
    Lymphoma, Follicular
    Melanoma
    Mesothelioma
    Neoplasms, Squamous Cell
    Neurofibroma
    Oligodendroglioma
    Osteosarcoma
    Ovarian Neoplasms
    Pancreatic Neoplasms
    Prostatic Neoplasms
    Rectal Neoplasms
    Sarcoma
    Sarcoma, Synovial
    Squamous Cell Carcinoma of Head and Neck
    Stomach Neoplasms
    Thyroid Cancer, Papillary
    Urinary Bladder Neoplasms
    Uterine Neoplasms
    Uveal Neoplasms
    Access Rights
    Free to All
  • Metastatic Colorectal Cancer (MSKCC, Cancer Cell 2018): Targeted sequencing of 1,134 metastatic colorectal tumor/normal pairs.

    Description

    This dataset contains the summary data visualizations and clinical data from targeted sequencing of 1,099 metastatic colorectal tumor/normal pairs from 1,134 patients. Clinical data includes: Number of Samples Per Patient, Mutation Count, Fraction Genome Altered, Overall Survival Status, Sample Type, Sex, Age at Diagnosis, Chemo Exposure of sequenced specimen, First Site of Metastasis, Gene Panel,...

    Subject
    Colonic Neoplasms
    Colorectal Neoplasms
    Access Rights
    Free to All
  • Cell type-dependent differential activation of ERK by oncogenic KRAS in human colon cancer and mouse intestinal epithelium

    Authors
    Brandt, Raphael
    Sell, Thomas
    Lüthen, Mareen
    Uhlitz, Florian
    13 more author(s)...
    Description

    Summary from GEO: "Mutations activating the KRAS GTPase or the BRAF kinase are frequent in colorectal cancer and are thought to constitutively activate the terminal mitogen-activated protein kinase, ERK. Using mass cytometry, we found graded phosphorylation of ERK anti-correlated with cell differentiation in patient-derived colorectal cancer organoids, and unexpectedly this gradient was observed...

    Subject
    Cell Differentiation
    Colonic Neoplasms
    Genes, ras
    Mitogen-Activated Protein Kinases
    Phosphorylation
    Proto-Oncogene Proteins B-raf
    RNA-Seq
    Single-Cell Analysis
    Access Rights
    Free to All
  • Supplemental material for Misclassification simulation extrapolation method for a Weibull accelerated failure time model

    Authors
    Sevilimedu Veeravalli, Srinivasa Vardan
    Yu, Lili
    Samawi, Hani
    Description

    This dataset carries out simulation studies to investigate the impact of misclassification simulation extrapolation method on a Weibull accelerated failure time model. The proposed method is then applied to colon cancer data obtained from the cancer registry at Memorial Sloan Kettering Cancer Center. This dataset provides the simulation results with n=1000 for section 4.2 – section 4.6 in the associated...

    Subject
    Colonic Neoplasms
    Computer Simulation
    Data Interpretation, Statistical
    Survival Analysis
    Access Rights
    Free to All
  • Molecular Epidemiology of Colorectal Cancer (MECC) Metastasis Study: A Germline Variant on Chromosome 4q31.1 Associates with Susceptibility to Developing Colon Cancer Metastasis

    Authors
    Gruber, Stephen B.
    Rennert, Gad
    Markowitz, Sanford D.
    Description

    Description from dbGaP: "This study compared Ashkenazi Jewish individuals with Stage IV metastatic colon cancer to those with non-metastatic Stage I or II colon cancers. A genome-wide association study, using a 2-stage design, identified a significant association with rs60745952."

    Subject
    Colonic Neoplasms
    Genome-Wide Association Study
    Genomics
    Neoplasm Metastasis
    Access Rights
    Application Required
  • Ribosome dynamics following arginine deprivation in colon cancer cells

    Authors
    Hsu, Dennis J.
    Description

    Summary from GEO: "To investigate ribosome localization and gene expression dynamics during starvation in cancer cells, we performed RNA sequencing and ribosome profiling in RKO cells under fed and starved (12.5 uM arginine) conditions." Overall design from GEO: "Cells were kept under fed (400 uM arginine) or starved (12.5 uM arginine) conditions for 24 hours. RNA sequencing and ribosome profiling...

    Subject
    Arginine
    Colonic Neoplasms
    Ribosome Profiling
    RNA-Seq
    Access Rights
    Free to All