MSK Data Catalog

Description: The Pan-Cancer Atlas (PanCanAtlas) initiative aims to answer big, overarching questions about cancer by examining the full set of tumors characterized in the robust TCGA dataset. The Cancer Genome Atlas (TCGA) Research Network has profiled and analyzed large numbers of human tumors to discover molecular aberrations at the DNA, RNA, protein and epigenetic levels. The resulting rich data provide a major...
Subject: Gene Expression Profiling

Neoplasms/genetics

Oncogenes

Signal Transduction
Access Rights: Free to All

Free to all with registration

Authors: Imielinski, Marcin
Description: Description from GitHub: "JaBbA builds a genome graph based on junctions and read depth from whole genome sequencing, inferring optimal copy numbers for both vertices (DNA segments) and edges (bonds between segments). It can be used for discovering various patterns of structural variations. If you use JaBbA in your work, please cite: Distinct Classes of Complex Structural Variation Uncovered across...
Subject: DNA Copy Number Variations

Genomics

Mutation/genetics

Neoplasms/genetics

Whole Genome Sequencing
Access Rights: Free to All

Authors: Berger, Michael Forman
Description: Description from dbGaP: "These clinical specimens represent solid tumors and matched blood controls that were collected as part of patients' routine care at Memorial Sloan Kettering Cancer Center. They were sequenced on the targeted platform MSK-IMPACT. Here, we performed germline variant calling on the normal blood specimens and assessed their zygosity in the concomitant tumor specimens for comprehensive...
Subject: Genetic Risk Score

Germ-Line Mutation

Neoplasms/genetics
Access Rights: Application Required

Authors: Rothman, Nathaniel

Garcia-Closas, Montserrat

Silverman, Debra

Chanock, Stephen

18 more author(s)...
Description: Description from dbGaP: "This study funded by the National Cancer Institute (NCI) involves conducting a genome-wide association study of common genetic variants to identify markers of susceptibility to bladder cancer. This bladder GWAS has led to the discovery of three novel regions in the genome associated with bladder cancer risk. Cases were defined as individuals having histologically confirmed...
Subject: Genome-Wide Association Study

Genomics

Neoplasms/genetics

Polymorphism, Single Nucleotide

Urinary Bladder Neoplasms
Access Rights: Application Required

Authors: Taylor, Barry Stephen

Drilon, Alexander E.

Rosen, Ezra Y.

D'Angelo, Sandra Pierina

3 more author(s)...
Description: Description from dbGaP: "The study cohort comprises samples from patients whose tumors have been prospectively characterized as part of their care at Memorial Sloan Kettering Cancer Center. This includes a variety of distinct tumor type and molecular subtypes."
Subject: Exome Sequencing

Neoplasms/genetics
Access Rights: Application Required

Authors: Poirier, John T.
Description: Description from dbGaP: "Genetic and epigenetic analysis of patient-derived xenograft models of acquired chemoresistance in small cell lung cancer."
Subject: Drug Resistance, Neoplasm

Epigenetics

Neoplasms/genetics

Small Cell Lung Carcinoma
Access Rights: Application Required

Authors: Poirier, John T.
Description: Description from dbGaP: "Targeted capture sequencing of 341 cancer associated genes in thoracic patient-derived xenografts."
Subject: Heterografts

Neoplasms/genetics

Thoracic Neoplasms
Access Rights: Application Required