Description: This dataset contains summary data visualizations and clinical data from a broad sampling of tropomyosin receptor kinase (TRK) fusion tumors. 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), information about mutated genes, patient demographics, and modality. The data set also includes copy-number segment data downloadable as .seg files and viewable via the Integrative Genomics Viewer.

Subject of Study

Subject(s)

OncoTree Cancer Type(s)

Adenocarcinoma, NOS
Angiosarcoma
Anorectal Mucosal Melanoma
Breast Angiosarcoma
Invasive Breast Carcinoma
Breast Invasive Carcinoma, NOS
Medullary Carcinoma of the Colon
Colon Adenocarcinoma
Fibrosarcoma
Glioblastoma
Gallbladder Cancer
Glioblastoma Multiforme
High-Grade Glioma, NOS
Mammary Analogue Secretory Carcinoma of Salivary Gland Origin
Breast Invasive Ductal Carcinoma
Intrahepatic Cholangiocarcinoma
Breast Invasive Lobular Carcinoma
Inflammatory Myofibroblastic Tumor
Inflammatory Myofibroblastic Lung Tumor
Low-Grade Neuroepithelial Tumor
Lung Adenocarcinoma
Mucinous Adenocarcinoma of the Appendix
Melanoma of Unknown Primary
Uterine Sarcoma, Other
Pancreatic Adenocarcinoma
Poorly Differentiated Carcinoma, NOS
Primary Neuroepithelial Tumor
Salivary Adenocarcinoma
Salivary Carcinoma
Sarcoma, NOS
Salivary Duct Carcinoma
Cutaneous Melanoma
Spitzoid Melanoma
Anaplastic Thyroid Cancer
Papillary Thyroid Cancer
Poorly Differentiated Thyroid Cancer
Uterine Leiomyosarcoma
Undifferentiated Uterine Sarcoma

Access via cBioPortal
Access Restrictions: Free to All
Access Instructions: This cBioPortal for Cancer Genomics dataset is publicly available for viewing in tables or, for copy-number segments, via integrated IGV application. The data is also available for download in its entirety as a tarball or as individual TSV (tab separated value) or SEG files. Some features are only available by logging in with a Google or Microsoft account. These features include storing your virtual studies and groups which allows you to access your studies and groups from any computer, and to allow cBioPortal to remember your study view charts preferences for each study (i.e. order of the charts, type of charts and visibility). Login is optional and not required to access any of the other features of cBioPortal. Downloaded SEG files (tab-delimited segmented data text files that list loci and associated numeric values) can be viewed by downloading and installing the Integrative Genomics Viewer desktop application.
Data Type: Genomic
Software Used: Integrative Genomics Viewer (IGV)
High-performance visualization tool for interactive exploration of large, integrated genomic datasets.

OncoTree
Open-source ontology that was developed at Memorial Sloan Kettering Cancer Center (MSK) for standardizing cancer type diagnosis from a clinical perspective by assigning each diagnosis a unique OncoTree code.
Dataset Format(s): TSV, TAR, SEG
Data Tool(s): MSK-IMPACT
Dataset Size: 109 KB

Tumors with TRK fusions (MSK, 2019): Tumors with TRK fusions based on MSK-IMPACT targeted sequencing.