Esophageal Cancer-TRAP Project (MSK, Lancet Oncol 2020): Targeted and WES recapture sequencing of tumor/normal samples from 37 Esophageal Cancer patients.

UID: 10675

Publisher(s): Memorial Sloan Kettering Cancer Center

Description: This dataset contains the summary data visualizations and clinical data from targeted and WES recapturesequencing of tumor/normal samples from 37 Esophageal Cancer patients. Clinical data includes: Number of Samples Per Patient, Mutation Count, Fraction Genome Altered, Sequencing Type, Sex, Race Category, Sample Type, 2L Treatment, 3L Treatment, Achieved 6-month PFS, Baseline ECOG, Baseline ERBB2 any NGS, Baseline ERBB2 plasma NGS, Baseline ERBB2 tissue NGS, Baseline external HER2 IHC/FISH, Baseline internal HER2 IHC/FISH, Baseline MSK ERBB2 status (IHC, FISH, or tissue/plasma NGS), Baseline PD-L1 status, Baseline RTK-RAS altered, Best response (%). The plaintext components of the dataset can be downloaded as a tar file. The clinical data can be downloaded as a tsv file. The dataset 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)

Esophagus/Stomach

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.
Associated Publications: Janjigian Y, Maron S, Chatila W, et al. First-line pembrolizumab and trastuzumab in HER2-positive oesophageal, gastric, or gastro-oesophageal junction cancer: An open-label, single-arm, phase 2 trial. Lancet Oncology. 2020; 21(6):821-831.
Data Type: Genomic
Software Used: Integrative Genomics Viewer (IGV)
High-performance visualization tool for interactive exploration of large, integrated genomic datasets.
Dataset Format(s): TSV, TAR, SEG
Data Tool(s): MSK-IMPACT

WES
Dataset Size: 5.4 MB (TAR), 38.4 KB (TSV), 107 KB (SEG)

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