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Description
Whole-exome and targeted sequencing of plasmacytoid bladder cancer, an aggressive histologic variant with a high risk of disease-specific mortality. This dataset contains summary data visualizations and sequencing data of 34 plasmacytoid-variant (signet ring cell) tumors of the bladder from 31 patients. Clinical data includes detailed cancer type, mutation count, information about mutated genes, patient demographics, disease progression among other relevant data points. The data set also includes copy-number segment data downloadable as .seg files and viewable via the Integrative Genomics Viewer.
Subject of Study
Homo sapiens
Subject(s)
DNA Mutational Analysis
Plasmacytoma/genetics
Urinary Bladder Neoplasms
OncoTree Cancer Type(s)
Bladder Urothelial Carcinoma
Plasmacytoid/Signet Ring Cell Bladder Carcinoma
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.
Associated Publications
Al-Ahmadie H, Iyer G, Lee B, et al. Frequent somatic CDH1 loss-of-function mutations in plasmacytoid variant bladder cancer. Nature Genetics. 2016; 48(4):356-358.
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
Dataset Size
85 KB
Data Catalog Record Updated
2021-10-19