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We began analyzing https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-015-1450-3, but it redirected us to https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-015-1450-3. The analysis below is for the second page.

Title[redir]:
The UBC-40 Urothelial Bladder Cancer cell line index: a genomic resource for functional studies | BMC Genomics | Full Text
Description:
Background Urothelial bladder cancer is a highly heterogeneous disease. Cancer cell lines are useful tools for its study. This is a comprehensive genomic characterization of 40 urothelial bladder carcinoma (UBC) cell lines including information on origin, mutation status of genes implicated in bladder cancer (FGFR3, PIK3CA, TP53, and RAS), copy number alterations assessed using high density SNP arrays, uniparental disomy (UPD) events, and gene expression. Results Based on gene mutation patterns and genomic changes we identify lines representative of the FGFR3-driven tumor pathway and of the TP53/RB tumor suppressor-driven pathway. High-density array copy number analysis identified significant focal gains (1q32, 5p13.1-12, 7q11, and 7q33) and losses (i.e. 6p22.1) in regions altered in tumors but not previously described as affected in bladder cell lines. We also identify new evidence for frequent regions of UPD, often coinciding with regions reported to be lost in tumors. Previously undescribed chromosome X losses found in UBC lines also point to potential tumor suppressor genes. Cell lines representative of the FGFR3-driven pathway showed a lower number of UPD events. Conclusions Overall, there is a predominance of more aggressive tumor subtypes among the cell lines. We provide a cell line classification that establishes their relatedness to the major molecularly-defined bladder tumor subtypes. The compiled information should serve as a useful reference to the bladder cancer research community and should help to select cell lines appropriate for the functional analysis of bladder cancer genes, for example those being identified through massive parallel sequencing.

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Keywords {🔍}

lines, cell, ubc, number, cancer, copy, article, pubmed, table, bladder, google, scholar, gene, expression, tumor, tumors, additional, data, upd, file, figure, cas, genomic, analysis, genes, fgfr, mutations, genome, chromosome, alterations, umuc, regions, altered, information, line, mutation, identified, lost, status, size, chr, urothelial, frequency, provided, losses, probes, loh, central, showed, loss,

Topics {✒️}

enrique carrillo-de-santa-pau carrillo-de-santa-pau carrillo-de santa pau bmc genomics 16 oncogene/tumor suppressor status benjamín rodríguez-santiago tumor suppressor-driven pathways fgfr3-driven pathway showed genetic/epigenetic alterations inactivate genomically unstable-high group fgfr3-driven tumor pathway full size image anticancer drug sensitivity marinela méndez-pertuz & francisco high-grade lines tended copy number calls privacy choices/manage cookies papillary/luminal tumor phenotypes copy number neutral 0 = copy number neutral specific tumor subtypes chromosome/chromosome arm gain/loss high-resolution analysis copy number alterations main oncogene involved authors scientific editing de la salut urothelial bladder carcinoma gene copy number pérez-jurado & francisco tumor suppressor genes gene-level expression values complete copy number urothelial cell carcinoma copy number data copy number analysis large structural alterations herbert barton grossman human cancer pathogenesis um-uc-7 demonstrated amplification national cancer institute understanding urothelial carcinoma van der kwast marinela méndez-pertuz institutional review board intrinsic molecular subtypes urothelial bladder tumors recurrent focal losses figure 6a shows urinary bladder cancer

Questions {❓}

P53: it has it all, but will it make it to the clinic as a marker in bladder cancer?

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      headline:The UBC-40 Urothelial Bladder Cancer cell line index: a genomic resource for functional studies
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         Microbial Genetics and Genomics
         Plant Genetics and Genomics
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