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10.1093/nar/gkw674 http://scihub22266oqcxt.onion/10.1093/nar/gkw674 C5100559!5100559!27474725     free     free     free Deprecated: Implicit conversion from float 211.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Deprecated: Implicit conversion from float 211.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Deprecated: Implicit conversion from float 211.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Deprecated: Implicit conversion from float 211.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Deprecated: Implicit conversion from float 211.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Deprecated: Implicit conversion from float 211.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534       Nucleic+Acids+Res 2016 ; 44 (19): e150 Nephropedia Template TP {{tp|p=27474725|t=2016. FocalScan: Scanning for altered genes in cancer based on coordinated DNA and RNA change |pdf=|usr=}}{{27474725}} gab.com Text FocalScan: Scanning for altered genes in cancer based on coordinated DNA and RNA change JO: Nucleic Acids Res http://www.kidney.de/pget.php?&tw=1&pmid=27474725 #FOAvip Somatic genomic copy-number alterations can lead to transcriptional activation or inactivation of tumor driver or suppressor genes, contributing to the malignant properties of cancer cells. Selection for such events may manifest as recurrent amplifications or deletions of size-limited (focal) regions. While methods have been developed to identify such focal regions, finding the exact targeted genes remains a challenge. Algorithms are also available that integrate copy number and RNA expression data, to aid in identifying individual targeted genes, but specificity is lacking. Here, we describe FocalScan, a tool designed to simultaneously uncover patterns of focal copy number alteration and coordinated expression change, thus combining both principles. The method outputs a ranking of tentative cancer drivers or suppressors. FocalScan works with RNA-seq data, and unlike other tools it can scan the genome unaided by a gene annotation, enabling identification of novel putatively functional elements including lncRNAs. Application on a breast cancer data set suggests considerably better performance than other DNA/RNA integration tools. Twit Text FOAVip FocalScan: Scanning for altered genes in cancer based on coordinated DNA and RNA change ????Nucleic Acids Res http://www.kidney.de/pget.php?&tw=1&pmid=27474725 #FOAvip Twit Text # Free Paper on # # # # # LINK http://www.kidney.de/pget.php?&tw=1&pmid=27474725 #FOAvip English Wikipedia <ref>{{Cite pmid|27474725}}</ref> FocalScan: Scanning for altered genes in cancer based on coordinated DNA and RNA change #MMPMID27474725 Karlsson J; Larsson E Nucleic Acids Res 2016[Nov]; 44 (19): e150 PMID27474725show ga Somatic genomic copy-number alterations can lead to transcriptional activation or inactivation of tumor driver or suppressor genes, contributing to the malignant properties of cancer cells. Selection for such events may manifest as recurrent amplifications or deletions of size-limited (focal) regions. While methods have been developed to identify such focal regions, finding the exact targeted genes remains a challenge. Algorithms are also available that integrate copy number and RNA expression data, to aid in identifying individual targeted genes, but specificity is lacking. Here, we describe FocalScan, a tool designed to simultaneously uncover patterns of focal copy number alteration and coordinated expression change, thus combining both principles. The method outputs a ranking of tentative cancer drivers or suppressors. FocalScan works with RNA-seq data, and unlike other tools it can scan the genome unaided by a gene annotation, enabling identification of novel putatively functional elements including lncRNAs. Application on a breast cancer data set suggests considerably better performance than other DNA/RNA integration tools. äFocalScan: Scanning for altered genes in cancer based on coordinated D(epmc).pdf DeepDyve Pubget Overpricing