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10.1186/s13059-017-1165-7 http://scihub22266oqcxt.onion/10.1186/s13059-017-1165-7 C5326502!5326502!28235418     free     free     free Deprecated: Implicit conversion from float 229.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Deprecated: Implicit conversion from float 229.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Deprecated: Implicit conversion from float 229.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Deprecated: Implicit conversion from float 229.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Deprecated: Implicit conversion from float 229.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Deprecated: Implicit conversion from float 229.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534       Genome+Biol 2017 ; 18 (ä): ä Nephropedia Template TP {{tp|p=28235418|t=2017. BaalChIP: Bayesian analysis of allele-specific transcription factor binding in cancer genomes |pdf=|usr=}}{{28235418}} gab.com Text BaalChIP: Bayesian analysis of allele-specific transcription factor binding in cancer genomes JO: Genome Biol http://www.kidney.de/pget.php?&tw=1&pmid=28235418 #FOAvip Allele-specific measurements of transcription factor binding from ChIP-seq data are key to dissecting the allelic effects of non-coding variants and their contribution to phenotypic diversity. However, most methods of detecting an allelic imbalance assume diploid genomes. This assumption severely limits their applicability to cancer samples with frequent DNA copy-number changes. Here we present a Bayesian statistical approach called BaalChIP to correct for the effect of background allele frequency on the observed ChIP-seq read counts. BaalChIP allows the joint analysis of multiple ChIP-seq samples across a single variant and outperforms competing approaches in simulations. Using 548 ENCODE ChIP-seq and six targeted FAIRE-seq samples, we show that BaalChIP effectively corrects allele-specific analysis for copy-number variation and increases the power to detect putative cis-acting regulatory variants in cancer genomes.Electronic supplementary material: The online version of this article (doi:10.1186/s13059-017-1165-7) contains supplementary material, which is available to authorized users. Twit Text FOAVip BaalChIP: Bayesian analysis of allele-specific transcription factor binding in cancer genomes ????Genome Biol http://www.kidney.de/pget.php?&tw=1&pmid=28235418 #FOAvip Twit Text # Free Paper on # # # # # LINK http://www.kidney.de/pget.php?&tw=1&pmid=28235418 #FOAvip English Wikipedia <ref>{{Cite pmid|28235418}}</ref> BaalChIP: Bayesian analysis of allele-specific transcription factor binding in cancer genomes #MMPMID28235418 de Santiago I; Liu W; Yuan K; O?Reilly M; Chilamakuri CSR; Ponder BAJ; Meyer KB; Markowetz F Genome Biol 2017[]; 18 (ä): ä PMID28235418show ga Allele-specific measurements of transcription factor binding from ChIP-seq data are key to dissecting the allelic effects of non-coding variants and their contribution to phenotypic diversity. However, most methods of detecting an allelic imbalance assume diploid genomes. This assumption severely limits their applicability to cancer samples with frequent DNA copy-number changes. Here we present a Bayesian statistical approach called BaalChIP to correct for the effect of background allele frequency on the observed ChIP-seq read counts. BaalChIP allows the joint analysis of multiple ChIP-seq samples across a single variant and outperforms competing approaches in simulations. Using 548 ENCODE ChIP-seq and six targeted FAIRE-seq samples, we show that BaalChIP effectively corrects allele-specific analysis for copy-number variation and increases the power to detect putative cis-acting regulatory variants in cancer genomes.Electronic supplementary material: The online version of this article (doi:10.1186/s13059-017-1165-7) contains supplementary material, which is available to authorized users. äBaalChIP: Bayesian analysis of allele-specific transcription factor bi(epmc).pdf DeepDyve Pubget Overpricing