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10.1186/s12859-016-0991-z http://scihub22266oqcxt.onion/10.1186/s12859-016-0991-z C4806451!4806451!27009150     free     free     free Deprecated: Implicit conversion from float 217.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Deprecated: Implicit conversion from float 217.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Deprecated: Implicit conversion from float 217.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Deprecated: Implicit conversion from float 217.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534       BMC+Bioinformatics 2016 ; 17 (ä): ä Nephropedia Template TP {{tp|p=27009150|t=2016. Detecting broad domains and narrow peaks in ChIP-seq data with hiddenDomains |pdf=|usr=}}{{27009150}} gab.com Text Detecting broad domains and narrow peaks in ChIP-seq data with hiddenDomains JO: BMC Bioinformatics http://www.kidney.de/pget.php?&tw=1&pmid=27009150 #FOAvip Background: Correctly identifying genomic regions enriched with histone modifications and transcription factors is key to understanding their regulatory and developmental roles. Conceptually, these regions are divided into two categories, narrow peaks and broad domains, and different algorithms are used to identify each one. Datasets that span these two categories are often analyzed with a single program for peak calling combined with an ad hoc method for domains. Results: We developed hiddenDomains, which identifies both peaks and domains, and compare it to the leading algorithms using H3K27me3, H3K36me3, GABP, ESR1 and FOXA ChIP-seq datasets. The output from the programs was compared to qPCR-validated enriched and depleted sites, predicted transcription factor binding sites, and highly-transcribed gene bodies. With every method, hiddenDomains, performed as well as, if not better than algorithms dedicated to a specific type of analysis. Conclusions: hiddenDomains performs as well as the best domain and peak calling algorithms, making it ideal for analyzing ChIP-seq datasets, especially those that contain a mixture of peaks and domains. Electronic supplementary material: The online version of this article (doi:10.1186/s12859-016-0991-z) contains supplementary material, which is available to authorized users. Twit Text FOAVip Detecting broad domains and narrow peaks in ChIP-seq data with hiddenDomains ????BMC Bioinformatics http://www.kidney.de/pget.php?&tw=1&pmid=27009150 #FOAvip Twit Text # Free Paper on # # # # # LINK http://www.kidney.de/pget.php?&tw=1&pmid=27009150 #FOAvip English Wikipedia <ref>{{Cite pmid|27009150}}</ref> Detecting broad domains and narrow peaks in ChIP-seq data with hiddenDomains #MMPMID27009150 Starmer J; Magnuson T BMC Bioinformatics 2016[]; 17 (ä): ä PMID27009150show ga Background: Correctly identifying genomic regions enriched with histone modifications and transcription factors is key to understanding their regulatory and developmental roles. Conceptually, these regions are divided into two categories, narrow peaks and broad domains, and different algorithms are used to identify each one. Datasets that span these two categories are often analyzed with a single program for peak calling combined with an ad hoc method for domains. Results: We developed hiddenDomains, which identifies both peaks and domains, and compare it to the leading algorithms using H3K27me3, H3K36me3, GABP, ESR1 and FOXA ChIP-seq datasets. The output from the programs was compared to qPCR-validated enriched and depleted sites, predicted transcription factor binding sites, and highly-transcribed gene bodies. With every method, hiddenDomains, performed as well as, if not better than algorithms dedicated to a specific type of analysis. Conclusions: hiddenDomains performs as well as the best domain and peak calling algorithms, making it ideal for analyzing ChIP-seq datasets, especially those that contain a mixture of peaks and domains. Electronic supplementary material: The online version of this article (doi:10.1186/s12859-016-0991-z) contains supplementary material, which is available to authorized users. äDetecting broad domains and narrow peaks in ChIP-seq data with hiddenD(epmc).pdf DeepDyve Pubget Overpricing