https://divingintogeneticsandgenomics.com/tags/homer/ Recent content in Homer on Chatomics Hugo -- gohugo.io en-us © 2018 Ming 'Tommy' Tang Wed, 30 Oct 2013 18:35:00 -0700 https://divingintogeneticsandgenomics.com/archive/my-first-play-with-gro-seq-data-from-sam-to-bedgraph-for-visualization/ Wed, 30 Oct 2013 18:35:00 -0700 https://divingintogeneticsandgenomics.com/archive/my-first-play-with-gro-seq-data-from-sam-to-bedgraph-for-visualization/ GRO-seq (Global run on sequencing) is a technique to capture nascent RNAs in a global manner. Different from RNA-seq which sequences the matured mRNA to infer gene expression level, GRO-seq sequences the newly generated short RNAs to infer RNApol2 binding or the production of enhancer RNAs. It was first carried out by John T.Lis at Cornell University. See their science paper in 2008: Nascent RNA Sequencing Reveals Widespread Pausing and Divergent Initiation at Human Promoters https://divingintogeneticsandgenomics.com/archive/a-very-good-introduction-of-ngs-analysis-in-the-homer-page/ Sat, 01 Jun 2013 16:48:00 -0700 https://divingintogeneticsandgenomics.com/archive/a-very-good-introduction-of-ngs-analysis-in-the-homer-page/ See the link here: http://biowhat.ucsd.edu/homer/basicTutorial/index.html Setting up your computing environment Next-generation sequencing analysis is a compute intensive process. Your average laptop is probably not up to the challenge. Most software is geared toward UNIX style operating systems, with large servers in mind. Typically, analysis algorithms will be distributed by researchers in one of three ways: Stand alone program to run in a UNIX environment (most common) Webserver where you upload data to be analyzed (i.