PPT-Analysis of ChIP-Seq Data

Biological Sequence Analysis BNFO 691602 Spring 2014 Mark Reimers Analysis of ChIPSeq Data Genomic Data Analysis Course Moscow July 2013 Mark Reimers PhD What Are the Questions Where are histone modifications. Yoon, Ph.D.. Dept. . of Epidemiology & Biostatistics. School of Medicine. University of Texas Health Science Center at San Antonio. Introduction to. Next-Generation Sequencing. Outline. Sequencing technologies. Gene regulation- promoter. Butler Genes & Dev. 2002. . Core promoter. Gene regulation- enhancer. Robert . Tjian. , "Molecular Machines that Control Genes," . Scientific American. Note!. Enhancers can lie very far from the gene. John M. Rosenfeld, Ph.D.. External Innovation Manager. EMD Millipore. Temecula, CA . Genomics & Pharmacogenomics 2015. Confidential and Property of EMD Millipore Corporation. Chromatin Biology has come a long way…. Biological Sequence Analysis. BNFO 691/602 Spring . 2014. Mark Reimers. Analysis of ChIP-Seq Data. Genomic Data Analysis Course. Moscow July 2013. Mark Reimers, . Ph.D. What Are the Questions?. Where are histone modifications?. July 13, 2015. Goal of the . course. To be able to effectively design, and interpret genomic studies of gene expression.. We will focus on RNA-seq, but the class will provide a foothold into other functional genomics assays.. John M. Rosenfeld, Ph.D.. External Innovation Manager. EMD Millipore. Temecula, CA . Genomics & Pharmacogenomics 2015. Confidential and Property of EMD Millipore Corporation. Chromatin Biology has come a long way…. Understanding the RNA-Seq evidence tracks on . the GEP UCSC Genome Browser. Wilson Leung. . 08/2016. Introduction to RNA-Seq. RNA-Seq: Massively parallel . RNA. . Seq. uencing using second or third generation sequencing technologies. * Arizona is in process of phasing out its separate CHIP program and is not enrolling new children in CHIP.. Medicaid Expansion States (14 states & Arizona). Low-Risk States with Wide Band of Separate CHIP . James C. Fleet, PhD. Distinguished Professor. Department of Nutrition Science. Pete Pascuzzi, PhD. Assistant Professor. Purdue Libraries. Day . 5. Session 30: . DNA-. seq. Applications. James C. Fleet, PhD. Most DNA is wrapped around a “histone core”, to form nucleosomes. The classical histone protein complexes bind very tightly to DNA and prevent association with other proteins. Modifications of the classical histones, or their replacement with unusual histone types under certain conditions, can “loosen” the interaction with DNA, allowing access to transcription factors, RNA polymerase, and other proteins . BMI/CS 776 . www.biostat.wisc.edu/bmi776/. Spring . 2018. Anthony Gitter. gitter@biostat.wisc.edu. These slides, excluding third-party material, are licensed under . CC BY-NC 4.0. by Anthony Gitter, Mark Craven, and Colin Dewey. 1. Part 1: . ChIP. -seq peak calling. Part 2. Analyzing . ChIP. -seq peaks. Saurabh Sinha. PowerPoint by Saba . Ghaffari. Edited by Brianna . Bucknor. & Giovanni Madrigal. Part 1: . ChIP. –Seq Peak Calling. RNA-Seq. G-OnRamp Beta Users Workshop. Wilson Leung. 07/2017. Outline. Design considerations for RNA-Seq experiments. Interpret FastQC results. Optimize alignment parameters for HISAT. Assess alignment statistics with CollectRnaSeqMetrics. 7/17/2019. Development . of Computational . Techniques for Identification of Regulatory DNA Motif. Outline. Introduction. WTSA. , a novel DNA motif identification program for . ChIP-exo. data. Applications of DNA motif identification .