PPT-RNA-Seq RT-qPCR Act11 RT-qPCR

EF1 α RTqPCR IDE 2 0 2 4 6 AIL1 APR3 OFP7 HSP176II HSP236MITO LHCB2 ENODL18 ORA47 PNPA ARR9 log2 Expression value 5 0 5 log2 Expression value AIL1 APR3 OFP7 HSP176II. . Analysis. Team . McGill . University. and . Genome. . Quebec. Innovation Center. bioinformatics.service@mail.mcgill.ca. RNAseq. . analysis. 2. Module #: Title of Module. Why sequence RNA?. Functional studies. from Digital Gene Expression Sequencing Data. . Marius Nicolae . and Ion M. ă. ndoiu. (University of Connecticut, USA). Outline. DGE/SAGE-. Seq. protocol. EM algorithm. Experimental results. Conclusions. Outline. RNA Immuno-Precipitation (RIP). NGS on RIP & its alternatives. Alternate splicing. Transcription as a graph. Distribution of tags in exons. Pipeline on RIP-seq dataset. RNA Immuno-Precipitation (RIP). A (soon to be outdated) Tutorial. A Brief History of Sequencing and Gene Expression. Limitations of Sanger Sequencing. Low throughput. Inconsistent base quality. Expensive. Not quantitative. Frederick “. 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.. Bioinformatics . Workshop:. RNA . Seq. using Galaxy. Typical . RNA_Seq. Project Work Flow. Sequencing. Tissue Sample. . Cufflinks. . TopHat. FASTQ file. . QC. . Gene/Transcript/. Exon. Expression. 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. RNA-. seq. BMI 877. Spring . 2017. Colin Dewey. colin.dewey@wisc.edu. Overview. Some motivation: axolotl. RNA-. seq. . technology. The . RNA-. seq. . quantification problem. Generative probabilistic models and Expectation-Maximization for the quantification task. data for Peptide and Protein Identification. ABRF 2013, Palm Springs, CA. 3/02-05/2013. iPRG2013 Study:. DESIGN. Study Goals. Primary. : Evaluate how many extra peptide sequence identifications can be determined using databases derived from RNA-. Analysis 2015. - RNA-sequencing . Jonas Andreas . Sibbesen. & Lasse Maretty. Bioinformatics Centre, University of Copenhagen . Bioinformatics Centre. Next Generation Sequencing Analysis 2015 - RNA-seq. High Throughput Sequencing. TexPoint fonts used in EMF: . A. A. A. A. A. A. A. A. A. A. A. A. A. A. A. A. David Tse. U.C. Berkeley. ITA . Feb , 2013. Research supported by NSF Center for Science of Information.. Jessica . Podnar. Outline. Overview of RNA-. Seq. methods. Tag-. Seq. SOP. Cost Breakdown. Submitting Samples. RNA-. Seq. Methods. RNA-. Seq. Methods. GSAF has primarily used . two methods for . RNA-. John Kenny. Centre for Genomic Research, University of Liverpool.. CGR. CGR. Experimental Design, Bioinformatics.. Library production/sequence generation:. RNA-Seq, . SAGE, . Fragment, . Mate-pair, . Seq. and RT-qPCR expression analyses of candidate genes between RIL165 and RIL387. Additional file 4: Comparison of RNA-. Seq. and RT-qPCR expression analyses of candidate genes between RIL165 and RIL387.