PPT-iPRG 2013: Using RNA- Seq

Author : likets | Published Date : 2020-06-16

data for Peptide and Protein Identification ABRF 2013 Palm Springs CA 302052013 iPRG2013 Study DESIGN Study Goals Primary Evaluate how many extra peptide sequence

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iPRG 2013: Using RNA- Seq: Transcript

data for Peptide and Protein Identification ABRF 2013 Palm Springs CA 302052013 iPRG2013 Study DESIGN Study Goals Primary Evaluate how many extra peptide sequence identifications can be determined using databases derived from RNA. 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. . 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. 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). Bioinformatics . Workshop:. RNA . Seq. using Galaxy. Typical . RNA_Seq. Project Work Flow. Sequencing. Tissue Sample. . Cufflinks. . TopHat. FASTQ file. . QC. . Gene/Transcript/. Exon. Expression. Jenny . Wu. Outline. Goals : Practical guide to NGS data processing. Bioinformatics in NGS data analysis. Basics: terminology, data formats, general workflow etc.. Data Analysis Pipeline. Sequence QC and preprocessing. 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. Hailun Wang. , Pak Sham, Tiejun Tong and . Herbert Pang. Rocky 2019. December 7. th. (Saturday). 2. W. hy . scRNA. -Seq data. Propose a pathway-based analytic framework using Random Forests. Identify discriminative functional pathways related to cellular heterogeneity . Analysis 2015. - RNA-sequencing . Jonas Andreas . Sibbesen. & Lasse Maretty. Bioinformatics Centre, University of Copenhagen . Bioinformatics Centre. Next Generation Sequencing Analysis 2015 - RNA-seq. mRNA. RNA-SEQ. TruSeq. . Stranded. . mRNA. RNA-SEQ. The first . step. in the . workflow. . involves. . purifying. the . poly-A. . containing. . mRNA. . molecules. . using. . poly-T. . oligo. and RNA-. seq. Vladimir Teif. Intro to NGS analysis. Proficio. course 2020. NGS data integration. http://determinedtosee.com/wp-content/uploads/2014/08/jigsaw-puzzle.jpg. 1. Signal + existing annotation. Barbara Radovani. Genomics. . Master . of. Advanced . genetics. , UAB. Transcriptome. . Source. : https://www.genome.gov/13014330/transcriptome-fact-sheet/. The transcriptome, the entire repertoire of transcripts in. Jeremy Buhler. for GEP Alumni Workshop. RNA-Seq Pipeline for Expression Analysis. RNA Source. 37251. 20653. 9827. 5121. RNA-Seq Read Count . per Transcript. Map reads to transcripts. RNA Abundance. BIOINFORMATICA. per il CLM in BIOLOGIA EVOLUZIONISTICA. Scuola di Scienze, Università di Padova. Prof. STEFANIA BORTOLUZZI. Outline. Transcriptomics. today. RNA-. seq. features and advantages. Transcriptome. Jessica . Podnar. Outline. RNA. Quality check of the RNA. Types of RNA used for library prep. Library Prep Methods used in the GSAF. Ligation Based. dUTP. method. Tag-. Seq. RNA, the Starting Material .

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