PPT-Transcriptome-wide analysis of discriminating gene expression according to metabolic phenotype

Author : eve | Published Date : 2022-06-28

Systematic In silico analysis using public database Sung Hwan Lee 14 Baek Gil Kim 23 Ho Kyoung Hwang 14 Woo Jung Lee 14 Chang Moo Kang 14 1 Department

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Transcriptome-wide analysis of discriminating gene expression according to metabolic phenotype: Transcript

Systematic In silico analysis using public database Sung Hwan Lee 14 Baek Gil Kim 23 Ho Kyoung Hwang 14 Woo Jung Lee 14 Chang Moo Kang 14 1 Department . Unveiling . the Transcriptome using . RNA-. seq. Jinze. Liu. Outline. What is the transcriptome?. Measuring the transcriptome. Sampling the transcriptome using short reads. Alignment of reads to a reference genome. Vibrio cholerae . HHMI 2011. Sara Fassio. Dr. Claudia H. ä. se. Dr. Yusuke Minato . Cholera. Infection of small intestine . Causes severe diarrhea and electrolyte loss. 3-5 million cases a year. 100,000- 120,000 deaths per year . Bing Zhang. Department of Biomedical Informatics. Vanderbilt University. bing.zhang@vanderbilt.edu. Overall workflow of gene expression studies. Microarray. Biological question. Experimental . design. Reviewed by . Fei. Chen. Background. Autonomous oscillations in gene expression are found in metabolic, cardiac, and neuronal systems.. Such oscillators have important biological roles, as well as very interesting dynamics.. and plant phenotypes. George . Gkoutos. Phenotype And Trait Ontology (PATO). The meaningful cross . species and across domain . translation of phenotype is essential .  . phenotype-driven gene function discovery and comparative pathobiology . Alisha Holloway, PhD. Gladstone Bioinformatics Core Director. What is RNA-seq?. Use of high-throughput sequencing technologies to assess the RNA content of a sample.. Why do an RNA-seq experiment?. Detect . . Differential . expression, clustering, networks, and functional enrichment. STEMREM 201 Fall 2012. Aaron . Newman, Ph.D.. 10/17/12. A . genomics approach . to . biology involves…. A plethora of . University of Notre Dame. Kristin Hager, Associate Teaching Professor, Biological Sciences. Joseph O’Tousa, Professor, Biological Sciences. WH Freeman. Marc Mazzoni, Senior Editor, Life Sciences. Elaine Palucki, Editor, Adjunct Assistant Professor Biology, Brooklyn College. and . Data Analysis . Roy Williams . PhD . Sanford | Burnham Medical Research Institute . Microarray Revolution. Idea. : measure the amount of. . mRNA. . to see which. . genes. . are being. . expressed. 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. Genomics Lesson . 8_2. Hardison. 3/16/15. 1. Assays to determine the . transcriptome. . Hybridize. . the . cDNA. to microarrays of probes covering. All protein-coding genes. Almost all genomic DNA. Analysis. Jessica Holmes. High Performance Biological Computing (HPCBio). Roy J. Carver Biotechnology Center. General Outline. Getting the RNA-Seq data: from RNA -> Sequence data. Experimental and practical considerations. What is measured by microarrays?. Microarray normalization. Differential gene expression (DE) analysis based on microarray data. Detection of outliers. RNAseq. data. DE analysis based on . RNAseq. data. Venet. , et al.. PLoS. Computational Biology, 2011. Molly Carroll. Biomedical Research Methods. Characterize mechanism in the model. Derive a marker that changes when the mechanism is altered. Show .

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