PPT-Pathway analysis

Biostat amp Bioinfo short course series Jianying Li The Road to Pathway Analysis Adapted from Werner 2008 Current Opinion in Biotech 195064 Next Gen RNASeq Acknowledgment QB for kindly organization. Reactome.db. Package. Utah State University – Spring . 2012. STAT . 6570. : Statistical Bioinformatics. Cody Tramp. References. Ligtenberg. . W. 2011. . Reactome.db. : How to use the . reactome.db. . Functional . interpretation of gene lists. Bing . Zhang. Department . of Biomedical Informatics. Vanderbilt . University. bing.zhang@vanderbilt.edu. Omics. studies generate lists of interesting genes. Reactome.db. Package. Utah State University – Spring . 2012. STAT . 6570. : Statistical Bioinformatics. Cody Tramp. References. Ligtenberg. . W. 2011. . Reactome.db. : How to use the . reactome.db. 6. th. July, 2015. Ansuman. . Chattopadhyay. , PhD. Head, Molecular Biology Information Services. Health Sciences Library System. University of Pittsburgh. ansuman@pitt.edu. Biological Pathway Map. pathway . knowledgebase. Connecting . pathways, networks, and . disease. Robin Haw, PhD . Project Manager and Outreach Coordinator. Ontario Institute for Cancer Research. robin.haw@oicr.on.ca. San Diego. March 15, 2016. www.bioinformatics.ca. 2. Module #: Title of Module. Module . 15. More Depth on Pathway and Network Analysis. Robin Haw. High-Throughput Biology: From Sequence to Networks. March 20-26, 2017. Learning Objectives of Module. September, 2018. Ansuman. . Chattopadhyay. , PhD. Molecular Biology Information Services. Health Sciences Library System. University of Pittsburgh. ansuman@pitt.edu. Workshop Page. http://hsls.libguides.com/pathwayinformatics. Example: PSICQUIC and the PSICQUIC game. Introduction to ontologies.. Exploring the Gene . Ontology. -Coffee break-. Introduction to protein-protein interactions (PPIs). IntAct. : the molecular interactions database at the EBI. This based on the guidelines written . Dr. . Bu’Hayee. and NHS Greenwich CCG Medicines Management Team . Patient presenting with lower gastrointestinal symptoms for at least 6 months suggestive of irritable bowel syndrome (IBS) WITHOUT ALARM SYMPTOMS:. Beyond the Genome 2012. Informatics Workshop, Sep 27, 2012. Josh Stuart, UC Santa . Cruz. “It . is entirely in line with the accidental nature of mutations that . … . the vast . majority [are] . detrimental. Systematic . In . silico. . analysis using public database. Sung Hwan Lee. 1,4. , Baek Gil . Kim. 2,3. , . Ho Kyoung Hwang. 1,4. , Woo . Jung . Lee. 1,4. , Chang . Moo Kang. 1,4**.  . 1. Department . Outline. Introduction. Two review papers. Quality control (. MetaQC. ). Meta-analysis for detecting differentially expressed genes (. MetaDE. ). Meta-analysis for detecting pathways (. MetaPath. ). 1. Introduction. Steven Hallam | University of British Columbia. SRI International, 2013. Overview. Through the looking glass…. Environmental Pathway/Genome Databases. MetaPathways. Pipeline Development. 2. Metabolism. Data source: ASD risk genes having same expression pattern to that from patient (1800 genes). (Yoshizawa et. al., 2018 ). hsa04721:. Synaptic vesicle cycle. hsa04611:Platelet activation. hsa04144:Endocytosis.