bioinformatics & gcat-seek vince buonaccorsi juniata college
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Bioinformatics & GCAT-SEEK Vince Buonaccorsi Juniata College. Goal: Facilitate massively parallel sequencing projects involving faculty teaching undergrads in their area of interest Listserv F aculty development workshops Group discounts with sequencing facilities - PowerPoint PPT PresentationTRANSCRIPT
Bioinformatics & GCAT-SEEK Vince Buonaccorsi
Juniata College• Goal: Facilitate massively parallel sequencing
projects involving faculty teaching undergrads in their area of interest– Listserv– Faculty development workshops– Group discounts with sequencing facilities– Pooled runs outside workshop– Write labs and data, web posting– Increase access to computational resources
The Network: 170 faculty from 100 schoolsMost from small schools Wide range of interests
Experienced teachersLittle next-gen practice
Workshop 1: 30 participants, 13 projects
Four separate breakout sessions over 4.5 days in summer 2013 RNA-seq, Metagenomics, Eukaryotic, and Prokaryotic Genomics
13 projects sequenced, 4 Lanes of Illumina HiSeq, 3 Illumina MiSeq Runs Participants from 16 colleges; Facilitators from 7 colleges
Faculty and students Lab skills Data analysis
Bioinformatic Approaches: Euk Genomics
• Genome Assembly: Unix - Quake, SOAPdenovo2• Genome Annotation: Unix - Maker• Genome Comparison: Web - CoGe, InParanoid• RADseq: Unix - Stacks, R
Juniata/HHMI Certificate in Genomics, Ethics and Society
• Four required core courses– Genomics, ethics and society– Basic molecular biology, genetics, and genomics– Statistics– Informatics (traditional CS or CURE-style classes)
• Any three elective courses related to ELSI genomic themes from:– Science and Human Values – Judgment & Decision Making– Medicine, Doctors, and Russian Literature– Leadership in the 21rst Century/Executive leadership– Social History of Medicine– Medieval Medicine