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