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Day 1: Monday, July 29th

Location

Time

Title (click to listen to recording)

Instructor

Slides/Lab Instructions

1st floor MERF atrium area8:00 to 8:30Registration and check in  

2117 MERF

8:30 to 9:00

Course Overview – Background, Goals for the Course

Anne Kwitek

Opening remarks.PDF

2117 MERF

9:00 to 10:00

Developmental and Evolutionary Dynamics of Mammalian Enhancers - Video only, Slides are available in link to the right.

Alex Nord

 
 1st floor MERF atrium area10:00 to 10:20Break
  
2117 MERF

10:20 to 11:20

 Next-Generation Sequencing Overview: Resources Available At The DNA Facility 

Kevin Knudtson

NGSOverviewGalaxyWorkshop_07292013.pdf
2117 MERF

11:20 to 11:50

Read Alignment Algorithms – TutorialTom Bairsequence_alignment.pdf
2117 MERF

11:50  to 12:00

Tour of the Genomics Core at the University of Iowa College of Medicine

Kevin Knudtson

 

1st floor MERF atrium area

12:00 to 1:00

Lunch

 

 

Hardin Information Commons WEST

1:00  to 1:30

Introduction to Data Analysis with MPS Data Sets (30 minutes)

Ann Black

IIHG_Bioinformatics_Course.pdf

Lab1_Instructions.pdf

Hardin Information Commons WEST

1:30  to 5:00

Lab Session 1: Experimental Design for MPS Experiments – Using Galaxy to manipulate large data sets; creating a BED file for experimental design

Lab instructors

 

Day 2: Tuesday, July 30th

CNV Detection and Interpretation in Genomic Data

Location

Time

Title (click to listen to recording)

Instructor

Slides/Lab Instructions

2117 MERF

8:30 AM to 9:30 AM

CNV Detection and Interpretation in Genomic Data

Ben Darbro

BioinformaticsTalk2013.pdf

2117 MERF

9:30 AM to 10:30 AM

Mapping DNA-protein interactions in vivo via tissue ChIP-seq - Video only, Slides are available in link to the right.

Alex Nord

 

 1st floor MERF atrium area

10:30 AM to 11:00 AM

Break 

 

 

2117 MERF

11:00 AM to 12:00PM

Introduction to ENCODE

Michael Hoffman

ENCODE Introduction-01-Iowa.pdf
1st floor MERF atrium area

12:10 PM to 1:00 PM

Lunch

 

 

Hardin Information Commons WEST

1:00 PM to 5:00 PM

Lab Session 2: QC/QA of MPS data, Read Alignment

Lab Instructors

sequence lab session.pdf

 

 

Dinner – BBQ North Ridge Pavilion

 

 

Day 3: Wednesday, July 31st

Location

Time

Title (click to listen to recording)

Instructor

 Slides/Lab Instructions

2117 MERF

8:30 AM to 9:30 AM

Data management and campus cluster resources

Ben Rogers

BioinformaticsShortCourseDataManagementAndStorage2013.pdf

2117 MERF

9:30 AM to 10:30 AM

The Segway annotation of ENCODE dataMichael HoffmanSegway-UIowa-45-public.pdf

 1st floor MERF atrium area

10:30 AM to 11:00 AM

Break

 

 

2117 MERF

11:00 AM to 12:00 PM

Next Generation Cancer Gene Sequencing

Ramakrishna Sompallae

NGS_course_slides.pdf

1st floor MERF atrium area

12:00 PM to 1:00 PM

Lunch

 

 

1st floor MERF atrium area

1:00 PM to 2:00 PM

Breakout Sessions with Course Instructors -- Q & A

 

 

Hardin Information Commons WEST

2:00 PM to 5:00 PM

Lab Session 3:Chip-Seq workflow

Lab Instructors

Lab3-chipseq.pdf

 

5:00 PM

Course Adjourns

 

 

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