attributions.md

Attributions

Attributions for images where no URL is provided on the slide. All photographs courtesy of Flickr Creative Commons (only licenses which allow modifications and derivative use); images are screenshots from HBC work unless stated otherwise.

Title Slide:

• Ethernet, Bob Mical, https://www.flickr.com/photos/small_realm/14186949118
• DNA, John Goode, https://www.flickr.com/photos/johnnieb/17200471/

Genomics medicine:

• Karyotype, Can H., https://www.flickr.com/photos/47988426@N08/8252270882

Exome sequencing:

• Exome view in IGV, test data screenshot

Scope:

• Studying…, Clay Shonkwiler, https://www.flickr.com/photos/shonk/418180402

Introduction to Sequencing Technologies:

• Riding Shotgun, Steve Jurvetson, https://www.flickr.com/photos/jurvetson/57080968/

Illumina slides:

• Taken from the UC Davis High Throughput Sequencing Fundamentals lecture, http://training.bioinformatics.ucdavis.edu/docs/2014/09/september-2014-workshop/Monday_JF_HTS_lecture.html

Sequencing by synthesis:

• http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2734321/figure/F1/

IonTorrent:

• EBI Training Course materials, https://www.ebi.ac.uk/training/online/course/ebi-next-generation-sequencing-practical-course/what-next-generation-dna-sequencing/ion-torre

PacBio:

• PacBio Press Kit, http://www.pacificbiosciences.com/news_and_events/mediakit/

Introduction to Resequencing:

• DNA / Protein function finder from @WellcomeTrust @SangerInstitute @emblebi @YourGenome, Duncan Hull, https://www.flickr.com/photos/dullhunk/4422952630/

In an ideal world:

• Rainbow, Moyan Brenn, https://www.flickr.com/photos/aigle_dore/4516670863

Unix and the command line:

• Keyboard, Tristan Schmurr, https://www.flickr.com/photos/kewl/5212626838

Quality control and grooming

• Backyard Hair Cut, sean hobson, https://www.flickr.com/photos/seanhobson/4353671803

Illumina error sources:

• Ledergerber, Base-calling for next-generation sequencing platforms, http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3178052/figure/F1/

Alignment:

• Puzzled, Pratap Sankar, https://www.flickr.com/photos/gugugagaa/5378186359

What to align against:

• Human genome printed, Adam Nieman, https://www.flickr.com/photos/johnjobby/2252981353

Marking duplicates:

• 91 variations on a theme, Kevin Dooley, https://www.flickr.com/photos/pagedooley/3227848591

Identifying variation:

• répétition 2, olibac, https://www.flickr.com/photos/olibac/2354102486

Finding the right variants:

• A Needle in a Hay Stack, Michael Gil, https://www.flickr.com/photos/msvg/5143096005

Experimental design:

• Marcin Wichary, https://www.flickr.com/photos/mwichary/2635813162

First step:

• 20141025 Pencils 068, John, https://www.flickr.com/photos/cygnus921/15628288442
• Question Mark Graffiti, Bilal Kamoon, https://www.flickr.com/photos/bilal-kamoon/6835060992

A quick orientation:

• Wikimedia, http://commons.wikimedia.org/wiki/File:UCSC_human_chromosome_colours.png