DNA Analysis

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Identifying Rare Variants Associated with Complex Traits via Sequencing
Bingshan Li, Dajiang J. Liu, Suzanne M. Leal
Published online: July 2013
Genome‐Scale Mapping of DNase I Hypersensitivity
Sam John, Peter J. Sabo, Theresa K. Canfield, Kristen Lee, Shinny Vong, Molly Weaver, Hao Wang, Jeff Vierstra, Alex P. Reynolds, Robert E. Thurman, John A. Stamatoyannopoulos
Published online: July 2013
Using the iPlant Collaborative Discovery Environment
Shannon L. Oliver, Andrew J. Lenards, Roger A. Barthelson, Nirav Merchant, Sheldon J. McKay
Published online: June 2013
Phylogenetic Analysis with the iPlant Discovery Environment
Naim Matasci, Sheldon McKay
Published online: June 2013
Using MEMo to Discover Mutual Exclusivity Modules in Cancer
Giovanni Ciriello, Ethan Cerami, Bulent Arman Aksoy, Chris Sander, Nikolaus Schultz
Published online: March 2013
Predicting Functional Effect of Human Missense Mutations Using PolyPhen‐2
Ivan Adzhubei, Daniel M. Jordan, Shamil R. Sunyaev
Published online: January 2013
Multiplex Illumina Sequencing Using DNA Barcoding
Koon Ho Wong, Yi Jin, Zarmik Moqtaderi
Published online: January 2013
Using the Wash U Epigenome Browser to Examine Genome‐Wide Sequencing Data
Xin Zhou, Ting Wang
Published online: December 2012
Using QIIME to Analyze 16S rRNA Gene Sequences from Microbial Communities
Justin Kuczynski, Jesse Stombaugh, William Anton Walters, Antonio González, J. Gregory Caporaso, Rob Knight
Published online: November 2012
A Survey of Copy‐Number Variation Detection Tools Based on High‐Throughput Sequencing Data
Ruibin Xi, Semin Lee, Peter J. Park
Published online: October 2012
Some Phenotype Association Tools in Galaxy: Looking for Disease SNPs in a Full Genome
Belinda M. Giardine, Cathy Riemer, Richard Burhans, Aakrosh Ratan, Webb Miller
Published online: September 2012
Genotyping in the Cloud with Crossbow
James Gurtowski, Michael C. Schatz, Ben Langmead
Published online: September 2012
Using Galaxy to Perform Large‐Scale Interactive Data Analyses
Jennifer Hillman‐Jackson, Dave Clements, Daniel Blankenberg, James Taylor, Anton Nekrutenko, Galaxy Team
Published online: June 2012
Searching for Non‐B DNA‐Forming Motifs Using nBMST (Non‐B DNA Motif Search Tool)
R.Z. Cer, K.H. Bruce, D.E. Donohue, N.A. Temiz, U.S. Mudunuri, M. Yi, N. Volfovsky, A. Bacolla, B.T. Luke, J.R. Collins, R.M. Stephens
Published online: April 2012
The Bluejay Genome Browser
Jung Soh, Paul M.K. Gordon, Christoph W. Sensen
Published online: March 2012
Using QIIME to Analyze 16S rRNA Gene Sequences from Microbial Communities
Justin Kuczynski, Jesse Stombaugh, William Anton Walters, Antonio González, J. Gregory Caporaso, Rob Knight
Published online: December 2011
An Introduction to the Informatics of “Next‐Generation” Sequencing
Lincoln D. Stein
Published online: December 2011
Liquid Chromatography‐Mass Spectrometry Analysis of DNA Polymerase Reaction Products
Goutam Chowdhury, F. Peter Guengerich
Published online: December 2011
Using MACS to Identify Peaks from ChIP‐Seq Data
Jianxing Feng, Tao Liu, Yong Zhang
Published online: June 2011
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