BMC Genomics

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Assessment of whole genome amplification-induced bias through high-throughput, massively parallel whole genome sequencing

Robert Pinard, Alex de Winter, Gary J Sarkis, Mark B Gerstein, Karrie R Tartaro, Ramona N Plant, Michael Egholm, Jonathan M Rothberg and John H Leamon*

BMC Genomics 2006, 7:216 doi:10.1186/1471-2164-7-216

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Software   Open Access Highly Accessed

SAMQA: error classification and validation of high-throughput sequenced read data

Thomas Robinson, Sarah Killcoyne, Ryan Bressler, John Boyle BMC Genomics 2011, 12:419 (18 August 2011)

Method   Open Access

Substantial deletion overlap among divergent Arabidopsis genomes revealed by intersection of short reads and tiling arrays

Luca Santuari, Sylvain Pradervand, Amelia-Maria Amiguet-Vercher, Jerôme Thomas, Eavan Dorcey, Keith Harshman, Ioannis Xenarios, Thomas E Juenger, Christian S Hardtke Genome Biology 2010, 11:R4 (12 January 2010)

A new approach to detect deletions in divergentgenomes combines short read sequencing and tilling array data. Its utility is demonstrated on Arabidopsis strains.

Short Report   Open Access

Specific and complete human genome amplification with improved yield achieved by phi29 DNA polymerase and a novel primer at elevated temperature

Osama Alsmadi, Fadi Alkayal, Dorota Monies, Brian F Meyer BMC Research Notes 2009, 2:48 (24 March 2009)

Methodology article   Open Access Highly Accessed

Digital PCR provides sensitive and absolute calibration for high throughput sequencing

Richard A White, Paul C Blainey, H Christina Fan, Stephen R Quake BMC Genomics 2009, 10:116 (19 March 2009)

Methodology article   Open Access

Coupling amplified DNA from flow-sorted chromosomes to high-density SNP mapping in barley

Hana Šimková, Jan T Svensson, Pascal Condamine, Eva Hřibová, Pavla Suchánková, Prasanna R Bhat, Jan Bartoš, Jan Šafář, Timothy J Close, Jaroslav Doležel BMC Genomics 2008, 9:294 (19 June 2008)

Research article   Open Access Highly Accessed

Using 454 technology for long-PCR based sequencing of the complete mitochondrial genome from single Haemonchus contortus (Nematoda)

Aaron R Jex, Min Hu, D Timothy J Littlewood, Andrea Waeschenbach, Robin B Gasser BMC Genomics 2008, 9:11 (11 January 2008)

Research article   Open Access Highly Accessed

A global view of Staphylococcus aureus whole genome expression upon internalization in human epithelial cells

Christian Garzoni, Patrice Francois, Antoine Huyghe, Sabine Couzinet, Caroline Tapparel, Yvan Charbonnier, Adriana Renzoni, Sacha Lucchini, Daniel P Lew, Pierre Vaudaux, William L Kelley, Jacques Schrenzel BMC Genomics 2007, 8:171 (14 June 2007)

Intracellular survival of S. aureus is aided by changes in bacterial gene expression, which include the suppression of metabolic genes and host-directed toxins, ultimately allowing the pathogen to evade antibiotics and immune defenses.

Research article   Open Access Highly Accessed

454 sequencing put to the test using the complex genome of barley

Thomas Wicker, Edith Schlagenhauf, Andreas Graner, Timothy J Close, Beat Keller, Nils Stein BMC Genomics 2006, 7:275 (26 October 2006)