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Genome sequencing

A Quantitative Comparison of Single-Cell Whole Genome Amplification Methods

Charles F. A. de Bourcy, Iwijn De Vlaminck, [ ... ], Stephen R. Quake

Comparing De Novo Genome Assembly: The Long and Short of It

Giuseppe Narzisi, Bud Mishra

Whole-Genome Sequencing and Assembly with High-Throughput, Short-Read Technologies

Andreas Sundquist, Mostafa Ronaghi, [ ... ], Serafim Batzoglou

Whole Genome Amplification and De novo Assembly of Single Bacterial Cells

Sébastien Rodrigue, Rex R. Malmstrom, [ ... ], Sallie W. Chisholm

Common Contaminants in Next-Generation Sequencing That Hinder Discovery of Low-Abundance Microbes

Martin Laurence, Christos Hatzis, Douglas E. Brash

Development of Strategies for SNP Detection in RNA-Seq Data: Application to Lymphoblastoid Cell Lines and Evaluation Using 1000 Genomes Data

Emma M. Quinn, Paul Cormican, [ ... ], Derek W. Morris

ReadDepth: A Parallel R Package for Detecting Copy Number Alterations from Short Sequencing Reads

Christopher A. Miller, Oliver Hampton, Cristian Coarfa, Aleksandar Milosavljevic

Assessment of Metagenomic Assembly Using Simulated Next Generation Sequencing Data

Daniel R. Mende, Alison S. Waller, [ ... ], Peer Bork

The Use of Coded PCR Primers Enables High-Throughput Sequencing of Multiple Homolog Amplification Products by 454 Parallel Sequencing

Jonas Binladen, M. Thomas P. Gilbert, [ ... ], Eske Willerslev

Variant Callers for Next-Generation Sequencing Data: A Comparison Study

Xiangtao Liu, Shizhong Han, [ ... ], Bao-Zhu Yang

Evaluation of Whole Genome Sequencing for Outbreak Detection of Salmonella enterica

Pimlapas Leekitcharoenphon, Eva M. Nielsen, [ ... ], Frank M. Aarestrup

Design of a High Density SNP Genotyping Assay in the Pig Using SNPs Identified and Characterized by Next Generation Sequencing Technology

Antonio M. Ramos, Richard P. M. A. Crooijmans, [ ... ], Martien A. M. Groenen

MOSAIK: A Hash-Based Algorithm for Accurate Next-Generation Sequencing Short-Read Mapping

Wan-Ping Lee, Michael P. Stromberg, [ ... ], Gabor T. Marth

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