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Briefi ngs in Bioinformatics Volume 11 • Number 5 • September 2010
OXFORD
Briefi ngs in

Bioinformatics
Volume 11 • Number 5 • September 2010
Contents
Editorial
455 Second-generation sequencing
Keith Robison
Papers
457 De novo assembly of short sequence reads
Konrad Paszkiewicz and David J. Studholme
473 A survey of sequence alignment algorithms for next-generation sequencing
Heng Li and Nils Homer
484 Challenges of sequencing human genomes
Daniel C. Koboldt, Li Ding, Elaine R. Mardis and Richard K. Wilson
499 Next generation sequencing in functional genomics
Thomas Werner
512 Introduction into the analysis of high-throughput-sequencing based
epigenome data
Mikael Huss
524 Application of second-generation sequencing to cancer genomics
Keith Robison
Volume 11 • Number 5 • September 2010
print issn 1467-5463
online issn 1477-4054
Special issue: Second Generation Sequencing
Briefi ngs in

Bioinformatics
www.bib.oxfordjournals.org
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Editorial Board
EDITOR
Martin Bishop
CNR-ITB Institute of Biomedical
Technologies,Italy
NORTHAMERICAN
ASSOCIATE EDITOR
Russ B.Altman
Stanford University,USA
EDITORIALOFFICE
Sophie Gilmour
Editorial Assistant,UK
EDITORIAL BOARD
Teresa K.Attwood
University of Manchester,UK
Anne-Laure Boulesteix
University of Munich
Vladimir Brusic
Dana-Farber Cancer Institute,
USA
TimClark
Harvard University & Massachusetts
General Hospital,USA
Jo Dicks
John Innes Centre,UK
Werner Dubitzky
University of Ulster,Northern Ireland
Wendy Filsell
Unilever,UK
Donald Gilbert
Indiana University,USA
Winston Hide
SANBI,South Africa
Charlie Hodgman
University of Nottingham,UK
Rod Hubbard
University of York,UK
I.King Jordan
Georgia Institute of Technology,USA
Jacob Koehler
University of Tromsø,Norway
Jack Leunissen
Wageningen University,The Netherlands
Mingyao Li
University of Pennsylvania
Jingchu Luo
Peking University,China
Scott Markel
SciTegic Inc.,USA
Tommaso Mazza
The Microsoft Research - University of
Trento CoSBi
Haruki Nakamara
Institute for Protein Research,
Osaka University
Indra Neil Sarkar
University of Vermont
Graziano Pesole
University of Bari,Italy
Sandor Pongor
International Centre for Genetic
Engineering and Biotechnology,Italy
Dennis Quan
IBM Thomas J.Watson Research
Center,USA
Shoba Ranganathan
Macquarie University,Australia
Peter Rice
EBI,UK
Keith Robison
Codon Devices,USA
Igor Rogozin
National Center for Biotechnology
Information,National Institutes
of Health,USA
Fritz Roth
Harvard Medical School/BCMP Dept.,
USA
Cathal Seoighe
IIDMIM,Medical School,University of
Cape Town,South Africa
OlgaTroyanskaya
Lewis-Sigler Institute for Integrative
Genomics,USA
Thomas Werner
Genomatix Software GmbH,
Germany
MathewWoodwark
AstraZeneca,UK
BOOKREVIEWS EDITOR
Sean Mooney
Associate Professor
Buck Institute for Age Research
8001 Redwood Blvd.
Novato,CA 94945
USA
Briefings in Bioinformatics
www.bib.oxfordjournals.org
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