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Velvet: algorithms for de novo short read assembly using de Bruijn graphs

Genome Research

Mar 20, 2008

Daniel R Zerbino, Ewan Birney

Abstract

We have developed a new set of algorithms, collectively called "Velvet," to manipulate de Bruijn graphs for genomic sequence assembly. A de Bruijn graph is a compact representation based on short words (k-mers) that is ideal for high coverage, very short read (25-50 bp) data sets. Apply...read more

Mentioned in this Paper

Severe Acute Respiratory Syndrome
In Silico
Genome
Streptococcus
Bacterial Artificial Chromosomes
Genomics
Sequence Determinations, DNA
Prokaryote
Genome, Bacterial
Genome, Human
10
1
4597
1
7
Paper Details
References
  • References25
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123
  • References25
  • Citations4150
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Velvet: algorithms for de novo short read assembly using de Bruijn graphs

Genome Research

Mar 20, 2008

Daniel R Zerbino, Ewan Birney

PMID: 18349386

DOI: 10.1101/gr.074492.107

Abstract

We have developed a new set of algorithms, collectively called "Velvet," to manipulate de Bruijn graphs for genomic sequence assembly. A de Bruijn graph is a compact representation based on short words (k-mers) that is ideal for high coverage, very short read (25-50 bp) data sets. Apply...read more

Mentioned in this Paper

Severe Acute Respiratory Syndrome
In Silico
Genome
Streptococcus
Bacterial Artificial Chromosomes
Genomics
Sequence Determinations, DNA
Prokaryote
Genome, Bacterial
Genome, Human
10
1
4597
1
7

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Artificial Chromosomes

Artificial chromosomes are genetically engineered chromosomes derived from the DNA of a species. Discover the latest research on artificial chromosomes here.

Streptococcal Infection

Streptococcal infections are caused by streptococci, a genus of Gram-positive bacteria which cause diverse human diseases. Discover the latest research on streptococcal infection here.

Related Papers

Genome Research

ALLPATHS: de novo assembly of whole-genome shotgun microreads

Genome ResearchMarch 15, 2008
Jonathan ButlerDavid B Jaffe
Genome Research

ABySS: a parallel assembler for short read sequence data

Genome ResearchMarch 3, 2009
Jared T SimpsonInanç Birol
Paper Details
References
  • References25
  • Citations4150
123
  • References25
  • Citations4150
12345...

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