De novo assembly of short sequence reads (Q37781227)

23 August 2017

title

De novo assembly of short sequence reads (English)

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23 August 2017

David J Studholme

2

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author name string

Konrad Paszkiewicz

series ordinal

1

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23 August 2017

publication date

19 August 2010

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Briefings in Bioinformatics

23 August 2017

published in

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23 August 2017

volume

11

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23 August 2017

issue

5

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23 August 2017

page(s)

457-472

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Next-generation DNA sequencing techniques

23 August 2017

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The phusion assembler

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De novo genome sequence assembly of a filamentous fungus using Sanger, 454 and Illumina sequence data

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De novo assembly using low-coverage short read sequence data from the rice pathogen Pseudomonas syringae pv. oryzae

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Complete genome sequence of the fire blight pathogen Erwinia pyrifoliae DSM 12163T and comparative genomic insights into plant pathogenicity

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Large scale single nucleotide polymorphism discovery in unsequenced genomes using second generation high throughput sequencing technology: applied to turkey

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The sequence and de novo assembly of the giant panda genome

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Whole genome assembly of a natto production strain Bacillus subtilis natto from very short read data

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A draft genome sequence and functional screen reveals the repertoire of type III secreted proteins of Pseudomonas syringae pathovar tabaci 11528

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Pseudomonas syringae strains naturally lacking the classical P. syringae hrp/hrc Locus are common leaf colonizers equipped with an atypical type III secretion system

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A draft genome sequence of Pseudomonas syringae pv. tomato T1 reveals a type III effector repertoire significantly divergent from that of Pseudomonas syringae pv. tomato DC3000.

21 January 2018

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Comparative genome analysis provides insights into the evolution and adaptation of Pseudomonas syringae pv. aesculi on Aesculus hippocastanum

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Increasing phylogenetic resolution at low taxonomic levels using massively parallel sequencing of chloroplast genomes

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An analysis of the feasibility of short read sequencing

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Fragment assembly with short reads

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Assembly complexity of prokaryotic genomes using short reads

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De novoassembly of thePseudomonas syringaepv.syringaeB728a genome using Illumina/Solexa short sequence reads

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Amplification-free Illumina sequencing-library preparation facilitates improved mapping and assembly of (G C)-biased genomes

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High-precision, whole-genome sequencing of laboratory strains facilitates genetic studies

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De novo fragment assembly with short mate-paired reads: Does the read length matter?

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Short read fragment assembly of bacterial genomes

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Deep short-read sequencing of chromosome 17 from the mouse strains A/J and CAST/Ei identifies significant germline variation and candidate genes that regulate liver triglyceride levels

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QSRA: a quality-value guided de novo short read assembler

21 January 2018

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A consistency-based consensus algorithm for de novo and reference-guided sequence assembly of short reads

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SHARCGS, a fast and highly accurate short-read assembly algorithm for de novo genomic sequencing

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De novo assembly of human genomes with massively parallel short read sequencing

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Assembling millions of short DNA sequences using SSAKE.

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A fast hybrid short read fragment assembly algorithm

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Extending assembly of short DNA sequences to handle error.

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Pebble and rock band: heuristic resolution of repeats and scaffolding in the velvet short-read de novo assembler

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Minimus: a fast, lightweight genome assembler

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Scaffolding and validation of bacterial genome assemblies using optical restriction maps

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Whole-genome sequencing and assembly with high-throughput, short-read technologies

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Parallel, tag-directed assembly of locally derived short sequence reads

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A new strategy for genome assembly using short sequence reads and reduced representation libraries

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The long march: a sample preparation technique that enhances contig length and coverage by high-throughput short-read sequencing

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Beware of mis-assembled genomes

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Genome assembly forensics: finding the elusive mis-assembly

21 January 2018

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Tablet--next generation sequence assembly visualization

21 January 2018

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De novo transcriptome assembly with ABySS.

21 January 2018

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Large-scale and automated DNA sequence determination

21 January 2018

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Base-Calling of Automated Sequencer Traces UsingPhred. I. Accuracy Assessment

21 January 2018

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The Sanger FASTQ file format for sequences with quality scores, and the Solexa/Illumina FASTQ variants

21 January 2018

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Real-time DNA sequencing from single polymerase molecules

21 January 2018

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Comparison of the complete genome sequences of Pseudomonas syringae pv. syringae B728a and pv. tomato DC3000

21 January 2018

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Mapping short DNA sequencing reads and calling variants using mapping quality scores

21 January 2018

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Maximum likelihood genome assembly

21 January 2018

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Decoding a national treasure

21 January 2018

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21 January 2018

Identifiers

DOI

10.1093/BIB/BBQ020

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journals/bib/PaszkiewiczS10

23 August 2017

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

28 January 2021

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