(Q24608845)

22 June 2017

title

Faster Smith-Waterman database searches with inter-sequence SIMD parallelisation (English)

1 reference

22 June 2017

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Torbjørn Rognes

1

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language of work or name

English

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publication date

1 June 2011

1 reference

22 June 2017

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22 June 2017

volume

12

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22 June 2017

issue

1

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page(s)

221

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Creative Commons Attribution 2.0 Generic

22 June 2017

copyright license

start time

1 June 2011

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

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April 2022 Public Data File from Crossref

cites work

SHRiMP: accurate mapping of short color-space reads

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3120707

Gapped BLAST and PSI-BLAST: a new generation of protein database search programs

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3120707

Amino acid substitution matrices from protein blocks

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3120707

Basic local alignment search tool

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3120707

Identification of common molecular subsequences

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3120707

The Universal Protein Resource (UniProt) in 2010

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3120707

CUDASW++2.0: enhanced Smith-Waterman protein database search on CUDA-enabled GPUs based on SIMT and virtualized SIMD abstractions

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3120707

Assembly algorithms for next-generation sequencing data

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3120707

CUDASW++: optimizing Smith-Waterman sequence database searches for CUDA-enabled graphics processing units

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3120707

SWPS3 - fast multi-threaded vectorized Smith-Waterman for IBM Cell/B.E. and x86/SSE2

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3120707

CBESW: sequence alignment on the Playstation 3.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3120707

160-fold acceleration of the Smith-Waterman algorithm using a field programmable gate array (FPGA).

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3120707

Striped Smith-Waterman speeds database searches six times over other SIMD implementations

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3120707

Using video-oriented instructions to speed up sequence comparison

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3120707

An improved algorithm for matching biological sequences.

30 May 2018

1 reference

Crossref

https://api.crossref.org/works/10.1186%2F1471-2105-12-221

Six-fold speed-up of Smith-Waterman sequence database searches using parallel processing on common microprocessors.

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1186%2F1471-2105-12-221

21 January 2018

Identifiers

DOI

10.1186/1471-2105-12-221

1 reference

22 June 2017

DBLP publication ID

journals/bmcbi/Rognes11

1 reference

DBLP Dataset 2021-01-02

Dimensions Publication ID

28 January 2021

1010513713

0 references

OpenCitations bibliographic resource ID

2928460

1 reference

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

1 reference

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

2928460

1 reference