(Q35585354)

9 August 2017

title

PASTA: Ultra-Large Multiple Sequence Alignment for Nucleotide and Amino-Acid Sequences (English)

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9 August 2017

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1

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9 August 2017

6

Tandy Warnow

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9 August 2017

Nam Nguyen

2

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9 August 2017

Sheng Guo

series ordinal

3

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9 August 2017

Li-San Wang

series ordinal

4

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9 August 2017

Junhyong Kim

series ordinal

5

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9 August 2017

language of work or name

English

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publication date

30 December 2014

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Journal of Computational Biology

9 August 2017

published in

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9 August 2017

volume

22

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9 August 2017

issue

5

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9 August 2017

page(s)

377-386

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Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega

9 August 2017

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4424971

FastSP: linear time calculation of alignment accuracy

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4424971

HMMER web server: interactive sequence similarity searching

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4424971

A comprehensive benchmark study of multiple sequence alignment methods: current challenges and future perspectives

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4424971

FastTree 2--approximately maximum-likelihood trees for large alignments

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4424971

A new generation of homology search tools based on probabilistic inference

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4424971

INDELible: a flexible simulator of biological sequence evolution

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4424971

RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4424971

MAFFT version 5: improvement in accuracy of multiple sequence alignment

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4424971

The comparative RNA web (CRW) site: an online database of comparative sequence and structure information for ribosomal, intron, and other RNAs

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4424971

HOMSTRAD: a database of protein structure alignments for homologous families

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4424971

Rose: generating sequence families

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4424971

Making automated multiple alignments of very large numbers of protein sequences

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4424971

SATe-II: very fast and accurate simultaneous estimation of multiple sequence alignments and phylogenetic trees.

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4424971

Rapid and accurate large-scale coestimation of sequence alignments and phylogenetic trees

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4424971

Multiple alignment by aligning alignments.

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4424971

Mutual information in protein multiple sequence alignments reveals two classes of coevolving positions.

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4424971

26 September 2018

Identifiers

DOI

10.1089/CMB.2014.0156

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journals/jcb/MirarabNGWKW15

9 August 2017

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

28 January 2021

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9 August 2017

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