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PhyLAT: a phylogenetic local alignment tool
scientific article
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instance of
scholarly article
1 reference
stated in
Europe PubMed Central
PMCID
3465089
retrieved
13 August 2017
title
PhyLAT: a phylogenetic local alignment tool
(English)
1 reference
stated in
Europe PubMed Central
PMCID
3465089
retrieved
13 August 2017
main subject
phylogenetics
1 reference
based on heuristic
inferred from title
author name string
Hongtao Sun
series ordinal
1
1 reference
stated in
Europe PubMed Central
PMCID
3465089
retrieved
13 August 2017
Jeremy D Buhler
series ordinal
2
1 reference
stated in
Europe PubMed Central
PMCID
3465089
retrieved
13 August 2017
language of work or name
English
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publication date
6 April 2012
1 reference
stated in
Europe PubMed Central
PMCID
3465089
retrieved
13 August 2017
published in
Bioinformatics
1 reference
stated in
Europe PubMed Central
PMCID
3465089
retrieved
13 August 2017
volume
28
1 reference
stated in
Europe PubMed Central
PMCID
3465089
retrieved
13 August 2017
page(s)
1336-1344
1 reference
stated in
Europe PubMed Central
PMCID
3465089
retrieved
13 August 2017
issue
10
1 reference
stated in
Europe PubMed Central
PMCID
3465089
retrieved
13 August 2017
describes a project that uses
Bayes' theorem
1 reference
stated in
Europe PubMed Central
retrieved
18 June 2022
reference URL
https://europepmc.org/article/PMC/3465089
based on heuristic
inferred from PubMed Central ID database lookup
cites work
Performance, accuracy, and Web server for evolutionary placement of short sequence reads under maximum likelihood
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30 September 2017
pplacer: linear time maximum-likelihood and Bayesian phylogenetic placement of sequences onto a fixed reference tree
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reference URL
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30 September 2017
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30 September 2017
The UCSC Genome Browser database: update 2010
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30 September 2017
Island method for estimating the statistical significance of profile-profile alignment scores
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A probabilistic model of local sequence alignment that simplifies statistical significance estimation
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30 September 2017
Measuring the accuracy of genome-size multiple alignments
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30 September 2017
Fast-evolving noncoding sequences in the human genome
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30 September 2017
Computation and analysis of genomic multi-sequence alignments
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30 September 2017
Multiple sequence alignment: in pursuit of homologous DNA positions
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30 September 2017
RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models
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30 September 2017
TreeFam: a curated database of phylogenetic trees of animal gene families
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30 September 2017
Combining phylogenetic and hidden Markov models in biosequence analysis
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30 September 2017
Ultraconserved Elements in the Human Genome
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30 September 2017
Aligning multiple genomic sequences with the threaded blockset aligner
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3465089
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30 September 2017
MUSCLE: multiple sequence alignment with high accuracy and high throughput
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30 September 2017
Evolution's cauldron: duplication, deletion, and rearrangement in the mouse and human genomes
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30 September 2017
Finding Functional Features in Saccharomyces Genomes by Phylogenetic Footprinting
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30 September 2017
MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3465089
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30 September 2017
The estimation of statistical parameters for local alignment score distributions.
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3465089
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30 September 2017
T-Coffee: A novel method for fast and accurate multiple sequence alignment
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3465089
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30 September 2017
IMPALA: matching a protein sequence against a collection of PSI-BLAST-constructed position-specific score matrices
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3465089
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30 September 2017
The Protein Data Bank
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30 September 2017
Hidden Markov models for detecting remote protein homologies
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30 September 2017
Profile hidden Markov models
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PubMed Central
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30 September 2017
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
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30 September 2017
Local alignment statistics
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3465089
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30 September 2017
A Hidden Markov Model approach to variation among sites in rate of evolution
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3465089
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30 September 2017
Applications and statistics for multiple high-scoring segments in molecular sequences
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30 September 2017
Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3465089
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30 September 2017
CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3465089
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30 September 2017
A space-time process model for the evolution of DNA sequences.
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3465089
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30 September 2017
Maximum discrimination hidden Markov models of sequence consensus
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3465089
retrieved
30 September 2017
Identification of common molecular subsequences
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3465089
retrieved
30 September 2017
Models of sequence evolution for DNA sequences containing gaps
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3465089
retrieved
29 June 2018
Rapid assessment of extremal statistics for gapped local alignment
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3465089
retrieved
29 June 2018
An evolutionary model for maximum likelihood alignment of DNA sequences
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3465089
retrieved
29 June 2018
Aligning short reads to reference alignments and trees.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3465089
retrieved
22 September 2018
Efficiently computing the Robinson-Foulds metric.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3465089
retrieved
22 September 2018
Multiple alignment by aligning alignments.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3465089
retrieved
22 September 2018
Exact and heuristic algorithms for the Indel Maximum Likelihood Problem.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3465089
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22 September 2018
Indelign: a probabilistic framework for annotation of insertions and deletions in a multiple alignment.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3465089
retrieved
22 September 2018
On the inference of parsimonious indel evolutionary scenarios.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3465089
retrieved
22 September 2018
Statistics of local multiple alignments.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3465089
retrieved
22 September 2018
Rapid significance estimation in local sequence alignment with gaps.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3465089
retrieved
22 September 2018
DIALIGN: finding local similarities by multiple sequence alignment.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3465089
retrieved
22 September 2018
COMPASS: a tool for comparison of multiple protein alignments with assessment of statistical significance
1 reference
stated in
PubMed
reference URL
https://pubmed.ncbi.nlm.nih.gov/22492645
retrieved
12 December 2020
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Identifiers
DOI
10.1093/BIOINFORMATICS/BTS158
1 reference
stated in
Europe PubMed Central
PMCID
3465089
retrieved
13 August 2017
DBLP publication ID
journals/bioinformatics/SunB12
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DBLP Dataset 2021-01-02
retrieved
28 January 2021
Fatcat ID
release_ycwz5w2h7nb67khtagmenp3vbu
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Fatcat
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https://api.fatcat.wiki/v0/release/ycwz5w2h7nb67khtagmenp3vbu
retrieved
24 November 2022
based on heuristic
mapped directly with Wikidata item
PMCID
3465089
1 reference
stated in
Europe PubMed Central
PMCID
3465089
retrieved
13 August 2017
PubMed ID
22492645
1 reference
stated in
Europe PubMed Central
PMCID
3465089
retrieved
13 August 2017
ResearchGate publication ID
223974047
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