PHAST and RPHAST: phylogenetic analysis with space/time models (Q33806905)

29 July 2017

title

PHAST and RPHAST: phylogenetic analysis with space/time models (English)

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29 July 2017

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29 July 2017

Katherine S Pollard

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29 July 2017

Melissa J Hubisz

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29 July 2017

publication date

21 December 2010

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Briefings in Bioinformatics

29 July 2017

published in

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29 July 2017

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29 July 2017

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29 July 2017

page(s)

41-51

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The UCSC Genome Browser database: update 2010

29 July 2017

cites work

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3030812

Detection of nonneutral substitution rates on mammalian phylogenies

4 July 2018

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Sequencing and comparative analysis of a conserved syntenic segment in the Solanaceae

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3030812

Accelerated sequence divergence of conserved genomic elements in Drosophila melanogaster

4 July 2018

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4 July 2018

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Analysis of sequence conservation at nucleotide resolution

4 July 2018

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Targeted discovery of novel human exons by comparative genomics

4 July 2018

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Adaptive evolution of conserved noncoding elements in mammals

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3030812

PAML 4: phylogenetic analysis by maximum likelihood

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3030812

Accelerated evolution of conserved noncoding sequences in humans

4 July 2018

1 reference

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An RNA gene expressed during cortical development evolved rapidly in humans

4 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3030812

Identification and classification of conserved RNA secondary structures in the human genome

4 July 2018

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Galaxy: a platform for interactive large-scale genome analysis

4 July 2018

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Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes

4 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3030812

Distribution and intensity of constraint in mammalian genomic sequence

4 July 2018

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MONKEY: identifying conserved transcription-factor binding sites in multiple alignments using a binding site-specific evolutionary model

4 July 2018

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4 July 2018

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Identification and characterization of multi-species conserved sequences

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3030812

Sequencing and comparison of yeast species to identify genes and regulatory elements

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3030812

Comparison of mouse and human genomes followed by experimental verification yields an estimated 1,019 additional genes

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3030812

Molecular cloning and characterization of Kremen, a novel kringle-containing transmembrane protein

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3030812

A space-time process model for the evolution of DNA sequences.

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3030812

Using multiple alignments to improve gene prediction.

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3030812

Phylogenetic estimation of context-dependent substitution rates by maximum likelihood

30 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3030812

30 October 2018

Identifiers

DOI

10.1093/BIB/BBQ072

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29 July 2017

DBLP publication ID

journals/bib/HubiszPS11

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DBLP Dataset 2021-01-02

28 January 2021

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29 July 2017

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