Orthograph: a versatile tool for mapping coding nucleotide sequences to clusters of orthologous genes (Q36283309)

13 August 2017

Orthograph: a versatile tool for mapping coding nucleotide sequences to clusters of orthologous genes (English)

1 reference

13 August 2017

1

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13 June 2020

Alexander Donath

3

1 reference

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Alexandros Vasilikopoulos

13 June 2020

8

1 reference

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13 June 2020

10

Bernhard Misof

1 reference

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13 June 2020

7

Lars Podsiadlowski

1 reference

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13 June 2020

author name string

Karen Meusemann

2

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13 June 2020

Daniel Dowling

4

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13 June 2020

Shanlin Liu

5

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13 June 2020

Ralph S Peters

6

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13 June 2020

Xin Zhou

9

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13 June 2020

Oliver Niehuis

11

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13 June 2020

publication date

16 February 2017

1 reference

13 August 2017

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13 June 2020

volume

18

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13 June 2020

issue

1

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13 June 2020

page(s)

111

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https://scigraph.springernature.com/pub.10.1186/s12859-017-1529-8

13 June 2020

exact match

0 references

cites work

BaitFisher: A Software Package for Multispecies Target DNA Enrichment Probe Design

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5312442

OrthoFinder: solving fundamental biases in whole genome comparisons dramatically improves orthogroup inference accuracy

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5312442

Whole-genome analyses resolve early branches in the tree of life of modern birds

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5312442

Extensive error in the number of genes inferred from draft genome assemblies

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5312442

OrthoDB v8: update of the hierarchical catalog of orthologs and the underlying free software

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5312442

The OMA orthology database in 2015: function predictions, better plant support, synteny view and other improvements.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5312442

Phylogenomics resolves the timing and pattern of insect evolution

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5312442

Platyzoan paraphyly based on phylogenomic data supports a noncoelomate ancestry of spiralia

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5312442

A phylogenomics approach for selecting robust sets of phylogenetic markers

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5312442

Resolving the ortholog conjecture: orthologs tend to be weakly, but significantly, more similar in function than paralogs

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5312442

Accelerated Profile HMM Searches

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5312442

Orthology prediction methods: a quality assessment using curated protein families

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5312442

Computational methods for Gene Orthology inference

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5312442

Faster Smith-Waterman database searches with inter-sequence SIMD parallelisation

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5312442

Phylogenomic analyses unravel annelid evolution

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5312442

The genome sequence of the leaf-cutter ant Atta cephalotes reveals insights into its obligate symbiotic lifestyle

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5312442

OrthoDB: the hierarchical catalog of eukaryotic orthologs in 2011

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5312442

Genomic comparison of the ants Camponotus floridanus and Harpegnathos saltator

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5312442

Functional and evolutionary insights from the genomes of three parasitoid Nasonia species

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5312442

OrthoSelect: a protocol for selecting orthologous groups in phylogenomics

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5312442

HaMStR: profile hidden markov model based search for orthologs in ESTs

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5312442

The genome of the model beetle and pest Tribolium castaneum

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5312442

Insights into social insects from the genome of the honeybee Apis mellifera

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5312442

COCO-CL: hierarchical clustering of homology relations based on evolutionary correlations

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5312442

Orthologs, paralogs, and evolutionary genomics

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5312442

Automated generation of heuristics for biological sequence comparison

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5312442

OrthoMCL: Identification of Ortholog Groups for Eukaryotic Genomes

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5312442

InParanoid 8: orthology analysis between 273 proteomes, mostly eukaryotic

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5312442

Assessment of phylogenomic and orthology approaches for phylogenetic inference.

22 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5312442

10.1186/S12859-017-1529-8

22 September 2018

Identifiers

DOI

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28209129%20AND%20SRC:MED&resulttype=core&format=json

journals/bmcbi/PetersenMDDLPPV17

13 June 2020

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

Dimensions Publication ID

28 January 2021

0 references

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28209129%20AND%20SRC:MED&resulttype=core&format=json

13 June 2020

1 reference