(Q28706123)

Lenin Arias Rodriguez

4

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Joanna L. Kelley

Joanna L Kelley

1

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Michael Tobler

Michael Tobler

6

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author name string

Courtney N Passow

2

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Muh-Ching Yee

describes a project that uses

5

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language of work or name

English

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publication date

21 November 2012

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published in

BMC Genomics

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volume

13

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issue

1

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page(s)

652

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edgeR

edgeR

1 reference

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

cites work

The Pfam protein families database

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Full-length transcriptome assembly from RNA-Seq data without a reference genome

17 March 2017

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Rfam: Wikipedia, clans and the "decimal" release

17 March 2017

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The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

17 March 2017

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Population genomics of parallel adaptation in threespine stickleback using sequenced RAD tags

17 March 2017

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edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

17 March 2017

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Fast and accurate short read alignment with Burrows-Wheeler transform

17 March 2017

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Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

17 March 2017

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RNA-Seq: a revolutionary tool for transcriptomics

17 March 2017

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Blast2GO: A comprehensive suite for functional analysis in plant genomics

17 March 2017

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High-throughput functional annotation and data mining with the Blast2GO suite

17 March 2017

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OrfPredictor: predicting protein-coding regions in EST-derived sequences

17 March 2017

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The Gene Ontology (GO) database and informatics resource

17 March 2017

1 reference

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Reorganizing the protein space at the Universal Protein Resource (UniProt)

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

A framework for variation discovery and genotyping using next-generation DNA sequencing data

7 April 2017

1 reference

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Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

Evidence for ecological speciation and its alternative

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

Shared and unique patterns of embryo development in extremophile poeciliids

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

Sequencing and characterization of the guppy (Poecilia reticulata) transcriptome

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

Transcriptome analysis of female and male Xiphophorus maculatus Jp 163 A.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

Identification of transcriptome SNPs between Xiphophorus lines and species for assessing allele specific gene expression within F₁ interspecies hybrids

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

Locally adapted fish populations maintain small-scale genetic differentiation despite perturbation by a catastrophic flood event

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

Highly-multiplexed barcode sequencing: an efficient method for parallel analysis of pooled samples

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

Speciation genetics: current status and evolving approaches.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

Oxidation of hydrogen sulfide remains a priority in mammalian cells and causes reverse electron transfer in colonocytes.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

Rapid evolution and selection inferred from the transcriptomes of sympatric crater lake cichlid fishes

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

Genome-wide single nucleotide polymorphisms reveal population history and adaptive divergence in wild guppies

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

RNA-seq: from technology to biology

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

Characterizing natural variation using next-generation sequencing technologies.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

Reduced opsin gene expression in a cave-dwelling fish

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

Does a predatory insect contribute to the divergence between cave- and surface-adapted fish populations?

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

High-stress subterranean habitats and evolutionary change in cave-inhabiting arthropods

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

Comparison of gene expression responses to hypoxia in viviparous (Xiphophorus) and oviparous (Oryzias) fishes using a medaka microarray.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

Natural selection on a major armor gene in threespine stickleback

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

Toxic hydrogen sulfide and dark caves: phenotypic and genetic divergence across two abiotic environmental gradients in Poecilia mexicana

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

Hydrogen sulphide and its therapeutic potential

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

Moderated statistical tests for assessing differences in tag abundance

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

Small-sample estimation of negative binomial dispersion, with applications to SAGE data

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

ESTs and EST-linked polymorphisms for genetic mapping and phylogenetic reconstruction in the guppy, Poecilia reticulata

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

A practical approach to phylogenomics: the phylogeny of ray-finned fish (Actinopterygii) as a case study

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

Combining population genomics and quantitative genetics: finding the genes underlying ecologically important traits.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

A single amino acid mutation contributes to adaptive beach mouse color pattern

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

Life on the edge: hydrogen sulfide and the fish communities of a Mexican cave and surrounding waters

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

A microsatellite genetic linkage map for Xiphophorus

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

Oxidation of biological systems: oxidative stress phenomena, antioxidants, redox reactions, and methods for their quantification

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

Heat-shock proteins, molecular chaperones, and the stress response: evolutionary and ecological physiology

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

Animal adaptations for tolerance and exploitation of poisonous sulfide

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

Population resequencing reveals local adaptation of Arabidopsis lyrata to serpentine soils

3 June 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-13-652

An EST-based genome scan using 454 sequencing in the marine snail Littorina saxatilis

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-13-652

Toxic hydrogen sulfide and dark caves: life-history adaptations in a livebearing fish (Poecilia mexicana, Poeciliidae).

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-13-652

Evolution in extreme environments: replicated phenotypic differentiation in livebearing fish inhabiting sulfidic springs.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-13-652

Convergent life-history shifts: toxic environments result in big babies in two clades of poeciliids.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-13-652

Natural and sexual selection against immigrants maintains differentiation among micro-allopatric populations

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-13-652

Complementary effect of natural and sexual selection against immigrants maintains differentiation between locally adapted fish.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-13-652

Transcriptomics of environmental acclimatization and survival in wild adult Pacific sockeye salmon (Oncorhynchus nerka) during spawning migration.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-13-652

Strategies adopted by the mudskipper Boleophthalmus boddaerti to survive sulfide exposure in normoxia or hypoxia

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-13-652

Genetic linkage map of the guppy, Poecilia reticulata, and quantitative trait loci analysis of male size and colour variation.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-13-652

A genetic basis for the phenotypic differentiation between siscowet and lean lake trout (Salvelinus namaycush).

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

Mining transcriptome sequences towards identifying adaptive single nucleotide polymorphisms in lake whitefish species pairs (Coregonus spp. Salmonidae).

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

Candidate genes and adaptive radiation: insights from transcriptional adaptation to the limnetic niche among coregonine fishes (Coregonus spp., Salmonidae).

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585874

The power and promise of population genomics: from genotyping to genome typing

27 November 2018

1 reference

12 December 2020

Combinatorics and next-generation sequencing

1 reference

12 December 2020

EVOLUTIONARY ORIGIN OF A PARTHENOFORM, THE AMAZON MOLLY POECILIA FORMOSA, ON THE BASIS OF A MOLECULAR GENEALOGY.

1 reference

12 December 2020

ORIGIN AND MAINTENANCE OF A FEMALE MATING PREFERENCE

1 reference

12 December 2020

Identifiers

DOI

10.1186/1471-2164-13-652

1 reference

Dimensions Publication ID

1007425066

0 references

1 reference

1 reference

PubMed publication ID

23170846

1 reference