(Q33893358)

29 July 2017

title

Divergence in cis-regulatory sequences surrounding the opsin gene arrays of African cichlid fishes (English)

1 reference

29 July 2017

1 reference

9

Karen L Carleton

1 reference

29 July 2017

6

Yong-Hwee E Loh

1 reference

29 July 2017

7

J Todd Streelman

1 reference

29 July 2017

Kelly E O'Quin

1

1 reference

29 July 2017

Daniel Smith

2

1 reference

29 July 2017

Zan Naseer

3

1 reference

29 July 2017

Jane Schulte

4

1 reference

29 July 2017

Samuel D Engel

5

1 reference

29 July 2017

Jeffrey L Boore

8

1 reference

29 July 2017

publication date

9 May 2011

1 reference

29 July 2017

published in

BMC Evolutionary Biology

1 reference

29 July 2017

volume

11

1 reference

29 July 2017

page(s)

120

1 reference

Cichlid fish visual systems: mechanisms of spectral tuning

29 July 2017

cites work

1 reference

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Evolution of microRNAs and the diversification of species

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Parallel evolution of opsin gene expression in African cichlid fishes

5 July 2018

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Genomic organization of duplicated short wave-sensitive and long wave-sensitive opsin genes in the green swordtail, Xiphophorus helleri

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Genetic basis of differential opsin gene expression in cichlid fishes

5 July 2018

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Sexual conflict resolved by invasion of a novel sex determiner in Lake Malawi cichlid fishes

5 July 2018

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Evolutionary dynamics of rhodopsin type 2 opsins in vertebrates

5 July 2018

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5 July 2018

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Roles of trans and cis variation in yeast intraspecies evolution of gene expression

5 July 2018

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TGF-beta activates Akt kinase through a microRNA-dependent amplifying circuit targeting PTEN

5 July 2018

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DnaSP v5: a software for comprehensive analysis of DNA polymorphism data

5 July 2018

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PeakSeq enables systematic scoring of ChIP-seq experiments relative to controls

5 July 2018

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Identification of miRNAs associated with tumorigenesis of retinoblastoma by miRNA microarray analysis

5 July 2018

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Dominance and the evolutionary accumulation of cis- and trans-effects on gene expression

5 July 2018

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Comparative analysis reveals signatures of differentiation amid genomic polymorphism in Lake Malawi cichlids

5 July 2018

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Visual sensitivities tuned by heterochronic shifts in opsin gene expression

5 July 2018

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jModelTest: phylogenetic model averaging

5 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=3116502

Recent developments in the MAFFT multiple sequence alignment program

5 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=3116502

Construction of bacterial artificial chromosome libraries for the Lake Malawi cichlid (Metriaclima zebra), and the blind cavefish (Astyanax mexicanus).

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

miRBase: tools for microRNA genomics

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Comparative phylogenomic analyses of teleost fish Hox gene clusters: lessons from the cichlid fish Astatotilapia burtoni

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Prediction and verification of miRNA expression in human and rat retinas.

5 July 2018

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PLINK: a tool set for whole-genome association and population-based linkage analyses

5 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=3116502

Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project

5 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=3116502

The locus of evolution: evo devo and the genetics of adaptation

5 July 2018

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Post-transcriptional regulation of the Brn-3b transcription factor in differentiating neuroblastoma cells.

5 July 2018

1 reference

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miR-181a is an intrinsic modulator of T cell sensitivity and selection

5 July 2018

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Age of cichlids: new dates for ancient lake fish radiations

5 July 2018

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The evolutionary significance of cis-regulatory mutations

5 July 2018

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Identification and characterization of microRNAs expressed in the mouse eye.

5 July 2018

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Convergent adaptation of human lactase persistence in Africa and Europe

5 July 2018

1 reference

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Divergent selection on opsins drives incipient speciation in Lake Victoria cichlids

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

MicroRNAs of the mammalian eye display distinct and overlapping tissue specificity

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Natural selection on human microRNA binding sites inferred from SNP data

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Retinal ganglion cells: dying to survive.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

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

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Evolution of the cichlid visual palette through ontogenetic subfunctionalization of the opsin gene arrays.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Cloning and expression of new microRNAs from zebrafish.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Genome sequencing in microfabricated high-density picolitre reactors

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Evolution at two levels: on genes and form

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

MicroRNA expression in zebrafish embryonic development

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Adaptive molecular evolution in the opsin genes of rapidly speciating cichlid species

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

A second-generation genetic linkage map of tilapia (Oreochromis spp.).

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

The photoreceptor-specific nuclear receptor Nr2e3 interacts with Crx and exerts opposing effects on the transcription of rod versus cone genes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Genetic analysis of genome-wide variation in human gene expression

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Adaptive evolution and explosive speciation: the cichlid fish model

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Applied bioinformatics for the identification of regulatory elements

5 July 2018

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Patterns of evolutionary constraints in intronic and intergenic DNA of Drosophila.

5 July 2018

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MicroRNAs: genomics, biogenesis, mechanism, and function

5 July 2018

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5 July 2018

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Prediction of mammalian microRNA targets

21 January 2018

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Identification of Drosophila MicroRNA targets

5 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=3116502

Divergent selection during speciation of Lake Malawi cichlid fishes inferred from parallel radiations in nuptial coloration

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Functional constraints and frequency of deleterious mutations in noncoding DNA of rodents

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Transcription regulation and animal diversity

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

MultiPipMaker and supporting tools: Alignments and analysis of multiple genomic DNA sequences

5 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=3116502

Evolution of transcription factor function

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

LAGAN and Multi-LAGAN: efficient tools for large-scale multiple alignment of genomic DNA

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Gene duplication and spectral diversification of cone visual pigments of zebrafish

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Phylogenetic shadowing of primate sequences to find functional regions of the human genome

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Strategies and tools for whole-genome alignments

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Cleavage of Scarecrow-like mRNA targets directed by a class of Arabidopsis miRNA

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

A microRNA in a multiple-turnover RNAi enzyme complex

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Exploiting transcription factor binding site clustering to identify cis-regulatory modules involved in pattern formation in the Drosophila genome

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Role of a locus control region in the mutually exclusive expression of human red and green cone pigment genes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Construction and characterization of BAC libraries for three fish species; rainbow trout, carp and tilapia

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

A thyroid hormone receptor that is required for the development of green cone photoreceptors

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

DNA binding sites: representation and discovery

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

PipMaker--a web server for aligning two genomic DNA sequences

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Adaptive evolution of color vision of the Comoran coelacanth (Latimeria chalumnae)

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Base-calling of automated sequencer traces using phred. I. Accuracy assessment

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Genomic cis-regulatory logic: experimental and computational analysis of a sea urchin gene

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Evolutionary strategies for the elucidation of cis and trans factors that regulate the developmental switching programs of the beta-like globin genes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Multiple Sp1 binding sites in the cardiac/slow twitch muscle sarcoplasmic reticulum Ca2+-ATPase gene promoter are required for expression in Sol8 muscle cells

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Retinoic acid receptors and retinoid X receptor-alpha down-regulate the transforming growth factor-beta 1 promoter by antagonizing AP-1 activity

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

The developmental trajectory of ultraviolet photosensitivity in rainbow trout is altered by thyroxine.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

The Molecular Basis of Visual Excitation

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Measurement of the binding of transcription factor Sp1 to a single GC box recognition sequence

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

An erythroid-specific, developmental-stage-independent enhancer far upstream of the human "beta-like globin" genes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Basic local alignment search tool

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Adaptation of bird hemoglobins to high altitudes: demonstration of molecular mechanism by protein engineering

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Retinoic acid is a negative regulator of AP-1-responsive genes.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

A locus control region adjacent to the human red and green visual pigment genes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

The evolution of gene regulation underlies a morphological difference between two Drosophila sister species.

5 July 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-11-120

Differential activation of the rat phenylethanolamine N-methyltransferase gene by Sp1 and Egr-1.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-11-120

The targeting of Xcat2 mRNA to the germinal granules depends on a cis-acting germinal granule localization element within the 3'UTR.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-11-120

African cichlid fish: a model system in adaptive radiation research.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-11-120

Transient expression of thyroid hormone nuclear receptor TRbeta2 sets S opsin patterning during cone photoreceptor genesis.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-11-120

Chromatin immunoprecipitation assay on the rainbow trout opsin proximal promoters illustrates binding of NF-kappaB and c-jun to the SWS1 promoter in the retina

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-11-120

Retinoid X receptor (gamma) is necessary to establish the S-opsin gradient in cone photoreceptors of the developing mouse retina

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-11-120

Identification of cis-acting elements repressing blue opsin expression in zebrafish UV cones and pineal cells

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-11-120

Cone opsin genes of african cichlid fishes: tuning spectral sensitivity by differential gene expression.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-11-120

Novel relationships among ten fish model species revealed based on a phylogenomic analysis using ESTs

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-11-120

Gene duplication and differential gene expression play an important role in the diversification of visual pigments in fish.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-11-120

Convergent loss of an anciently duplicated, functionally divergent RH2 opsin gene in the fugu and Tetraodon pufferfish lineages

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-11-120

Cone visual pigments of monotremes: filling the phylogenetic gap.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-11-120

Adaptive evolution of non-coding DNA in Drosophila

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-11-120

MicroRNA (miRNA) transcriptome of mouse retina and identification of a sensory organ-specific miRNA cluster

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-11-120

New evidence for the role of heterochrony in the repeated evolution of cichlid opsin expression

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-11-120

Evolutionary changes in cis and trans gene regulation

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-11-120

Using TESS to predict transcription factor binding sites in DNA sequence

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

RETINOIC ACID MODULATES RETINAL DEVELOPMENT IN THE JUVENILES OF A TELEOST FISH

29 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

Hypoxia and mitochondrial inhibitors regulate expression of glucose transporter-1 via distinct Cis-acting sequences

29 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3116502

29 October 2018

Identifiers

DOI

10.1186/1471-2148-11-120

1 reference

Dimensions Publication ID

29 July 2017

1 reference

https://scigraph.springernature.com/pub.10.1186/1471-2148-11-120

9 September 2019

1 reference

29 July 2017

1 reference