(Q27325642)

English

Sequencing of Pax6 loci from the elephant shark reveals a family of Pax6 genes in vertebrate genomes, forged by ancient duplications and divergences

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scholarly article

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Sequencing of Pax6 loci from the elephant shark reveals a family of Pax6 genes in vertebrate genomes, forged by ancient duplications and divergences (English)

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10

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Veronica van Heyningen

9

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Byrappa Venkatesh

11

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Vydianathan Ravi

1

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Dirk A Kleinjan

12

object named as

Dirk A Kleinjan

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Philippe Gautier

3

object named as

Philippe Gautier

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author name string

Shipra Bhatia

2

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Felix Loosli

4

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Boon-Hui Tay

5

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Alice Tay

6

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Emma Murdoch

7

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Pedro Coutinho

8

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language of work or name

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publication date

2013

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9

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1

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e1003177

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copyright license

Creative Commons Attribution 4.0 International

24 January 2013

1 reference

April 2022 Public Data File from Crossref

copyright status

0 references

The amphioxus genome illuminates vertebrate origins and cephalochordate biology

1 reference

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21 March 2017

Subfunctionalization of duplicated zebrafish pax6 genes by cis-regulatory divergence

1 reference

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21 March 2017

The new mutation theory of phenotypic evolution

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21 March 2017

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1 reference

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21 March 2017

Survey sequencing and comparative analysis of the elephant shark (Callorhinchus milii) genome

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

21 March 2017

Two rounds of whole genome duplication in the ancestral vertebrate

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

21 March 2017

PAX6 mutations: genotype-phenotype correlations

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

21 March 2017

GeneWise and Genomewise

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21 March 2017

Genome duplication, a trait shared by 22000 species of ray-finned fish

1 reference

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21 March 2017

PAX6 mutation as a genetic factor common to aniridia and glucose intolerance

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

21 March 2017

3' deletions cause aniridia by preventing PAX6 gene expression

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

21 March 2017

Preservation of duplicate genes by complementary, degenerative mutations

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21 March 2017

Gapped BLAST and PSI-BLAST: a new generation of protein database search programs

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21 March 2017

The neighbor-joining method: a new method for reconstructing phylogenetic trees

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21 March 2017

MEGA5: Molecular Evolutionary Genetics Analysis Using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods

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21 March 2017

Clustal W and Clustal X version 2.0

1 reference

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21 March 2017

The evolutionary fate and consequences of duplicate genes

1 reference

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21 March 2017

EMBOSS: the European Molecular Biology Open Software Suite

1 reference

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21 March 2017

Consed: a graphical tool for sequence finishing

1 reference

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21 March 2017

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

1 reference

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21 March 2017

TreeView: an application to display phylogenetic trees on personal computers

1 reference

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21 March 2017

Stages of embryonic development of the zebrafish

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21 March 2017

Evo-Devo and an Expanding Evolutionary Synthesis: A Genetic Theory of Morphological Evolution

1 reference

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21 March 2017

Characterization of a novel gene adjacent to PAX6, revealing synteny conservation with functional significance

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

21 March 2017

Superactivation of Pax6-mediated transactivation from paired domain-binding sites by dna-independent recruitment of different homeodomain proteins

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

21 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

21 March 2017

PAX-6 in development and evolution

2 references

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

21 March 2017

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

7 April 2017

Two independent and interactive DNA-binding subdomains of the Pax6 paired domain are regulated by alternative splicing

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

21 March 2017

PAX6 gene dosage effect in a family with congenital cataracts, aniridia, anophthalmia and central nervous system defects

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

21 March 2017

Homology of the eyeless gene of Drosophila to the Small eye gene in mice and Aniridia in humans

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

21 March 2017

Induction of ectopic eyes by targeted expression of the eyeless gene in Drosophila

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

21 March 2017

Positional cloning and characterization of a paired box- and homeobox-containing gene from the aniridia region

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

21 March 2017

Molecular dissection of Pax6 function: the specific roles of the paired domain and homeodomain in brain development

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

21 March 2017

Analysis of Pax6 expression using a BAC transgene reveals the presence of a paired-less isoform of Pax6 in the eye and olfactory bulb

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

21 March 2017

Cis-regulatory elements: molecular mechanisms and evolutionary processes underlying divergence

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

7 April 2017

VISTA: computational tools for comparative genomics

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

7 April 2017

High-resolution in situ hybridization to whole-mount zebrafish embryos

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

7 April 2017

Annotation, submission and screening of repetitive elements in Repbase: RepbaseSubmitter and Censor

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

7 April 2017

Optical projection tomography as a tool for 3D microscopy and gene expression studies

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

7 April 2017

Mouse small eye results from mutations in a paired-like homeobox-containing gene

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

7 April 2017

DNaseI hypersensitivity and ultraconservation reveal novel, interdependent long-range enhancers at the complex Pax6 cis-regulatory region

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

28 September 2017

Three periods of regulatory innovation during vertebrate evolution

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

28 September 2017

The role of Pax6 in forebrain development.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

28 September 2017

Ancient vertebrate conserved noncoding elements have been evolving rapidly in teleost fishes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

28 September 2017

Evolutionary origin and phylogeny of the modern holocephalans (Chondrichthyes: Chimaeriformes): a mitogenomic perspective

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

28 September 2017

Relative roles of the different Pax6 domains for pancreatic alpha cell development

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

28 September 2017

Early evolution of conserved regulatory sequences associated with development in vertebrates

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

28 September 2017

Effects of elevated Pax6 expression and genetic background on mouse eye development

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

28 September 2017

Concise review: Pax6 transcription factor contributes to both embryonic and adult neurogenesis as a multifunctional regulator

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

28 September 2017

Emerging principles of regulatory evolution

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

28 September 2017

Ancient noncoding elements conserved in the human genome

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

28 September 2017

Long-range downstream enhancers are essential for Pax6 expression

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

28 September 2017

Genetic analysis of the Caenorhabditis elegans pax-6 locus: roles of paired domain-containing and nonpaired domain-containing isoforms

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

28 September 2017

Subfunction partitioning, the teleost radiation and the annotation of the human genome.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

28 September 2017

Glocal alignment: finding rearrangements during alignment

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

28 September 2017

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

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

28 September 2017

Splitting pairs: the diverging fates of duplicated genes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

28 September 2017

Pax6; a pleiotropic player in development.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

28 September 2017

Frequent chromosome aberrations revealed by molecular cytogenetic studies in patients with aniridia

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

28 September 2017

The genetic control of eye development and its implications for the evolution of the various eye-types

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

28 September 2017

PAX6 haploinsufficiency causes cerebral malformation and olfactory dysfunction in humans.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

28 September 2017

Zebrafish contains two pax6 genes involved in eye development

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

28 September 2017

Complete sequencing of the Fugu WAGR region from WT1 to PAX6: dramatic compaction and conservation of synteny with human chromosome 11p13.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

28 September 2017

A mutation in the Pax-6 gene in rat small eye is associated with impaired migration of midbrain crest cells

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

28 September 2017

Identification and characterization of a neuroretina-specific enhancer element in the quail Pax-6 (Pax-QNR) gene

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

28 September 2017

Small is beautiful: comparative genomics with the pufferfish (Fugu rubripes).

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

28 September 2017

Regulatory divergence of the duplicated chromosomal loci sox11a/b by subpartitioning and sequence evolution of enhancers in zebrafish

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

2 June 2018

Metrics of sequence constraint overlook regulatory sequences in an exhaustive analysis at phox2b

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

2 June 2018

Three novel Pax6 alleles in the mouse leading to the same small-eye phenotype caused by different consequences at target promoters

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

2 June 2018

New 3' elements control Pax6 expression in the developing pretectum, neural retina and olfactory region.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

2 June 2018

Six3, a medaka homologue of the Drosophila homeobox gene sine oculis is expressed in the anterior embryonic shield and the developing eye.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

2 June 2018

The master control gene for morphogenesis and evolution of the eye.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

2 June 2018

Influence of PAX6 gene dosage on development: overexpression causes severe eye abnormalities.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

2 June 2018

Aniridia-associated cytogenetic rearrangements suggest that a position effect may cause the mutant phenotype

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

2 June 2018

Defective auditory interhemispheric transfer in a patient with a PAX6 mutation.

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1003177

21 January 2018

Conserved elements in Pax6 intron 7 involved in (auto)regulation and alternative transcription.

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1003177

21 January 2018

Aniridia-associated translocations, DNase hypersensitivity, sequence comparison and transgenic analysis redefine the functional domain of PAX6.

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1003177

21 January 2018

Distinct cis-essential modules direct the time-space pattern of the Pax6 gene activity.

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1003177

21 January 2018

Systematic human/zebrafish comparative identification of cis-regulatory activity around vertebrate developmental transcription factor genes.

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1003177

21 January 2018

Genomic regulatory blocks encompass multiple neighboring genes and maintain conserved synteny in vertebrates

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1003177

21 January 2018

Mechanisms controlling Pax6 isoform expression in the retina have been conserved between teleosts and mammals.

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1003177

21 January 2018

Fugu genome analysis provides evidence for a whole-genome duplication early during the evolution of ray-finned fishes

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1003177

21 January 2018

Conserved and acquired features of neurogenin1 regulation.

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1003177

21 January 2018

Large number of ultraconserved elements were already present in the jawed vertebrate ancestor

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1003177

21 January 2018

twin of eyeless, a second Pax-6 gene of Drosophila, acts upstream of eyeless in the control of eye development.

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1003177

21 January 2018

Growth and specification of the eye are controlled independently by Eyegone and Eyeless in Drosophila melanogaster

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1003177

21 January 2018

Transgenesis and gene trap methods in zebrafish by using the Tol2 transposable element.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

27 November 2018

Regulation of Pax6 expression is conserved between mice and flies.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3554528

27 November 2018

Evaluating the biological relevance of putative enhancers using Tol2 transposon-mediated transgenesis in zebrafish

1 reference

https://pubmed.ncbi.nlm.nih.gov/23359656

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Phylogenetic timing of the fish-specific genome duplication correlates with the diversification of teleost fish

1 reference

https://pubmed.ncbi.nlm.nih.gov/23359656

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Conservation of RET regulatory function from human to zebrafish without sequence similarity

1 reference

https://pubmed.ncbi.nlm.nih.gov/23359656

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Overexpression of pairedless Pax6 in the retina disrupts corneal development and affects lens cell survival

1 reference

https://pubmed.ncbi.nlm.nih.gov/23359656

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Genetic analysis of chromosome 11p13 and thePAX6 gene in a series of 125 cases referred with aniridia

1 reference

https://pubmed.ncbi.nlm.nih.gov/23359656

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1371/JOURNAL.PGEN.1003177

1 reference

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

OpenCitations bibliographic resource ID

1 reference

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

1 reference

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

1 reference

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

ResearchGate publication ID

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