Highly conserved non-coding sequences are associated with vertebrate development (Q21092819)

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7 January 2020

title

Highly conserved non-coding sequences are associated with vertebrate development (English)

1 reference

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7 January 2020

6

Tanya Vavouri

Tanya

Vavouri

1 reference

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7 January 2020

11

Klaudia Walter

Klaudia

Walter

1 reference

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7 January 2020

16

Greg Elgar

Greg

Elgar

1 reference

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7 January 2020

14

Yvonne J K Edwards

Yvonne J K

Edwards

1 reference

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7 January 2020

Adam Woolfe

1

Adam

Woolfe

1 reference

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7 January 2020

Martin Goodson

2

Martin

Goodson

1 reference

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7 January 2020

Debbie K Goode

3

Debbie K

Goode

1 reference

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7 January 2020

Phil Snell

4

Phil

Snell

1 reference

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7 January 2020

Gayle K McEwen

5

Gayle K

McEwen

1 reference

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7 January 2020

Sarah F Smith

7

Sarah F

Smith

1 reference

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7 January 2020

Phil North

8

Phil

North

1 reference

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7 January 2020

Heather Callaway

9

Heather

Callaway

1 reference

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7 January 2020

Krys Kelly

10

Krys

Kelly

1 reference

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7 January 2020

Irina Abnizova

12

Irina

Abnizova

1 reference

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7 January 2020

Walter Gilks

13

Walter

Gilks

1 reference

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7 January 2020

Julie E Cooke

15

Julie E

Cooke

1 reference

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7 January 2020

language of work or name

English

0 references

publication date

11 November 2004

1 reference

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7 January 2020

1 reference

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7 January 2020

volume

3

1 reference

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7 January 2020

page(s)

e7

1 reference

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7 January 2020

issue

1

1 reference

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Creative Commons Attribution 4.0 International

7 January 2020

copyright license

start time

11 November 2004

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

cites work

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Noncoding RNA gene detection using comparative sequence analysis

19 March 2017

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Initial sequencing and analysis of the human genome

19 March 2017

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19 March 2017

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Preservation of duplicate genes by complementary, degenerative mutations

19 March 2017

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A homeobox gene, HLXB9, is the major locus for dominantly inherited sacral agenesis

19 March 2017

1 reference

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

19 March 2017

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tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence

19 March 2017

1 reference

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Ultraconserved Elements in the Human Genome

19 March 2017

1 reference

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Genome sequence of the Brown Norway rat yields insights into mammalian evolution

19 March 2017

1 reference

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Initial sequencing and comparative analysis of the mouse genome

19 March 2017

1 reference

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Whole-Genome Shotgun Assembly and Analysis of the Genome of Fugu rubripes

19 March 2017

1 reference

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The Sequence of the Human Genome

19 March 2017

1 reference

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Prediction of complete gene structures in human genomic DNA

19 March 2017

1 reference

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Stages of embryonic development of the zebrafish

19 March 2017

1 reference

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Scanning Human Gene Deserts for Long-Range Enhancers

19 March 2017

1 reference

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A long-range Shh enhancer regulates expression in the developing limb and fin and is associated with preaxial polydactyly

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

The InterPro database, 2003 brings increased coverage and new features

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

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

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

A genomic regulatory network for development

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Analysis of vertebrate SCL loci identifies conserved enhancers

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Generation of destabilized green fluorescent protein as a transcription reporter

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Major events in the genome evolution of vertebrates: paranome age and size differ considerably between ray-finned fishes and land vertebrates

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

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

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Evolutionarily conserved sequences on human chromosome 21

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

A greedy algorithm for aligning DNA sequences

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

A molecular timescale for vertebrate evolution

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

GOstat: find statistically overrepresented Gene Ontologies within a group of genes

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

7 April 2017

1 reference

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Comparative analyses of multi-species sequences from targeted genomic regions

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Developmental roles and clinical significance of hedgehog signaling

7 April 2017

1 reference

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VISTA : visualizing global DNA sequence alignments of arbitrary length

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Gene regulatory network controlling embryonic specification in the sea urchin

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Comparative genomics at the vertebrate extremes

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Applied bioinformatics for the identification of regulatory elements

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Comparison of human chromosome 21 conserved nongenic sequences (CNGs) with the mouse and dog genomes shows that their selective constraint is independent of their genic environment

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Ectopic expression and knockdown of a zebrafish sox21 reveal its role as a transcriptional repressor in early development.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Identification of a developmentally regulated striatum-enriched zinc-finger gene, Nolz-1, in the mammalian brain

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Expression profiling and comparative genomics identify a conserved regulatory region controlling midline expression in the zebrafish embryo

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Identification and characterization of multi-species conserved sequences

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Evolutionary discrimination of mammalian conserved non-genic sequences (CNGs).

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Identification of Cis-regulatory Elements in the Mouse Pax9/Nkx2-9 Genomic Region: Implication for Evolutionary Conserved Synteny

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

The topology of the regulatory interactions predicts the expression pattern of the segment polarity genes in Drosophila melanogaster

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Regulatory roles of conserved intergenic domains in vertebrate Dlx bigene clusters.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Regulatory gene networks and the properties of the developmental process

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Identification of a novel gene on chromosome 7q11.2 interrupted by a translocation breakpoint in a pair of autistic twins

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Evolution of transcriptional regulation

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

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

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Large-scale comparative sequence analysis of the human and murine Bruton's tyrosine kinase loci reveals conserved regulatory domains

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

A functionally conserved homolog of the Drosophila segment polarity gene hh is expressed in tissues with polarizing activity in zebrafish embryos

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Characterization of the pufferfish (Fugu) genome as a compact model vertebrate genome

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Patterning activities of vertebrate hedgehog proteins in the developing eye and brain.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Noncoding sequences conserved in a limited number of mammals in the SIM2 interval are frequently functional

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Analysis of multiple genomic sequence alignments: a web resource, online tools, and lessons learned from analysis of mammalian SCL loci.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

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

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Intronic enhancers control expression of zebrafish sonic hedgehog in floor plate and notochord.

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

cSox21 exhibits a complex and dynamic pattern of transcription during embryonic development of the chick central nervous system.

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Activator effect of coinjected enhancers on the muscle-specific expression of promoters in zebrafish embryos.

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Zebrafish mnx genes in endocrine and exocrine pancreas formation.

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

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

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Characterization of the pufferfish Otx2 cis-regulators reveals evolutionarily conserved genetic mechanisms for vertebrate head specification.

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Specification of motoneuron fate in Drosophila: integration of positive and negative transcription factor inputs by a minimal eve enhancer.

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Functional and comparative analysis of globin loci in pufferfish and humans.

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Numerous potentially functional but non-genic conserved sequences on human chromosome 21

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Genomic characterization of the RUNX2 gene of Fugu rubripes.

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Comparative genomics of the SOX9 region in human and Fugu rubripes: conservation of short regulatory sequence elements within large intergenic regions.

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

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

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Human-mouse genome comparisons to locate regulatory sites

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Expression patterns of zebrafish sox11A, sox11B and sox21.

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Two distinct subgroups of Group B Sox genes for transcriptional activators and repressors: their expression during embryonic organogenesis of the chicken.

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

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

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Identification of an evolutionarily conserved 110 base-pair cis-acting regulatory sequence that governs Wnt-1 expression in the murine neural plate.

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

A conserved retinoic acid response element required for early expression of the homeobox gene Hoxb-1.

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=526512

Position effect in human genetic disease

29 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/15630479

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Techniques in neural development

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/15630479

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Long Human–Mouse Sequence Alignments Reveal Novel Regulatory Elements: A Reason to Sequence the Mouse Genome

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/15630479

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1371/JOURNAL.PBIO.0030007

2 references

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15630479%20AND%20SRC:MED&resulttype=core&format=json

7 January 2020

1 reference

2 references

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15630479%20AND%20SRC:MED&resulttype=core&format=json

7 January 2020

2 references