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Analysis of mammalian gene batteries reveals both stable ancestral cores and highly dynamic regulatory sequences
scientific article (publication date: 2008)
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Europe PubMed Central
PMCID
2646276
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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19087242%20AND%20SRC:MED&resulttype=core&format=json
retrieved
18 January 2020
title
Analysis of mammalian gene batteries reveals both stable ancestral cores and highly dynamic regulatory sequences
(English)
1 reference
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Europe PubMed Central
PMCID
2646276
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19087242%20AND%20SRC:MED&resulttype=core&format=json
retrieved
18 January 2020
author
Laurence M Ettwiller
series ordinal
1
1 reference
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Europe PubMed Central
PMCID
2646276
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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19087242%20AND%20SRC:MED&resulttype=core&format=json
retrieved
18 January 2020
Aidan Budd
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2
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Europe PubMed Central
PMCID
2646276
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19087242%20AND%20SRC:MED&resulttype=core&format=json
retrieved
18 January 2020
Francois Spitz
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3
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2646276
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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19087242%20AND%20SRC:MED&resulttype=core&format=json
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18 January 2020
Joachim Wittbrodt
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4
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2646276
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18 January 2020
author name string
Laurence Ettwiller
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1
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Aidan Budd
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2
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language of work or name
English
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publication date
16 December 2008
1 reference
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Europe PubMed Central
PMCID
2646276
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19087242%20AND%20SRC:MED&resulttype=core&format=json
retrieved
18 January 2020
published in
Genome Biology
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Europe PubMed Central
PMCID
2646276
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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19087242%20AND%20SRC:MED&resulttype=core&format=json
retrieved
18 January 2020
volume
9
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Europe PubMed Central
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2646276
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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19087242%20AND%20SRC:MED&resulttype=core&format=json
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18 January 2020
issue
12
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Europe PubMed Central
PMCID
2646276
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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19087242%20AND%20SRC:MED&resulttype=core&format=json
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18 January 2020
page(s)
R172
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Europe PubMed Central
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2646276
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19087242%20AND%20SRC:MED&resulttype=core&format=json
retrieved
18 January 2020
exact match
https://scigraph.springernature.com/pub.10.1186/gb-2008-9-12-r172
0 references
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Ensembl 2008
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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16 March 2017
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project
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16 March 2017
Analysis of overrepresented motifs in human core promoters reveals dual regulatory roles of YY1
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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16 March 2017
The evolutionary significance of cis-regulatory mutations
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16 March 2017
Serum response factor binding sites differ in three human cell types
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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16 March 2017
The Oct4 and Nanog transcription network regulates pluripotency in mouse embryonic stem cells
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16 March 2017
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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16 March 2017
Core transcriptional regulatory circuitry in human embryonic stem cells
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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16 March 2017
Local regulatory variation in Saccharomyces cerevisiae
1 reference
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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16 March 2017
Conservation and evolution of cis-regulatory systems in ascomycete fungi
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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16 March 2017
A common set of gene regulatory networks links metabolism and growth inhibition
1 reference
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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16 March 2017
Control of pancreas and liver gene expression by HNF transcription factors
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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16 March 2017
G1 transcription factors are differentially regulated in Saccharomyces cerevisiae by the Swi6-binding protein Stb1
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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16 March 2017
Human-mouse alignments with BLASTZ
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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16 March 2017
E2F integrates cell cycle progression with DNA repair, replication, and G(2)/M checkpoints
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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16 March 2017
The Protein Data Bank
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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16 March 2017
Cell growth-regulated expression of mammalian MCM5 and MCM6 genes mediated by the transcription factor E2F
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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16 March 2017
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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16 March 2017
Identification of common molecular subsequences
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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16 March 2017
Improved tools for biological sequence comparison
1 reference
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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16 March 2017
Transcriptional regulatory code of a eukaryotic genome
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
retrieved
16 March 2017
Genomic binding sites of the yeast cell-cycle transcription factors SBF and MBF
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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7 April 2017
BLAST 2 Sequences, a new tool for comparing protein and nucleotide sequences
1 reference
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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7 April 2017
Identifying DNA and protein patterns with statistically significant alignments of multiple sequences
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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7 April 2017
Evolution of the mammalian transcription factor binding repertoire via transposable elements
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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20 June 2018
Transcription factor and microRNA motif discovery: the Amadeus platform and a compendium of metazoan target sets
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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20 June 2018
Cell cycle genes are the evolutionarily conserved targets of the E2F4 transcription factor.
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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20 June 2018
Divergence of transcription factor binding sites across related yeast species
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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20 June 2018
Genome-wide analyses reveal properties of redundant and specific promoter occupancy within the ETS gene family
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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20 June 2018
Tissue-specific transcriptional regulation has diverged significantly between human and mouse
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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20 June 2018
Sensitive ChIP-DSL technology reveals an extensive estrogen receptor alpha-binding program on human gene promoters.
1 reference
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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20 June 2018
NOTCH1 directly regulates c-MYC and activates a feed-forward-loop transcriptional network promoting leukemic cell growth
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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20 June 2018
Large-scale turnover of functional transcription factor binding sites in Drosophila
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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20 June 2018
Coordinated binding of NF-kappaB family members in the response of human cells to lipopolysaccharide.
1 reference
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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20 June 2018
Global and gene-specific analyses show distinct roles for Myod and Myog at a common set of promoters
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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20 June 2018
Conservation and evolvability in regulatory networks: the evolution of ribosomal regulation in yeast
1 reference
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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20 June 2018
Genome-wide analysis of cAMP-response element binding protein occupancy, phosphorylation, and target gene activation in human tissues
1 reference
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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20 June 2018
Perturbation of Ikaros isoform selection by MLV integration is a cooperative event in Notch(IC)-induced T cell leukemogenesis
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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20 June 2018
Turnover of binding sites for transcription factors involved in early Drosophila development.
1 reference
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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20 June 2018
Dynamic recruitment of NF-Y and histone acetyltransferases on cell-cycle promoters.
1 reference
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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20 June 2018
Genome-wide in silico identification of transcriptional regulators controlling the cell cycle in human cells
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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20 June 2018
Emerging roles for E2F: Beyond the G1/S transition and DNA replication
1 reference
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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20 June 2018
Comparative genomics: genome-wide analysis in metazoan eukaryotes
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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20 June 2018
Computational detection and location of transcription start sites in mammalian genomic DNA
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PubMed Central
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20 June 2018
Evidence for stabilizing selection in a eukaryotic enhancer element.
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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20 June 2018
Role of E2F in cell cycle control and cancer
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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20 June 2018
Purification of an MCM-containing complex as a component of the DNA replication licensing system.
1 reference
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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20 June 2018
Evolution of eukaryotic transcription circuits
1 reference
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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27 November 2018
Trawler: de novo regulatory motif discovery pipeline for chromatin immunoprecipitation.
1 reference
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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27 November 2018
Differences between human and mouse embryonic stem cells
1 reference
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2646276
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27 November 2018
Conservation of Endo16 expression in sea urchins despite evolutionary divergence in both cis and trans-acting components of transcriptional regulation
1 reference
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PubMed
reference URL
https://pubmed.ncbi.nlm.nih.gov/19087242
retrieved
12 December 2020
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Identifiers
DOI
10.1186/GB-2008-9-12-R172
1 reference
stated in
Europe PubMed Central
PMCID
2646276
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19087242%20AND%20SRC:MED&resulttype=core&format=json
retrieved
18 January 2020
Dimensions Publication ID
1011424159
0 references
PMCID
2646276
1 reference
stated in
Europe PubMed Central
PMCID
2646276
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19087242%20AND%20SRC:MED&resulttype=core&format=json
retrieved
18 January 2020
PubMed ID
19087242
1 reference
stated in
Europe PubMed Central
PMCID
2646276
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19087242%20AND%20SRC:MED&resulttype=core&format=json
retrieved
18 January 2020
ResearchGate publication ID
23668217
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