Transcriptional regulatory code of a eukaryotic genome (Q27933887)

Nicola J Rinaldi

4

0 references

Jean-Bosco Tagne

Jean-Bosco Tagne

8

0 references

Ernest Fraenkel

Ernest Fraenkel

19

0 references

Manolis Kellis

14

Manolis Kellis

0 references

Julia Zeitlinger

12

Julia Zeitlinger

0 references

Richard A. Young

20

Richard A Young

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author name string

Christopher T Harbison

1

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D Benjamin Gordon

2

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Tong Ihn Lee

3

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Kenzie D Macisaac

5

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Timothy W Danford

6

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Nancy M Hannett

7

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David B Reynolds

9

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Jane Yoo

10

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Ezra G Jennings

11

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Dmitry K Pokholok

13

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P Alex Rolfe

15

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Ken T Takusagawa

16

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David K Gifford

Finding Functional Features in Saccharomyces Genomes by Phylogenetic Footprinting

18

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language of work or name

English

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publication date

2 September 2004

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number of pages

6

1 reference

based on heuristic

inferred from page(s)

1 reference

1 December 2016

431

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page(s)

99-104

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issue

7004

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cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3006441

Sequencing and comparison of yeast species to identify genes and regulatory elements

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3006441

Initial sequencing and comparative analysis of the mouse genome

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3006441

Transcriptional regulatory networks in Saccharomyces cerevisiae

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3006441

Promoter-specific binding of Rap1 revealed by genome-wide maps of protein-DNA association

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3006441

Negative regulation of Gcn4 and Msn2 transcription factors by Srb10 cyclin-dependent kinase

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3006441

The TOR signalling pathway controls nuclear localization of nutrient-regulated transcription factors

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3006441

The Saccharomyces cerevisiae DAL80 repressor protein binds to multiple copies of GATAA-containing sequences (URSGATA).

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3006441

Detection of leucine-independent DNA site occupancy of the yeast Leu3p transcriptional activator in vivo

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3006441

Sequence logos: a new way to display consensus sequences

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3006441

Proline-independent binding of PUT3 transcriptional activator protein detected by footprinting in vivo

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3006441

Genome-wide location and function of DNA binding proteins

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3006441

Genetic regulatory mechanisms in the synthesis of proteins

20 March 2017

2 references

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3006441

20 March 2017

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3006441

Finding DNA regulatory motifs within unaligned noncoding sequences clustered by whole-genome mRNA quantitation

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3006441

TRANSFAC: transcriptional regulation, from patterns to profiles

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3006441

Genomic binding sites of the yeast cell-cycle transcription factors SBF and MBF

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3006441

Whole-genome discovery of transcription factor binding sites by network-level conservation

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3006441

Combining phylogenetic data with co-regulated genes to identify regulatory motifs

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3006441

FootPrinter: A program designed for phylogenetic footprinting

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3006441

Program-specific distribution of a transcription factor dependent on partner transcription factor and MAPK signaling.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3006441

An algorithm for finding protein-DNA binding sites with applications to chromatin-immunoprecipitation microarray experiments

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3006441

The Yeast Proteome Database (YPD): a model for the organization and presentation of genome-wide functional data

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3006441

Cooperative binding interactions required for function of the Ty1 sterile responsive element

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3006441

Regulated degradation of the transcription factor Gcn4.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3006441

The value of prior knowledge in discovering motifs with MEME.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3006441

A short nucleotide sequence required for regulation of HIS4 by the general control system of yeast

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3006441

SCPD: a promoter database of the yeast Saccharomyces cerevisiae.

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3006441

TRANSFAC retrieval program: a network model database of eukaryotic transcription regulating sequences and proteins.

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3006441

Monitoring the Gcn4 protein-mediated response in the yeast Saccharomyces cerevisiae

27 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/15343339

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

The carboxy-terminal 30 amino acids of GAL4 are recognized by GAL80

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/15343339

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1038/NATURE02800

1 reference

Dimensions Publication ID

176825

1006618657

0 references

176825

1 reference

1 reference

1 reference