(Q35003675)

5 August 2017

title

The evolution of DNA regulatory regions for proteo-gamma bacteria by interspecies comparisons (English)

1 reference

5 August 2017

1 reference

Nikolaus Rajewsky

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Eric D. Siggia

series ordinal

object named as

Eric D Siggia

1 reference

5 August 2017

Nicholas D Socci

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5 August 2017

Martin Zapotocky

series ordinal

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5 August 2017

publication date

1 February 2002

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5 August 2017

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5 August 2017

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5 August 2017

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5 August 2017

page(s)

298-308

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Regulatory element detection using correlation with expression.

5 August 2017

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155268

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8 July 2018

1 reference

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Building a dictionary for genomes: identification of presumptive regulatory sites by statistical analysis

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155268

Operons in Escherichia coli: genomic analyses and predictions

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155268

Identification of a Coordinate Regulator of Interleukins 4, 13, and 5 by Cross-Species Sequence Comparisons

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155268

The repertoire of DNA-binding transcriptional regulators in Escherichia coli K-12.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155268

Prediction of transcription regulatory sites in Archaea by a comparative genomic approach

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155268

RegulonDB (version 3.0): transcriptional regulation and operon organization in Escherichia coli K-12.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155268

Flexible sequence similarity searching with the FASTA3 program package

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155268

Predicting gene regulatory elements in silico on a genomic scale

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155268

A comprehensive library of DNA-binding site matrices for 55 proteins applied to the complete Escherichia coli K-12 genome

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155268

A database of experimental results on globin gene expression.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155268

A novel DNA-binding motif in MarA: the first structure for an AraC family transcriptional activator

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155268

Extracting regulatory sites from the upstream region of yeast genes by computational analysis of oligonucleotide frequencies.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155268

Identification of an UP element consensus sequence for bacterial promoters

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155268

The DNA-binding domain of OmpR: crystal structures of a winged helix transcription factor

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155268

Crystal structure of a sigma 70 subunit fragment from E. coli RNA polymerase

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155268

Structure of the CAP-DNA complex at 2.5 angstroms resolution: a complete picture of the protein-DNA interface

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155268

Using CLUSTAL for multiple sequence alignments

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155268

Detecting subtle sequence signals: a Gibbs sampling strategy for multiple alignment

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155268

Fitting a mixture model by expectation maximization to discover motifs in biopolymers

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155268

Crystal structure of trp repressor/operator complex at atomic resolution

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155268

Identifying protein-binding sites from unaligned DNA fragments

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155268

The barrier to recombination between Escherichia coli and Salmonella typhimurium is disrupted in mismatch-repair mutants

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155268

An evolutionary model for maximum likelihood alignment of DNA sequences

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155268

Crystal structure of the met repressor-operator complex at 2.8 A resolution reveals DNA recognition by beta-strands

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155268

Statistical significance of probabilistic sequence alignment and related local hidden Markov models.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155268

Human-mouse genome comparisons to locate regulatory sites

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155268

An exact algorithm to identify motifs in orthologous sequences from multiple species.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=155268

DNA determinants of promoter selectivity in Escherichia coli

26 October 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/11827949

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/11827949

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Conservation of DNA Regulatory Motifs and Discovery of New Motifs in Microbial Genomes

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/11827949

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1101/GR.207502

1 reference

5 August 2017

1 reference

5 August 2017

1 reference