SIDDBASE: a database containing the stress-induced DNA duplex destabilization (SIDD) profiles of complete microbial genomes (Q25257500)

6 July 2017

title

SIDDBASE: a database containing the stress-induced DNA duplex destabilization (SIDD) profiles of complete microbial genomes (English)

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6 July 2017

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Huiquan Wang

1

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6 July 2017

Miroslava Kaloper

series ordinal

2

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6 July 2017

Craig J Benham

series ordinal

3

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6 July 2017

publication date

1 January 2006

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6 July 2017

language of work or name

English

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published in

Nucleic Acids Research

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6 July 2017

volume

34

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6 July 2017

issue

Database issue

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6 July 2017

page(s)

D373-8

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The COG database: an updated version includes eukaryotes

6 July 2017

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1347370

The dynamic response of upstream DNA to transcription-generated torsional stress

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1347370

Supercoiling of the DNA template during transcription

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1347370

Stress-induced DNA duplex destabilization (SIDD) in the E. coli genome: SIDD sites are closely associated with promoters

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1347370

WebSIDD: server for predicting stress-induced duplex destabilized (SIDD) sites in superhelical DNA.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1347370

A microarray-based antibiotic screen identifies a regulatory role for supercoiling in the osmotic stress response of Escherichia coli

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1347370

Loss of FBP function arrests cellular proliferation and extinguishes c-myc expression

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1347370

Stress-induced duplex DNA destabilization in scaffold/matrix attachment regions

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1347370

Flexible response: DNA supercoiling, transcription and bacterial adaptation to environmental stress.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1347370

Sites of predicted stress-induced DNA duplex destabilization occur preferentially at regulatory loci

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1347370

Control of bacterial DNA supercoiling

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1347370

Torsional stress and local denaturation in supercoiled DNA

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1347370

Activation of transcription initiation from a stable RNA promoter by a Fis protein-mediated DNA structural transmission mechanism

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1347370

Global gene expression profiling in Escherichia coli K12. The effects of oxygen availability and FNR.

31 May 2018

1 reference

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The analysis of stress-induced duplex destabilization in long genomic DNA sequences

31 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1347370

Gene expression profiling of Escherichia coli growth transitions: an expanded stringent response model

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1347370

Activation of Gene Expression by a Novel DNA Structural Transmission Mechanism That Requires Supercoiling-induced DNA Duplex Destabilization in an Upstream Activating Sequence

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1347370

Duplex destabilization in superhelical DNA is predicted to occur at specific transcriptional regulatory regions

28 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/16381890

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1093/NAR/GKJ007

1 reference

6 July 2017

DBLP publication ID

journals/nar/WangKB06

1 reference

DBLP Dataset 2021-01-02

28 January 2021

1 reference

6 July 2017

1 reference