(Q40312082)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26577401%20AND%20SRC:MED&resulttype=core&format=json

29 February 2020

title

An experimentally supported model of the Bacillus subtilis global transcriptional regulatory network (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26577401%20AND%20SRC:MED&resulttype=core&format=json

29 February 2020

1 reference

Christoph Hafemeister

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26577401%20AND%20SRC:MED&resulttype=core&format=json

29 February 2020

Francis J Santoriello

11

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26577401%20AND%20SRC:MED&resulttype=core&format=json

Christopher D A Rodrigues

29 February 2020

13

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26577401%20AND%20SRC:MED&resulttype=core&format=json

29 February 2020

Patrick Eichenberger

18

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26577401%20AND%20SRC:MED&resulttype=core&format=json

29 February 2020

17

Richard Bonneau

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26577401%20AND%20SRC:MED&resulttype=core&format=json

29 February 2020

author name string

Mario L Arrieta-Ortiz

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26577401%20AND%20SRC:MED&resulttype=core&format=json

29 February 2020

Ashley Rose Bate

3

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26577401%20AND%20SRC:MED&resulttype=core&format=json

29 February 2020

Timothy Chu

4

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26577401%20AND%20SRC:MED&resulttype=core&format=json

29 February 2020

Alex Greenfield

5

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26577401%20AND%20SRC:MED&resulttype=core&format=json

29 February 2020

Bentley Shuster

6

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26577401%20AND%20SRC:MED&resulttype=core&format=json

29 February 2020

Samantha N Barry

7

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26577401%20AND%20SRC:MED&resulttype=core&format=json

29 February 2020

Matthew Gallitto

8

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26577401%20AND%20SRC:MED&resulttype=core&format=json

29 February 2020

Brian Liu

9

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26577401%20AND%20SRC:MED&resulttype=core&format=json

29 February 2020

Thadeous Kacmarczyk

10

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26577401%20AND%20SRC:MED&resulttype=core&format=json

29 February 2020

Jie Chen

12

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26577401%20AND%20SRC:MED&resulttype=core&format=json

29 February 2020

Tsutomu Sato

14

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26577401%20AND%20SRC:MED&resulttype=core&format=json

29 February 2020

David Z Rudner

15

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26577401%20AND%20SRC:MED&resulttype=core&format=json

29 February 2020

Adam Driks

16

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26577401%20AND%20SRC:MED&resulttype=core&format=json

29 February 2020

publication date

17 November 2015

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26577401%20AND%20SRC:MED&resulttype=core&format=json

Molecular Systems Biology

29 February 2020

published in

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26577401%20AND%20SRC:MED&resulttype=core&format=json

29 February 2020

volume

11

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26577401%20AND%20SRC:MED&resulttype=core&format=json

29 February 2020

issue

11

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26577401%20AND%20SRC:MED&resulttype=core&format=json

29 February 2020

page(s)

839

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26577401%20AND%20SRC:MED&resulttype=core&format=json

describes a project that uses

29 February 2020

Cytoscape

object named as

Cytoscape

2 references

9 June 2022

https://europepmc.org/search?query=(METHODS:'Cytoscape')

based on heuristic

inferred from PubMed Central ID database lookup

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

cites work

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Genome-wide mapping of TnrA-binding sites provides new insights into the TnrA regulon in Bacillus subtilis

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22 September 2017

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22 September 2017

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22 September 2017

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22 September 2017

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22 September 2017

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Biofilm formation by Bacillus subtilis: new insights into regulatory strategies and assembly mechanisms.

22 September 2017

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Spore formation in Bacillus subtilis

22 September 2017

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Hierarchical expression of genes controlled by the Bacillus subtilis global regulatory protein CodY.

22 September 2017

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Transcriptional regulation is insufficient to explain substrate-induced flux changes in Bacillus subtilis

22 September 2017

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Lessons from the modular organization of the transcriptional regulatory network of Bacillus subtilis.

22 September 2017

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Network component analysis provides quantitative insights on an Arabidopsis transcription factor-gene regulatory network

22 September 2017

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SubtiWiki-a database for the model organism Bacillus subtilis that links pathway, interaction and expression information

22 September 2017

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Genome-scale models of metabolism and gene expression extend and refine growth phenotype prediction

22 September 2017

1 reference

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Mapping yeast transcriptional networks

22 September 2017

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Heterogeneity in protein expression induces metabolic variability in a modeled Escherichia coli population.

22 September 2017

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Genome-wide identification of Bacillus subtilis CodY-binding sites at single-nucleotide resolution

22 September 2017

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Robust data-driven incorporation of prior knowledge into the inference of dynamic regulatory networks

22 September 2017

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Genomic reconstruction of the transcriptional regulatory network in Bacillus subtilis

22 September 2017

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Sticking together: building a biofilm the Bacillus subtilis way.

22 September 2017

1 reference

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22 September 2017

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22 September 2017

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A validated regulatory network for Th17 cell specification

22 September 2017

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Global probabilistic annotation of metabolic networks enables enzyme discovery.

22 September 2017

1 reference

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High- and low-affinity cre boxes for CcpA binding in Bacillus subtilis revealed by genome-wide analysis

22 September 2017

1 reference

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22 September 2017

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Condition-dependent transcriptome reveals high-level regulatory architecture in Bacillus subtilis

22 September 2017

1 reference

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SlrA/SinR/SlrR inhibits motility gene expression upstream of a hypersensitive and hysteretic switch at the level of σ(D) in Bacillus subtilis

22 September 2017

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22 September 2017

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22 September 2017

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22 September 2017

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22 September 2017

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Inferring regulatory networks from expression data using tree-based methods

22 September 2017

1 reference

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22 September 2017

1 reference

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Hierarchical evolution of the bacterial sporulation network

22 September 2017

1 reference

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DREAM3: network inference using dynamic context likelihood of relatedness and the inferelator

22 September 2017

1 reference

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Revealing strengths and weaknesses of methods for gene network inference

22 September 2017

1 reference

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MEME SUITE: tools for motif discovery and searching

22 September 2017

1 reference

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DISTILLER: a data integration framework to reveal condition dependency of complex regulons in Escherichia coli

22 September 2017

1 reference

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Reconstruction and analysis of the genetic and metabolic regulatory networks of the central metabolism of Bacillus subtilis

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4670728

Control of key metabolic intersections in Bacillus subtilis

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4670728

Genome-scale reconstruction of metabolic network in Bacillus subtilis based on high-throughput phenotyping and gene essentiality data

22 September 2017

1 reference

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Network motifs: theory and experimental approaches

22 September 2017

1 reference

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Large-scale mapping and validation of Escherichia coli transcriptional regulation from a compendium of expression profiles

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4670728

Probabilistic inference of transcription factor concentrations and gene-specific regulatory activities

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4670728

Transcriptome network component analysis with limited microarray data

22 September 2017

1 reference

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The Inferelator: an algorithm for learning parsimonious regulatory networks from systems-biology data sets de novo

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4670728

Predicting transcription factor activities from combined analysis of microarray and ChIP data: a partial least squares approach

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4670728

The program of gene transcription for a single differentiating cell type during sporulation in Bacillus subtilis

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4670728

Defining transcriptional networks through integrative modeling of mRNA expression and transcription factor binding data

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4670728

Transcriptome-based determination of multiple transcription regulator activities in Escherichia coli by using network component analysis

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4670728

Network component analysis: reconstruction of regulatory signals in biological systems

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4670728

The Spo0A regulon of Bacillus subtilis

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4670728

Structure and function of the feed-forward loop network motif

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4670728

Controlling competence in Bacillus subtilis: shared use of regulators

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4670728

A Bayesian framework for the analysis of microarray expression data: regularized t -test and statistical inferences of gene changes

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4670728

The transcriptional profile of early to middle sporulation in Bacillus subtilis.

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4670728

The competence transcription factor of Bacillus subtilis recognizes short A/T-rich sequences arranged in a unique, flexible pattern along the DNA helix

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4670728

The complete genome sequence of the gram-positive bacterium Bacillus subtilis

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4670728

Compilation and analysis of Bacillus subtilis sigma A-dependent promoter sequences: evidence for extended contact between RNA polymerase and upstream promoter DNA.

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4670728

Cascades of sigma factors revisited

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4670728

Chance and Necessity in Bacillus subtilis Development

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4670728

From a consortium sequence to a unified sequence: the Bacillus subtilis 168 reference genome a decade later

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4670728

Genome-wide identification of genes directly regulated by the pleiotropic transcription factor Spx in Bacillus subtilis

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4670728

Genome-wide binding profiles of the Bacillus subtilis transition state regulator AbrB and its homolog Abh reveals their interactive role in transcriptional regulation

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4670728

A distance-weighted interaction map reveals a previously uncharacterized layer of the Bacillus subtilis spore coat

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4670728

DBTBS: a database of transcriptional regulation in Bacillus subtilis containing upstream intergenic conservation information

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4670728

An integrative, multi-scale, genome-wide model reveals the phenotypic landscape of Escherichia coli

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4670728

The WalRK (YycFG) and σ(I) RsgI regulators cooperate to control CwlO and LytE expression in exponentially growing and stressed Bacillus subtilis cells

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4670728

Global network reorganization during dynamic adaptations of Bacillus subtilis metabolism.

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4670728

Morphology and physico-chemical properties of Bacillus spores surrounded or not with an exosporium: consequences on their ability to adhere to stainless steel

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4670728

Stable isotope labeling by amino acids in cell culture (SILAC) applied to quantitative proteomics of Bacillus subtilis

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4670728

Antibiotics that inhibit cell wall biosynthesis induce expression of the Bacillus subtilis sigma(W) and sigma(M) regulons

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4670728

Genome-wide analysis of the general stress response in Bacillus subtilis

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4670728

The forespore line of gene expression in Bacillus subtilis

20 August 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/26577401

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Inferring the transcriptional network of Bacillus subtilis

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/26577401

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.15252/MSB.20156236

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26577401%20AND%20SRC:MED&resulttype=core&format=json

29 February 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26577401%20AND%20SRC:MED&resulttype=core&format=json

29 February 2020

PubMed publication ID

26577401

1 reference