(Q33968979)

30 July 2017

PromBase: a web resource for various genomic features and predicted promoters in prokaryotic genomes (English)

1 reference

30 July 2017

Vetriselvi Rangannan

1

1 reference

PubMed ID

21781326

30 July 2017

Manju Bansal

series ordinal

2

1 reference

30 July 2017

22 July 2011

1 reference

30 July 2017

1 reference

30 July 2017

4

1 reference

30 July 2017

257

1 reference

Creative Commons Attribution 2.0 Generic

30 July 2017

start time

22 July 2011

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

1 reference

April 2022 Public Data File from Crossref

exact match

https://scigraph.springernature.com/pub.10.1186/1756-0500-4-257

0 references

cites work

The pseudogenes of Mycobacterium leprae reveal the functional relevance of gene order within operons

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

Transcriptome analysis of Pseudomonas syringae identifies new genes, noncoding RNAs, and antisense activity

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

The primary transcriptome of the major human pathogen Helicobacter pylori

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

A single-base resolution map of an archaeal transcriptome

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

PairWise Neighbours database: overlaps and spacers among prokaryote genomes.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

Structure and complexity of a bacterial transcriptome.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

Genomics of bacteria and archaea: the emerging dynamic view of the prokaryotic world

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

Large gene overlaps in prokaryotic genomes: result of functional constraints or mispredictions?

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

Triad pattern algorithm for predicting strong promoter candidates in bacterial genomes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

Genome-wide analysis reveals regulatory role of G4 DNA in gene transcription

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

Generic eukaryotic core promoter prediction using structural features of DNA.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

A new method for assessing the effect of replication on DNA base composition asymmetry.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

A novel ensemble learning method for de novo computational identification of DNA binding sites

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

SCOPE: a web server for practical de novo motif discovery

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

RegTransBase--a database of regulatory sequences and interactions in a wide range of prokaryotic genomes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

SwissRegulon: a database of genome-wide annotations of regulatory sites

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

Detection of prokaryotic promoters from the genomic distribution of hexanucleotide pairs

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

Global analysis of gene transcription regulation in prokaryotes.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

Ten years of bacterial genome sequencing: comparative-genomics-based discoveries.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

Promoter prediction and annotation of microbial genomes based on DNA sequence and structural responses to superhelical stress

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

Genome-wide prediction of G4 DNA as regulatory motifs: role in Escherichia coli global regulation

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

ExtraTrain: a database of Extragenic regions and Transcriptional information in prokaryotic organisms

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

A study on the correlation of nucleotide skews and the positioning of the origin of replication: different modes of replication in bacterial species

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

Structural properties of promoters: similarities and differences between prokaryotes and eukaryotes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

GC-compositional strand bias around transcription start sites in plants and fungi

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

A novel method for accurate operon predictions in all sequenced prokaryotes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

A novel method for prokaryotic promoter prediction based on DNA stability

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

TRACTOR_DB: a database of regulatory networks in gamma-proteobacterial genomes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

EcoCyc: a comprehensive database resource for Escherichia coli

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

BacMap: an interactive picture atlas of annotated bacterial genomes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

Comparative genomic structure of prokaryotes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

CBS Genome Atlas Database: a dynamic storage for bioinformatic results and sequence data

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

PredictRegulon: a web server for the prediction of the regulatory protein binding sites and operons in prokaryote genomes.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

RegulonDB (version 4.0): transcriptional regulation, operon organization and growth conditions in Escherichia coli K-12

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

DBTBS: database of transcriptional regulation in Bacillus subtilis and its contribution to comparative genomics

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

On the genetic basis of variation and heterogeneity of DNA base composition

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

PromH: Promoters identification using orthologous genomic sequences

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

A survey of small RNA-encoding genes in Escherichia coli

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

The Z curve database: a graphic representation of genome sequences

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

Domain architectures of sigma54-dependent transcriptional activators

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

PRODORIC: prokaryotic database of gene regulation.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

Congruent evolution of different classes of non-coding DNA in prokaryotic genomes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

The decaying genome of Mycobacterium leprae

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

The genome of Mycobacterium leprae: a minimal mycobacterial gene set.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

Prediction of operons in microbial genomes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

Operons in Escherichia coli: genomic analyses and predictions

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

Asymmetric substitution patterns in the two DNA strands of bacteria

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

Trinucleotide models for DNA bending propensity: comparison of models based on DNaseI digestion and nucleosome packaging data.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

Altered base ratios in the DNA of an Escherichia coli mutator strain

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

Sequence periodicities in chicken nucleosome core DNA.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

Curved DNA without A-A: experimental estimation of all 16 DNA wedge angles

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

Genome update: the 1000th genome--a cautionary tale

5 July 2018

1 reference

https://api.crossref.org/works/10.1186%2F1756-0500-4-257

Detection of single DNA molecules by multicolor quantum-dot end-labeling

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1756-0500-4-257

Improved prediction of bacterial transcription start sites.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1756-0500-4-257

Sequence alignment kernel for recognition of promoter regions.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1756-0500-4-257

eTBLAST: a web server to identify expert reviewers, appropriate journals and similar publications

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1756-0500-4-257

Application of a time-delay neural network to promoter annotation in the Drosophila melanogaster genome

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1756-0500-4-257

BacTregulators: a database of transcriptional regulators in bacteria and archaea.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1756-0500-4-257

Relative stability of DNA as a generic criterion for promoter prediction: whole genome annotation of microbial genomes with varying nucleotide base composition

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1756-0500-4-257

High-quality annotation of promoter regions for 913 bacterial genomes

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1756-0500-4-257

Transcription-coupled TA and GC strand asymmetries in the human genome.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1756-0500-4-257

The regional rule for bacterial base composition.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1756-0500-4-257

QuadBase: genome-wide database of G4 DNA--occurrence and conservation in human, chimpanzee, mouse and rat promoters and 146 microbes

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

A pHMM-ANN based discriminative approach to promoter identification in prokaryote genomic contexts

29 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160392

MtbRegList, a database dedicated to the analysis of transcriptional regulation in Mycobacterium tuberculosis

29 October 2018

1 reference

12 December 2020

A pattern-based nearest neighbor search approach for promoter prediction using DNA structural profiles

1 reference

12 December 2020

On dynamics of overlapping genes in bacterial genomes

1 reference

12 December 2020

The contributions of replication orientation, gene direction, and signal sequences to base-composition asymmetries in bacterial genomes

1 reference

12 December 2020

Identifiers

DOI

10.1186/1756-0500-4-257

1 reference

PubMed ID

21781326

Dimensions Publication ID

30 July 2017

0 references

1 reference

30 July 2017

1 reference

PubMed ID

21781326