BSRD

Names
More detailed information about this field from each metasource.

BSRD
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

metasource: bio.tools
version: extracted_at: 2022-11-04T11:33:49.262827

bsrd
metasource: bio.tools
version: extracted_at: 2022-11-04T11:33:49.262827

Other names: bsrd

BSRD is a resource for bacterial sRNA sequences with extensive annotation and expression profiles. BSRD provides combinatorial regulatory networks of transcription factors and sRNAs with their common targets. There is also a novel RNA-Seq analysis platform, sRNADeep, to characterize sRNAs expression profiles in large-scale transcriptome sequencing projects.

Webpage:

http://kwanlab.bio.cuhk.edu.hk/BSRD

Publications:

Publications
More detailed information about this field from each metasource.

BSRD: a repository for bacterial small regulatory RNA
PMID: 23203879
metasource: bio.tools
version: extracted_at: 2022-11-04T11:33:49.262827

http://dx.doi.org/10.1093/nar/gks1264
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

BSRD: a repository for bacterial small regulatory RNA PubMed citations: 53.

53 articles citing: BSRD: a repository for bacterial small regulatory RNA

sRNARFTarget: a fast machine-learning-based approach for transcriptome-wide sRNA target prediction. PMID:34965197
Genome-wide association study of gastric cancer- and duodenal ulcer-derived Helicobacter pylori strains reveals discriminatory genetic variations and novel oncoprotein candidates. PMID:34846284
Inactivation of RNase P in Escherichia coli significantly changes post-transcriptional RNA metabolism. PMID:34486768
Specific and Global RNA Regulators in Pseudomonas aeruginosa. PMID:34445336
Interplay between Non-Coding RNA Transcription, Stringent/Relaxed Phenotype and Antibiotic Production in Streptomyces ambofaciens. PMID:34438997
An Integrated Database of Small RNAs and Their Interplay With Transcriptional Gene Regulatory Networks in Corynebacteria. PMID:34220744
Identical sequences found in distant genomes reveal frequent horizontal transfer across the bacterial domain. PMID:34121661
BSGatlas: a unified Bacillus subtilis genome and transcriptome annotation atlas with enhanced information access. PMID:33539279
Genome-wide identification of Azospirillum brasilense Sp245 small RNAs responsive to nitrogen starvation and likely involvement in plant-microbe interactions. PMID:33228533
Genome-wide screen and functional analysis in Xanthomonas reveal a large number of mRNA-derived sRNAs, including the novel RsmA-sequester RsmU. PMID:32969159
Genes and novel sRNAs involved in PAHs degradation in marine bacteria Rhodococcus sp. P14 revealed by the genome and transcriptome analysis. PMID:32206489
A novel mechanism of ribonuclease regulation: GcvB and Hfq stabilize the mRNA that encodes RNase BN/Z during exponential phase. PMID:31744883
Altered Fecal Small RNA Profiles in Colorectal Cancer Reflect Gut Microbiome Composition in Stool Samples. PMID:31530647
Conservation of Small Regulatory RNAs in Vibrio parahaemolyticus: Possible role of RNA-OUT Encoded by the Pathogenicity Island (VPaI-7) of Pandemic Strains. PMID:31185635
Refining the Pneumococcal Competence Regulon by RNA Sequencing. PMID:30885934
Putative small RNAs controlling detoxification of industrial cyanide-containing wastewaters by Pseudomonas pseudoalcaligenes CECT5344. PMID:30735537
Insights Into Limnothrix sp. Metabolism Based on Comparative Genomics. PMID:30515147
Small Noncoding Regulatory RNAs from Pseudomonas aeruginosa and Burkholderia cepacia Complex. PMID:30486355
Bacillus velezensis FZB42 in 2018: The Gram-Positive Model Strain for Plant Growth Promotion and Biocontrol. PMID:30386322
High-throughput in vivo mapping of RNA accessible interfaces to identify functional sRNA binding sites. PMID:30287822
Linking common non-coding RNAs of human lung cancer and M. tuberculosis. PMID:30237679
Codon usage and modular interactions between messenger RNA coding regions and small RNAs in Escherichia coli. PMID:30189833
ANNOgesic: a Swiss army knife for the RNA-seq based annotation of bacterial/archaeal genomes. PMID:30169674
Deep genome annotation of the opportunistic human pathogen Streptococcus pneumoniae D39. PMID:30107613
A comparative study of sequence- and structure-based features of small RNAs and other RNAs of bacteria. PMID:29099311
Common and phylogenetically widespread coding for peptides by bacterial small RNAs. PMID:28732463
sRNA and cis-antisense sRNA identification in Staphylococcus aureus highlights an unusual sRNA gene cluster with one encoding a secreted peptide. PMID:28676719
Gene expression of Vibrio parahaemolyticus growing in laboratory isolation conditions compared to those common in its natural ocean environment. PMID:28525966
rNAV 2.0: a visualization tool for bacterial sRNA-mediated regulatory networks mining. PMID:28335718
Genome-wide identification and characterization of small RNAs in Rhodobacter capsulatus and identification of small RNAs affected by loss of the response regulator CtrA. PMID:28296577
Small Antisense RNA RblR Positively Regulates RuBisCo in Synechocystis sp. PCC 6803. PMID:28261186
Genome-Wide Discovery of Putative sRNAs in Paracoccus denitrificans Expressed under Nitrous Oxide Emitting Conditions. PMID:27895629
Global transcriptome responses including small RNAs during mixed-species interactions with methicillin-resistant Staphylococcus aureus and Pseudomonas aeruginosa. PMID:27868360
Mycoplasma non-coding RNA: identification of small RNAs and targets. PMID:27801290
Effect of Shear Stress on Pseudomonas aeruginosa Isolated from the Cystic Fibrosis Lung. PMID:27486191
Identification and Characterization of Novel Small RNAs in Rickettsia prowazekii. PMID:27375581
Thermodynamically optimal whole-genome tiling microarray design and validation. PMID:27295952
Rising Strengths Hong Kong SAR in Bioinformatics. PMID:26961385
Transcriptome landscape of Lactococcus lactis reveals many novel RNAs including a small regulatory RNA involved in carbon uptake and metabolism. PMID:26950529
Novel small RNA (sRNA) landscape of the starvation-stress response transcriptome of Salmonella enterica serovar typhimurium. PMID:26853797
dRNA-Seq Reveals Genomewide TSSs and Noncoding RNAs of Plant Beneficial Rhizobacterium Bacillus amyloliquefaciens FZB42. PMID:26540162
sRNATarBase 3.0: an updated database for sRNA-target interactions in bacteria. PMID:26503244
OpaR controls a network of downstream transcription factors in Vibrio parahaemolyticus BB22OP. PMID:25901572
SRD: a Staphylococcus regulatory RNA database. PMID:25805861
Comprehensive insights into transcriptional adaptation of intracellular mycobacteria by microbe-enriched dual RNA sequencing. PMID:25649146
The Streptococcus mutans irvA gene encodes a trans-acting riboregulatory mRNA. PMID:25574948
Comparative genomic analysis of clinical and environmental strains provides insight into the pathogenicity and evolution of Vibrio parahaemolyticus. PMID:25518728
RNA sequencing provides evidence for functional variability between naturally co-existing Alteromonas macleodii lineages. PMID:25344729
Genome-wide analyses in bacteria show small-RNA enrichment for long and conserved intergenic regions. PMID:25313390
Deep sequencing-based identification of small regulatory RNAs in Synechocystis sp. PCC 6803. PMID:24647397
Genome sequencing and comparative analysis of three Chlamydia pecorum strains associated with different pathogenic outcomes. PMID:24417976
Regulatory RNAs: charming gene management styles for synthetic biology applications. PMID:24356572
Influence of dimethylsulfoxide on RNA structure and ligand binding. PMID:23987474
http://dx.doi.org/10.1093/nar/gks1264

Tags:

Tags
More detailed information about this field from each metasource.

rna sequence databases
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

functional, regulatory and non-coding rna
metasource: bio.tools
version: extracted_at: 2022-11-04T11:33:49.262827

microbiology
metasource: bio.tools
version: extracted_at: 2022-11-04T11:33:49.262827

microbial collection
metasource: bio.tools
version: extracted_at: 2022-11-04T11:33:49.262827

rna
metasource: bio.tools
version: extracted_at: 2022-11-04T11:33:49.262827

rna sequence functional, regulatory and non-coding rna microbiology microbial collection rna

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