sRNAdb specifications

Information


Unique identifier OMICS_11140
Name sRNAdb
Restrictions to use None
Data access File download, Browse
Maintained Yes

Documentation


Maintainer


  • person_outline Torsten Hain

Publication for sRNAdb

sRNAdb citations

 (2)
library_books

Transcriptome profile of a bovine respiratory disease pathogen: Mannheimia haemolytica PHL213

2012
BMC Bioinformatics
PMCID: 3439734
PMID: 23046475
DOI: 10.1186/1471-2105-13-S15-S4

[…] fication. Despite the drawbacks in sample preparation and lack of strand specificity, we identified 44 potential novel sRNA. The identified novel sRNA were searched for homology in the sRNA database (sRNAdb) against other bacterial sRNA identified through similar transcriptomics studies and/or computational approaches []. Only 15 sRNA had partial alignments of 20-30 nucleotides and the remaining h […]

library_books

The intracellular sRNA transcriptome of Listeria monocytogenes during growth in macrophages

2011
Nucleic Acids Res
PMCID: 3105390
PMID: 21278422
DOI: 10.1093/nar/gkr033

[…] geri 1/2b SLCC3954) were retrieved from the GenBank repository (http://www.ncbi.nlm.nih.gov/genbank/index.html). These genome data as well as all candidate regulatory RNAs were then introduced to the sRNAdb database (J. Pischimarov, manuscript in preparation) which employs BLASTN to find sequence similarity. Using a cutoff of 60% nucleotide identity and 80% coverage homologs of all candidate regul […]

sRNAdb institution(s)
Institute of Medical Microbiology, Justus-Liebig-University, Giessen, Germany; Institute for Biochemical Engineering and Analytics, University of Applied Sciences Giessen-Friedberg, Giessen, Germany
sRNAdb funding source(s)
This work was supported by grants from the German Federal Ministry of Education and Research (BMBF ERA-NET) Pathogenomics Network to the sncRNAomics project (62080061) and the German Centre for Infection Research, Justus-Liebig University Giessen.

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