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Welcome to sRNAMap

Small non-coding RNAs (sRNAs) carry out a variety of biological functions and affect protein synthesis and protein activities in prokaryotes. Recently, numerous sRNAs and their targets were identified in Escherichia coli and in other bacteria. It is crucial to have a comprehensive resource concerning the annotation of small non-coding RNAs in microbial genomes. This work presents an integrated database, namely sRNAMap, to collect the sRNA genes, the transcriptional regulators of sRNAs and the sRNA target genes by integrating a variety of biological databases and by surveying literature. In this resource, we collected 397 sRNAs, 62 regulators/sRNAs and 60 sRNAs/targets in seventy microbial genomes. Additionally, more valuable information of the sRNAs, such as the secondary structure of sRNAs, the expressed conditions of sRNAs, the expression profiles of sRNAs, the transcriptional start sites of sRNAs and the cross-links to other biological databases, are provided for further investigation. Besides, various textual and graphical interfaces were designed and implemented to facilitate the data access in sRNAMap.

Citing sRNAMap

H.Y. Huang, H.Y. Chang, C.H. Chou, C.P. Tseng, S.Y. Ho, C.D. Yang, Y.W. Ju, and H.D. Huang. (2009) "sRNAMap: genomic maps for small non-coding RNAs, their regulators and their targets in microbial genomes." Nucleic Acids Research, Vol 37, D150-D154. [PubMed]

sRNA Statistics:
 Escherichia coli  87 
 Shigella flexneri  40 
 Shigella sonnei 046  38 
 Shigella boydii  35 
 Shigella dysenteriae  33 
 Salmonella Paratyphi A ATCC 9150  30 
 Yersinia pestis  24 
 Yersinia enterocolitica  23 
 Yersinia pseudotuberculosis  21 
Example1 (sRNA Information)
Example2 (sRNA Structure)
Example3 (sRNA Promoter)
Example4 (sRNA Expression Profiles)
Example5 (Genomes Browser)

Department of Biological Science and Technology,

Institute of Bioinformatics National Chiao Tung University, Hsinchu, Taiwan

Contact with: bryan@mail.NCTU.edu.tw