This article is part of the supplement: Eleventh International Conference on Bioinformatics (InCoB2012): Computational Biology

Open Access Proceedings

Computational discovery and RT-PCR validation of novel Burkholderia conserved and Burkholderia pseudomallei unique sRNAs

Jia-Shiun Khoo12, Shiao-Fei Chai1, Rahmah Mohamed1, Sheila Nathan13 and Mohd Firdaus-Raih1*

Author Affiliations

1 School of Biosciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Malaysia

2 Codon Genomics SB, Jalan Bandar 18, Pusat Bandar Puchong, Selangor Darul Ehsan, Malaysia

3 Malaysia Genome Institute, Jalan Bangi Lama, 43000 Kajang, Malaysia

For all author emails, please log on.

BMC Genomics 2012, 13(Suppl 7):S13  doi:10.1186/1471-2164-13-S7-S13

Published: 13 December 2012

Additional files

Additional file 1:

Bacterial genomes studied. List of genome sequences used for sRNA prediction and analysis.

Format: DOCX Size: 38KB Download file

Open Data

Additional file 2:

Primers. Nucleotide sequences of PCR primers for amplifying sRNA genes.

Format: DOCX Size: 15KB Download file

Open Data

Additional file 3:

sRNA candidates. List of sRNA candidates predicted in fourteen bacterial genomes.

Format: XLS Size: 913KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 4:

Comparative analysis. The results of comparative analysis of sRNA candidates predicted.

Format: XLSX Size: 167KB Download file

Open Data

Additional file 5:

Secondary structures of known sRNAs identified. Secondary structures visualization for known sRNAs discovered in this study and reference structures predicted from Rfam entries.

Format: DOCX Size: 2.7MB Download file

Open Data

Additional file 6:

Infernal search results. The results of putative sRNA homologues search using Infernal.

Format: XLSX Size: 76KB Download file

Open Data