Australia Bioinformatics Resource
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About BRAEMBL
BRAEMBL, pronounced "bramble",[1] is a research support facility[2] for bioinformatics services at The University of Queensland. The acronym "BRAEMBL" stands for Bioinformatics Resource Australia - EMBL.
Many of BRAEMBL's services are provided to compensate for the disadvantages of Australia's distance to the European Bioinformatics Institute (EBI) in Hinxton, UK. The distance means long delay paths over tcp network connections which make data transfers slow despite their high bandwith.[3]
Data volumes can be large[4][5] in life sciences, so slow downloads can have a high impact on users.
For Australian researchers wanting to use services of the EBI the large distance to Europe means slow downloads and relying on support from a different time zone.
Therefore BRAEMBL provides mirrors of software from the EBI and provides local support to Australian researchers for EBI services.
BRAEMBL also hosts software locally[6][7][8] and in some cases, aids the development of analysis tools that are used by Australian researchers.
Funding
BRAEMBL is funded by the Australian government.[9]
Resources at BRAEMBL
- Web-based analysis tools such as BLAST, InterProScan & MEME Suite complete with RESTful interfaces for remote pipe-lining,
- A service for submission of sequencing data ,
- A mirror of publicly available EBI databases,
- A collection of bioinformatics software on a high performance compute cluster,
- User support for the local high performance compute cluster "barrine" at The University of Queensland.
References
- ^ "QFAB Bioinformatics". www.qfab.org. Retrieved 10 September 2014.
- ^ "Research support facilities at the Institute for Molecular Bioscience". www.imb.uq.edu.au. Retrieved 9 September 2014.
- ^ "TCP Extensions for Long-Delay Paths". Internet Engineering Task Force. Retrieved 11 September 2014.
- ^ "The Sequence Read Archive: explosive growth of sequencing data". US National Library of Medicine. Retrieved 10 September 2014.
- ^ "Petabyte-scale innovations at the European Nucleotide Archive". nar.oxfordjournals.org. Retrieved 9 September 2014.
- ^ "RMaNI: Regulatory Module Network Inference framework". BMC Bioinformatics. Retrieved 11 September 2014.
- ^ "GT-Scan: Identifying unique genomic targets". Bioinformatics. Retrieved 11 September 2014.
- ^ "INsPeCT: INtegrative Platform for Cancer Transcriptomics". Bioinformatics. Retrieved 11 September 2014.
- ^ "BRAEMBL Annual Report 2014". braembl.org.au. Retrieved 9 September 2014.