Email updates

Keep up to date with the latest news and content from BMC Bioinformatics and BioMed Central.

Open Access Highly Accessed Open Badges Research article

Improving the prediction of mRNA extremities in the parasitic protozoan Leishmania

Martin Smith12, Mathieu Blanchette2 and Barbara Papadopoulou1*

Author Affiliations

1 Research Centre in Infectious Diseases, CHUL Research Centre, 2705 Laurier Blvd., Quebec, QC G1V 4G2, Canada

2 McGill Center for Bioinformatics, 3775 University St., Montreal, QC H3A 2B4, Canada

For all author emails, please log on.

BMC Bioinformatics 2008, 9:158  doi:10.1186/1471-2105-9-158

Published: 20 March 2008

Additional files

Additional file 1:

Polyadenylated ESTs. PDF document of all 218 polyadenylated EST accession IDs used to build scanning matrices in this work.

Format: PDF Size: 50KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 2:

Over-represented hexamers. A Microsoft Word document containing the 10 highest scoring hexamers identified with YMF and FindExplanator programs. An alignment of 223 sequences was used to compare regions encompassing the [-125; +125] of genomic poly(A) sites to the [-800; -126] and [+126; +800] regions.

Format: DOC Size: 29KB Download file

This file can be viewed with: Microsoft Word Viewer

Open Data

Additional file 3:

PSSM scanning results for different matrix sizes and scanning distances. A Microsoft Excel spreadsheet containing all sensitivity results for single-matrix scanning approaches.

Format: XLS Size: 144KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 4:

PRED-A-TERM program. The prediction algorithm described in this manuscript has been implemented into a JAVA program which can be used to scan query sequences using any operating system. Once extracted, detailed usage instructions can be viewed in the README.txt file.

Format: ZIP Size: 268KB Download file

Open Data