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Open Access Highly Accessed Research article

targetTB: A target identification pipeline for Mycobacterium tuberculosis through an interactome, reactome and genome-scale structural analysis

Karthik Raman, Kalidas Yeturu and Nagasuma Chandra*

Author Affiliations

Supercomputer Education and Research Centre and Bioinformatics Centre, Indian Institute of Science, Bangalore 560 012, INDIA

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BMC Systems Biology 2008, 2:109  doi:10.1186/1752-0509-2-109

Published: 19 December 2008

Additional files

Additional file 1:

Validation of PocketMatch for predicted pockets. Figure illustrating the variation of the XOR of PocketMatch matrix vs. SCOP matrix, for various PM thresholds.

Format: PDF Size: 64KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 2:

Anti-target sequences. Accession numbers of the 306 anti-target sequences considered.

Format: TXT Size: 27KB Download file

Open Data

Additional file 3:

List of gut flora. List of 95 organisms present in gut flora, as retrieved from the NCBI database.

Format: TXT Size: 4KB Download file

Open Data

Additional file 4:

Lists of proteins passing various filters. Detailed lists of proteins passing various filters. Also includes the final lists H, I, J and K.

Format: XLS Size: 1MB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 5:

Passage of known and proposed targets in the targetTB pipeline. An account of the passage of known targets (previously reported in literature) through the targetTB pipeline. The putative targets are classified based on their broad functional categories.

Format: PDF Size: 168KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 6:

List of pathogenic genomes. List of 228 pathogenic genomes considered.

Format: TXT Size: 8KB Download file

Open Data

Additional file 7:

Comparison with Anishetty et al (2005). A report of how the proteins proposed as targets in the study reported by Anishetty et al (2005) fare in the targetTB pipeline.

Format: XLS Size: 31KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 8:

Comparison with Hasan et al (2005). A report of how the top 500 targets in each of the three lists proposed by Hasan et al (2006) fare in the targetTB pipeline.

Format: XLS Size: 131KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data