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

Open Access Proceedings

C-mii: a tool for plant miRNA and target identification

Somrak Numnark1, Wuttichai Mhuantong2, Supawadee Ingsriswang1 and Duangdao Wichadakul1*

Author Affiliations

1 Information Systems Laboratory, National Center for Genetic Engineering and Biotechnology (BIOTEC), 113 Thailand Science Park, Phaholyothin Road, Klong 1, Klong Luang, Pathumthani, Thailand

2 Enzyme Technology Laboratory, National Center for Genetic Engineering and Biotechnology (BIOTEC), 113 Thailand Science Park, Phaholyothin Road, Klong 1, Klong Luang, Pathumthani, Thailand

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BMC Genomics 2012, 13(Suppl 7):S16  doi:10.1186/1471-2164-13-S7-S16

Published: 13 December 2012

Additional files

Additional file 1:

FASTA (can be viewed with a text editor) - TAIR10 cDNA sequences. This file is used as input for benchmarking the miRNA identification pipeline. It is available under the Documentation & Benchmarking menu at http://www.biotec.or.th/isl/c-mii webcite.

Format: DOC Size: 26KB Download file

This file can be viewed with: Microsoft Word Viewer

Open Data

Additional file 2:

FASTA (can be viewed with a text editor) - TAIR10 miRNA sequences. This file is used as input for benchmarking the miRNA identification pipeline.

Format: TXT Size: 51KB Download file

Open Data

Additional file 3:

FASTA (can be viewed with a text editor) - Arabidopsis precursor miRNA sequences from miRBase 16. This file is used as input for benchmarking the miRNA identification pipeline.

Format: TXT Size: 48KB Download file

Open Data

Additional file 4:

(FASTA) - All plant RNA sequences that are not miRNAs from Rfam 10. This file is used as input for benchmarking the miRNA identification pipeline.

Format: FASTA Size: 4.2MB Download file

Open Data

Additional file 5:

(Microsoft Excel) - List of true positives (TP), false positives (FP), and false negatives (FN) of the miRNA identification on TAIR10 cDNA dataset.

Format: XLS Size: 72KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 6:

(Microsoft Excel) - List of false negatives (FN) of the miRNA identification on Arabidopsis precursor miRNAs from miRBase 16 dataset.

Format: XLS Size: 15KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 7:

(FASTA) - Arabidopsis known miRNA target sequences. This file is used as input for benchmarking the target identification pipeline.

Format: FASTA Size: 791KB Download file

Open Data