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RNA Structure Prediction Active Workflow

This workflow performs RNA structure prediction.

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Please refer to a manual of each version for installation and usage.

RNA Structure Prediction Workflow (Windows)

RNA Structure Prediction Workflow requires the following files to run: (click to download)

1. KNIME package (.zip zipped file)
2. Installation manual for KNIME and combination type active workflow
3. RNA Structure Prediction Workflow User's Manual
4. readMe

RNA Structure Prediction Workflow (Linux 64bit)

RNA Structure Prediction Workflow requires the following files to run: (click to download)

1. KNIME package (.tgz gzipped file, 64bit)
2. Installation manual for KNIME and combination type active workflow
3. RNA Structure Prediction Workflow User's Manual
4. readMe

RNA Structure Prediction Workflow (MacOS)

RNA Structure Prediction Workflow requires the following files to run: (click to download)

1. KNIME package (.tgz gzipped file)
2. Installation manual for KNIME and combination type active workflow
3. RNA Structure Prediction Workflow User's Manual
4. readMe

Samples for testing CentroidFold

• Sample 1 (Multi-FASTA)
• Sample 2 (Multiple alignment in ClustalW format)

Samples for testing IPknot

• Sample 1 (FASTA)
• Sample 2 (FASTA)
• Sample 3 (Multi-FASTA)
• Sample 4 (Multiple alignment in ClustalW format)

Samples for testing RactIP

• Sample pair 1 (query, FASTA)
• Sample pair 1 (target, FASTA)
• Sample pair 2 (query, FASTA)
• Sample pair 2 (target, FASTA)
• Sample pair 3 (query, FASTA)
• Sample pair 3 (target, FASTA)

Samples for testing RASSIE

• Sample 1 (FASTA)
• Sample 2 (FASTA)
• Sample 3 (FASTA)
• Sample 4 (FASTA)
• Sample 5 (FASTA)

Samples for testing Rascal

• Sample 1a (FASTA)
• Sample 1b (FASTA)
• Sample Patisirana_a (FASTA)
• Sample Patisirana_b (FASTA)
• Sample base-pair matrix file for Pegaptanib (Macugen)*

Example for RNA-protein docking*

• Sample RNA (pdb)
• Sample Protein (pdb)

* S. Yamasaki,T. Amemiya,Y. Yabuki,K. Horimoto and K. Fukui*, "ToGo-WF: Prediction of RNA tertiary structures and RNA–RNA/Protein interactions using the KNIME workflow", Journal of Computer-Aided Molecular Design, Volume 33, Issue 5, pp 497–507 (2019).

RNA Structure Prediction-K Active Workflow is lisenced under Creative Commons Lisence. Please see the readMe file for credit (reference).

If you want to take advantage of this workflow for commercial purposes, please contact us for details.