Computational Structural Biology Lab
Source: http://www.csb.iitkgp.ac.in/applications/Nucpred/mannual.php Parent: http://www.csb.iitkgp.ac.in/applications/Nucpred/index.php
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Nucpred A Protein Binding Nucleotide Predictor
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Nucpred server allows user to predict protein-binding and non-binding nucleotides for a given RNA sequence. It uses the default RF based model developed with NC-triplet feature profile generated from the query sequence.
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What is "Nucpred"? [Go to application]
Nucpred-Manual
- Either type or paste the input RNA sequence in FASTA format or upload a FASTA file using the Browse button.
Note : The input sequence should be a RNA sequence with standard nucleotides (A, U, G, or C). The input can be a single line sequence or a single-line description followed by line of sequence.
- Click on the submit button to run the prediction. The webserver uses the default RF-NC-triplet model for prediction, once the user submit the query sequence. \
- Users can optionally select other prediction models such as RF-NC-quartet, SVMFBF, or KNN developed using quartet nucleotide composition feature and other optimized ML algorithms using the select prediction model button. \
- On submitting the query sequence, the output of prediction result is displayed on the screen. Each nucleotide is assigned a prediction annotation (1/0) for protein-binding and non-binding nucleotides along with their raw probability scores. Optionally, user can download the prediction results by clicking on the Download here link. \
- The Test Run button allows user to check an example (test case) input sequence and the corresponding prediction results. \