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

1. 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.

2. 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.


3. 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.


4. 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.


5. The Test Run button allows user to check an example (test case) input sequence and the corresponding prediction results.

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