How the Artificial Intelligence Tool pSumo-CD is Working for Predicting Sumoylation Sites in Proteins
Author(s):
Abstract
Opening the web-server at http://www.jci-bioinfo. cn/pSumo-CD, you will see the top page of pSumo-CD on your computer screen, as shown in Fig.1. Click on the Read Me button to see a brief introduction about this predictor
To see how the web-server is working, please do the
following
Step 1: Opening the web-server at http://www.jci-bioinfo.
cn/pSumo-CD, you will see the top page of pSumo-CD on
your computer screen, as shown in Fig.1. Click on the Read
Me button to see a brief introduction about this predictor
Figure 1: A semi-screenshot of the top-page for the webserver pSumo-CD at http://www.jci-bioinfo.cn/pSumo-CD.
Step 2: Either type or copy/paste your query protein
sequences into the input box at the center of Fig.1: The input
sequences should be in the FASTA format. For the examples
of sequences in FASTA format, click the Example button
right above the input box.
Step 3: Click on the Submit button to see the predicted result. For example, if you use the Sequences in the Example
window as the input, after a few seconds, you will see the corresponding predicted results, which is fully consistent with
experiment observations.
Step 4: Click the Data button to download the benchmark
dataset used in this study.
Step 5: Click the Citation button to find the relevant papers
that document the detailed development and algorithm for
iSuc-PseOpt.
It is anticipated that the Web-Server will be very useful because the vast majority of biological scientists can easily get
their desired results without the need to go through the complicated equations in [1] that were presented just for the integrity in developing the predictor.
Also, note that the web-server predictor has been developed
by strictly observing the guidelines of “Chou’s 5-steps rule”
and hence have the following notable merits (see, e.g., [2, 3]
and three comprehensive review papers [4-6]): crystal clear
in logic development, completely transparent in operation,
easily to repeat the reported results by other investigators,
with high potential in stimulating other sequence-analyzing
methods, and very convenient to be used by the majority of
experimental scientists [1-5].
It has not escaped our notice that during the development
of iSuc-PseOpt web-server, the approach of general pseudo
amino acid components [7] or PseAAC [8] had been utilized and hence its accuracy would be much higher than its
counterparts, as concurred by many investigators (see, e.g.,
[9-10]).
For the marvelous and awesome roles of the “5-steps rule” in
driving proteome, genome analyses and drug development,
see a series of recent papers [11-32] where the rule and its
wide applications have been very impressively presented
from various aspects or at different angles.
References
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