|
☆ Post-Translational
Modification site Prediction - User Interface
(PTMP-UI):
Since the diversity
in the user
interface (UI) of different
prediction servers could greatly hinder experimental
biologists in using these servers, we proposed
a protocol of a unified user interface (UI)
for in silico prediction servers
for prediction of post-translational modification
sites, based on our own work and other work
on PTM site prediction. Computational biologists
may follow this protocol to provide a uniform
user interface, regardless of the PTM types
and the computation algorithms. And wet lab
biologists would be able to use any PTM site
prediction servers compliant to this protocol
after getting familiar with one of them.
For PTMs analyses and predictions, we collected
most of related online databases, web services,
and tools at LINK
page.
Rationale for a
unified UI:
1. Input: one or multiple protein primary
sequences in FASTA
format
2. Output: predicted PTM sites position
and modified residue type
3. Output: flanking peptide of the PTM site
4. Output: evaluation score or probability
of the predicted PTM site
5. "Example-then-Submit": make
a "Example" button to load example
data and click on "Submit" button
for demo prediction
☆ CITATION:
For references and publication
of results, please cite the following articles:
|
A general
user interface for prediction servers
of proteins' post-translational modification
sites
Fengfeng Zhou, Yu
Xue, Xuebiao Yao and Ying
Xu
Nature Protocols.2006;
7: 1318-1321
[Abstract]
[Full
Text] |
|
|
|
|
|
☆ Contact:
Prof. & Dr. Yu Xue (Personal CV)
Ph.D., Professor,
Principle Investigator,
Department of Biomedical Engineering,
College of Life Science and Technology,
Huazhong University of Science and Technology,
No. 1037, Luoyu Road,
Wuhan, 430074, Hubei, P.R.China
Phone: +86-27-87793903
Fax: +86-27-87793172
Email: xueyu@hust.edu.cn; xueyuhust@gmail.com
Personal Website: http://www.biocuckoo.org/
ResearcherID Google Scholar Sciencenet's Blog |
|
|
|
Last updated: Jan. 13th, 2013 |
|
Copyright © 2013 The CUCKOO Workgroup, All Rights Reserved |
| |