GPS-PUP statistics

Tool stats & trends

Looking to identify usage trends or leading experts?

GPS-PUP specifications

Information


Unique identifier OMICS_06902
Name GPS-PUP
Software type Application/Script
Interface Graphical user interface
Restrictions to use Academic or non-commercial use
Input data A primary sequence or multiple proteins sequences.
Input format FASTA
Operating system Unix/Linux, Mac OS, Windows
Computer skills Medium
Version 1.0
Stability Stable
Maintained Yes

Download


download.png
download.png
download.png

Versioning


No version available

Documentation


Maintainers


  • person_outline Jian Ren
  • person_outline Yu Xue
  • person_outline Zexian Liu

Additional information


http://pup.biocuckoo.org/faq.php

Information


Unique identifier OMICS_06902
Name GPS-PUP
Interface Web user interface
Restrictions to use Academic or non-commercial use
Input data A primary sequence or multiple proteins sequences.
Input format FASTA
Computer skills Basic
Version 1.0
Stability Stable
Requirements
JRE
Maintained Yes

Documentation


Maintainers


  • person_outline Jian Ren
  • person_outline Yu Xue
  • person_outline Zexian Liu

Additional information


http://pup.biocuckoo.org/faq.php

Publication for GPS-PUP

GPS-PUP citations

 (6)
library_books

CIPPN: computational identification of protein pupylation sites by using neural network

2017
Oncotarget
PMCID: 5752488
PMID: 29312575
DOI: 10.18632/oncotarget.22335

[…] e other models. Meanwhile, we also carry the comparisons among k nearest neighbors, support vector machine and Naïve Bayes classification algorithms in this work. The testing set was submitted to the GPS-PUP web server and the outputs were utilized to calculate the corresponding sensitivity, specificity and other performance indicators. It should be pointed out that we can guarantee that the testi […]

library_books

Role of Bacterioferritin and Ferritin in M. tuberculosis Pathogenesis and Drug Resistance: A Future Perspective by Interactomic Approach

2017
PMCID: 5462900
PMID: 28642844
DOI: 10.3389/fcimb.2017.00240

[…] Using the default threshold (medium) with cutoff 2.452; GPS-PUP predicted pupylation sites in bacterioferritin and ferritin proteins which were tabulated in Table . […]

library_books

M. tuberculosis Hypothetical Proteins and Proteins of Unknown Function: Hope for Exploring Novel Resistance Mechanisms as well as Future Target of Drug Resistance

2017
Front Microbiol
PMCID: 5359272
PMID: 28377758
DOI: 10.3389/fmicb.2017.00465

[…] ffects of drugs (, ). Pupylation is a post translational modification through which small disordered protein Pup is conjugated to lysine residues of proteins marking them for proteasomal degradation. GPS-PUP (pupylation) predicted, that neutralized/modulated adduct (drug-protein complex) might be degraded by proteasome machinery complex {turnover of the proteins} (, ). As modification with pup is […]

library_books

Cytosolic Proteome Profiling of Aminoglycosides Resistant Mycobacterium tuberculosis Clinical Isolates Using MALDI TOF/MS

2016
Front Microbiol
PMCID: 5108770
PMID: 27895634
DOI: 10.3389/fmicb.2016.01816

[…] Using the default threshold (medium) with cutoff 2.452, GPS-PUP predicted pupylation sites in 15 identified proteins which are tabulated in Table . Four proteins have not shown any pupylation sites with these default parameters. […]

library_books

Comparative Proteomic Analysis of Aminoglycosides Resistant and Susceptible Mycobacterium tuberculosis Clinical Isolates for Exploring Potential Drug Targets

2015
PLoS One
PMCID: 4593609
PMID: 26436944
DOI: 10.1371/journal.pone.0139414

[…] nine were with defined roles and three with unknown functions. Molecular docking showed proper interaction of both drugs with hypothetical proteins (Rv2005c, Rv2744c and Rv0148) as well as ferritin. GPS-PUP analysis suggested presence of pupylation sites within these proteins. It is depicted that increased intensities of these proteins and proteasome sub unit alpha might not only be neutralizing/ […]

library_books

Position Specific Analysis and Prediction of Protein Pupylation Sites Based on Multiple Features

2013
Biomed Res Int
PMCID: 3770009
PMID: 24066285
DOI: 10.1155/2013/109549

[…] le data sets. In this regard, the computation approaches which could effectively and accurately predict the pupylation sites is urgently needed. Liu et al. had constructed the first online predictor, GPS-PUP, for the prediction of the pupylation sites []. In their method, 127 experimentally identified pupylation sites in 109 prokaryotic proteins had been utilized as the training dataset, with an a […]

Citations

Looking to check out a full list of citations?

GPS-PUP institution(s)
Hefei National Laboratory for Physical Sciences at Microscale and School of Life Sciences, University of Science & Technology of China, Hefei, Anhui, China; Hubei Bioinformatics and Molecular Imaging Key Laboratory, Department of Systems Biology, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan, Hubei, China; State Key Laboratory of Biocontrol, School of Life Sciences, Sun Yat-sen University, Guangzhou, Guangdong, China
GPS-PUP funding source(s)
Supported by grants from the National Basic Research Program (973 project) (2010CB945400, 2011CB910400, 2011CB711000), National Natural Science Foundation of China (90919001, 31071154, 30900835, 30830036, 91019020, 21075045), and Fundamental Research Funds for the Central Universities (HUST: 2010JC049, 2010ZD018; SYSU: 11lgzd11, 11lgjc09; USTC: WK2340000032).

GPS-PUP reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review GPS-PUP