PTM Related Resources

PTM : Ubiquitination        Type : Tool

hCKSAAP_UbSite
Resource Type : Tool
Description :
CKSAAP_UbSite is a web server that could predict ubiquitination sites in proteins. With the assistance of SVM, the highlight of CKSAAP_UbSite is to employ the composition of k-spaced amino acid pairs as input feature vector. It was trained and tested on a set of experimentally verified ubiquitinatio ...
Taxonomy : N/A
Visit : http://protein.cau.edu.cn/cksaap_ubsite/

Publication Information

Article : hCKSAAP_UbSite: improved prediction of human ubiquitination sites by exploiting amino acid pattern and properties.
Author : Zhen Chena,Yuan Zhoua,Jiangning Songb,Ziding Zhanga
Years : 2013
PubMed : 23603789

iUbiq-Lys
Resource Type : Tool
Description :
The web-server iUbiq-Lys is a web server that could predict ubiquitination sites in proteins. With the assistance of SVM, the highlight of iUbiq-Lys is to employ amino acid sequence features extracted from the sequence evolution information via grey system model (Grey-PSSM). ...
Taxonomy : N/A
Visit : http://www.jci-bioinfo.cn/iUbiq-Lys

Publication Information

Article : iUbiq-Lys: prediction of lysine ubiquitination sites in proteins by extracting sequence evolution information via a gray system model.
Author : Wang-Ren Qiua, Xuan Xiao, Wei-Zhong Lina & Kuo-Chen Choucd
Years : 2015
PubMed : 25248923

UbiPred
Resource Type : Tool
Description :
BACKGROUND: Ubiquitylation plays an important role in regulating protein functions. Recently, experimental methods were developed toward effective identification of ubiquitylation sites. To efficiently explore more undiscovered ubiquitylation sites, this study aims to develop an accurate sequence-ba ...
Taxonomy : N/A
Visit : http://iclab.life.nctu.edu.tw/ubipred

Publication Information

Article : Computational identification of ubiquitylation sites from protein sequences.
Author : Chun-Wei Tung and Shinn-Ying Ho
Years : 2008
PubMed : 18625080

UbiProber
Resource Type : Tool
Description :
Systematic dissection of the ubiquitylation proteome is emerging as an appealing but challenging research topic because of the significant roles ubiquitylation plays not only in protein degradation but also in many other cellular functions. Since ubiquitylation is rapid and reversible, it is time-co ...
Taxonomy : N/A
Visit : http://bioinfo.ncu.edu.cn/UbiProber.aspx

Publication Information

Article : Incorporating key position and amino acid residue features to identify general and species-specific Ubiquitin conjugation sites.
Author : Xiang Chen, Jian-Ding Qiu, Shao-Ping Shi,Sheng-Bao Suo, Shu-Yun Huang and Ru-Ping Liang
Years : 2013
PubMed : 23626001

UbPred
Resource Type : Tool
Description :
UbPred is a random forest-based predictor of potential ubiquitination sites in proteins. It was trained on a combined set of 266 non-redundant experimentally verified ubiquitination sites available from our experiments and from two large-scale proteomics studies (Hitchcock, et al., 2003; Peng, et al ...
Taxonomy : N/A
Visit : http://www.ubpred.org/

Publication Information

Article : Identification, analysis, and prediction of protein ubiquitination sites.
Author : Predrag Radivojac, Vladimir Vacic, Chad Haynes, Ross R. Cocklin, Amrita Mohan, Joshua W. Heyen, Mark G. Goebl andLilia M. Iakoucheva
Years : 2010
PubMed : 19722269