Systems Biology Laboratory of Chi Zhang

Bioinformatics:

VaSP: Genome-wide discovery of natural variation in pre-mRNA splicing and prioritizing causal alternative splicing to salt stress response in plants
bioconductor link: http://bioconductor.org/packages/release/bioc/html/vasp.html
github link: https://github.com/yuhuihui2011/vasp

BSREx-seq analysis tool: identification of genomic variations with combination of Bulked Segregant RNA and Exome Sequencing

GExposer: Differential expression analysis in RNA-Seq by machine learning algorithm with local normalization

PhosphoSVM: prediction tool for phosphorylation sites

L1pred: prediction tool for catalytic residues in enzymes

Immunoinformatics:

PITHA: Prediction of immunogenicity for humanized and full human therapeutic antibodies

SVMTriP: Prediction of Linear Epitope with Tri-Peptide similarity and propensity

EPCES: Prediction of Antigenic Epitopes on Protein Surfaces by Consensus Scoring

EPSVR: Prediction of Antigenic Epitopes with Support Vector Regression
Please download the training set and testing set here:
Training set
Test set

EPMeta: A Meta Server for Antigenic Epitopes Prediction

Databases:

Database of Root Genes and Promoters in Maize, Soghum, and Soybean

Database of predicted 3D structures for all transcription factors in Arabidopsis

Database of Fungal Virulence Factors

RNA Silencing Components in Soybean and Sorghum

Biostatistics:

PAUCC: A Computational Tool for the Partial ROC Comparisons
Please download the R package here: PAUCC.tar.gz

Previously developed web servers:

EMPIRE

PINUP

MC2

DOGMA


	DLOOP
	DCOMPLEX
	DDNA

This page has been accessed times since September, 2009.

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