Gust, Kurt A., Pirooznia, Mehdi, Quinn, Michael J., Johnson, Mark S., Escalon, Lynn, Indest, Karl J., ...
Munitions constituents (MCs) including hexahydro-1,3,5-trinitro-1,3,5-triazine (RDX), 2,4,6-trinitrotoluene (TNT), and TNT derivatives are recognized to elicit aberrant neuromuscular responses in...
Bmc Bioinformatics, Mehdi Pirooznia, Youping Deng
SVM Classifier – a comprehensive java interface for support vector machine classification of microarray data
ILOOP – a web application for two-channel microarray interwoven loop design (2008)
Pirooznia, Mehdi, Gong, Ping, Yang, Jack Y, Yang, Mary, Perkins, Edward J, Deng, Youping
Abstract Microarray technology is widely applied to address complex scientific questions. However, there remain fundamental issues on how to design experiments to ensure that the resulting data...
Batch Blast Extractor: an automated blastx parser application (2008)
Pirooznia, Mehdi, Perkins, Edward J, Deng, Youping
Abstract Motivation BLAST programs are very efficient in finding similarities for sequences. However for large datasets such as ESTs, manual extraction of the information from the batch BLAST output...
Gong, Ping, Guan, Xin, Inouye, Laura S, Deng, Youping, Pirooznia, Mehdi, Perkins, Edward J
Abstract Background Explosive compounds such as TNT and RDX are recalcitrant contaminants often found co-existing in the environment. In order to understand the joint effects of TNT and RDX on...
A comparative study of different machine learning methods on microarray gene expression data (2008)
Pirooznia, Mehdi, Yang, Jack Y, Yang, Mary Qu, Deng, Youping
Abstract Background Several classification and feature selection methods have been studied for the identification of differentially expressed genes in microarray data. Classification methods such as...
GOfetcher: a database with complex searching facility for gene ontology (2008)
Pirooznia, Mehdi, Habib, Tanwir, Perkins, Edward J., Deng, Youping
Motivation: An important contribution to the Gene Ontology (GO) project is to develop tools that facilitate the creation, maintenance and use of ontologies. Several tools have been created for...
Pirooznia, Mehdi, Gong, Ping, Guan, Xin, Inouye, Laura S, Yang, Kuan, Perkins, Edward J, ...
Abstract Background Eisenia fetida , commonly known as red wiggler or compost worm, belongs to the Lumbricidae family of the Annelida phylum. Little is known about its genome sequence although it has...
GeneVenn - A web application for comparing gene lists using (2007)
Mehdi Pirooznia, Vijayaraj Nagarajan, Youping Deng
Numerous methods are available to compare results of multiple microarray studies. One of the simplest but most effective of these procedures is to examine the overlap of resulting gene lists in a...
Pirooznia, Mehdi, Deng, Youping
Abstract Motivation Graphical user interface (GUI) software promotes novelty by allowing users to extend the functionality. SVM Classifier is a cross-platform graphical application that handles very...
RiboaptDB: A Comprehensive Database of Ribozymes and Aptamers (2006)
Thodima, Venkata, Pirooznia, Mehdi, Deng, Youping
Abstract Background Catalytic RNA molecules are called ribozymes. The aptamers are DNA or RNA molecules that have been selected from vast populations of random sequences, through a combinatorial...
GeneVenn - A web application for comparing gene lists using Venn diagrams
Pirooznia, Mehdi, Nagarajan, Vijayaraj, Deng, Youping
Numerous methods are available to compare results of multiple microarray studies. One of the simplest but most effective of these procedures is to examine the overlap of resulting gene lists in a...
Transcriptomic analysis of RDX and TNT interactive sublethal effects in the earthworm Eisenia fetida
Gong, Ping, Guan, Xin, Inouye, Laura S, Deng, Youping, Pirooznia, Mehdi, Perkins, Edward J
A comparative study of different machine learning methods on microarray gene expression data
Pirooznia, Mehdi, Yang, Jack Y, Yang, Mary Qu, Deng, Youping
ILOOP – a web application for two-channel microarray interwoven loop design
Pirooznia, Mehdi, Gong, Ping, Yang, Jack Y, Yang, Mary Qu, Perkins, Edward J, Deng, Youping
Microarray technology is widely applied to address complex scientific questions. However, there remain fundamental issues on how to design experiments to ensure that the resulting data enables robust...