title: ILOOP--a web application for two-channel microarray interwoven loop design.
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 enables robust statistical analysis. Interwoven loop design has several advantages over other designs. However it suffers in the complexity of design. We have implemented an online web application which allows users to find optimal loop designs for two-color microarray experiments. Given a number of conditions (such as treatments or time points) and replicates, the application will find the best possible design of the experiment and output experimental parameters. It is freely available from http://mcbc.usm.edu/iloop.
authors.affiliation: Department of Biological Sciences, University of Southern Mississippi, Hattiesburg, MS 39406, USA. mehdi.pirooznia@usm.edu
authors.forename: Mehdi
authors.initials: M
authors.lastname: Pirooznia
authors.forename: Ping
authors.initials: P
authors.lastname: Gong
authors.forename: Jack Y
authors.initials: JY
authors.lastname: Yang
authors.forename: Mary Qu
authors.initials: MQ
authors.lastname: Yang
authors.forename: Edward J
authors.initials: EJ
authors.lastname: Perkins
authors.forename: Youping
authors.initials: Y
authors.lastname: Deng
mesh_terms: D000465:Algorithms; D019295:Computational Biology; D003198:Computer Simulation; D020869:Gene Expression Profiling / Q000379:methods; D008432:Mathematical Computing; D015233:Models, Statistical; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods*; D012107:Research Design; D012984:Software