Research article
poolMC: Smart pooling of mRNA samples in microarray experiments
1 Department of Chemical Engineering, University of Michigan, Ann Arbor MI 48109, USA
2 Department of Molecular, Cellular, and Developmental Biology, University of Michigan Ann Arbor MI 48109, USA
3 Department of Mathematics, University of Michigan, Ann Arbor MI 48109, USA
4 Bioinformatics Program, University of Michigan, Ann Arbor MI 48109, USA
BMC Bioinformatics 2010, 11:299 doi:10.1186/1471-2105-11-299
Published: 2 June 2010Additional files
Additional file 1:
Monoplex data. Tab-delimited file containing the monoplex data. The file contains 21,505 rows corresponding to the genes and 15 columns of gene expression data (log-transformed) corresponding to the samples.
Format: TXT Size: 5.5MB Download file
Additional file 2:
Multiplex measurement. Tab-delimited file containing the multiplex measurement. The file contains 21,505 rows corresponding to the genes and 12 columns of gene expression data (log-transformed) corresponding to the pooled samples.
Format: TXT Size: 4.8MB Download file
Additional file 3:
Supplementary materials. An Adobe PDF file containing mathematical details and illustrative examples of the pooling and decoding strategies underlying poolMC. Also included are complete figures showing the comparison between monoplex, synthetic, and multiplex results for all samples used in the experiment.
Format: PDF Size: 515KB Download file
This file can be viewed with: Adobe Acrobat Reader
Additional file 4:
poolMC design. The MATLAB code implementing the expander graph based pooling design.
Format: M Size: 2KB Download file
Additional file 5:
poolMC decoder. The MATLAB code implementing the decoding procedure.
Format: M Size: 4KB Download file
Additional file 6:
Smart pooling example. The MATLAB code illustrating poolMC's pooling and decoding procedure.
Format: M Size: 3KB Download file
