Examples

We have prepared a set of examples for you to explore and to quickly start learning how to use the analytics capabilities of SNPsyn.

If you want to re-analyse an example, perhaps by focusing on a subset of markers, run SNPsyn and submit the tab-delimited data file for the example. Please, unzip files before uploading to SNPsyn.

Examples from Tan et al.

Tan AC et al.: Allele-specific expression in the germline of patients with familial pancreatic cancer: an unbiased approach to cancer gene discovery. Cancer Biol Ther, 2008.

GEO: GSE8054
Platform: GPL5358 Homo sapiens 0.9 K allele specific expression 1
Markers: 901
Samples: 208 (121 with cancer, 87 controls)
Data file: tab delimited, SNPsyn format

GEO: GSE8055
Platform: GPL5359 Homo sapiens 1.2 K allele specific expression 2
Markers: 1189
Samples: 230 (141 with cancer, 89 controls)
Data file: tab delimited, SNPsyn format

Examples from Friedman et al.

Friedman JM et al.: Oligonucleotide microarray analysis of genomic imbalance in children with mental retardation. Am J Hum Genet, 2006.

GEO: GSE7226
Platform: GPL2004 [Mapping50K_Hind240] Affymetrix Human Mapping 50K Hind240 SNP Array
Markers: 9944
Samples: 315 (102 with mental retardation, 213 controls)
Data file: tab delimited, SNPsyn format

GEO: GSE7226 Platform: GPL2005 [Mapping50K_Xba240] Affymetrix Human Mapping 50K Xba240 SNP Array
Markers: 9944
Samples: 313 (103 with mental retardation, 210 controls)
Data file: tab delimited, SNPsyn format