Note: If you are using Excel to edit GenePattern files, be sure to save the file as a tab-delimited text file and supply the correct file extension. You can specify the file name in quotes to prevent Excel from appending .txt to the file name. Also, note that Excel's auto-formatting can introduce errors in gene names, as described in Zeeberg, et al (2004).
LOH File Format
This is a tab-delimited file format that contains the output results of the LOH module. The LOH module, a SNP analysis module, detects loss of heterozigosity (LOH). The LOH file format is organized as follows:
The first line contains a list of labels identifying the paired samples.
SNP (tab) Chromosome (tab) PhysicalPosition (tab) (pair_1_name) (tab) ... (pair_N_name)
SNP (tab) Chromosome (tab) PhysicalPosition (tab) SM-12VZ (tab) SM-12W1
The rest of the SNP file contains one row of data for each probe.