Example Data Files


Input typeNotesSample input fileSample Output Link
Raw CEL Files (Any affymetrix platform such as U133plus2, U95A - E etc..) You need to create a zipped file containing all of the CEL files that you will use for the analysis . On MAC, select all CEL files & use compress. On PC,right click and select 'send to' The interface will automatically upload and decompress this file (which may take a few minutes,so please be patient) and will then ask you to assign a name and a target group to each sample.
Based on the target groups that were set up, the next step is to decide which LIMMA comparisons you want to include in your analysis (e.g. cancer vs normal etc.)
MiaPaCa2 parental vs MTX resistant arrays. This data is a subset of the GEO record GSE16648 and contains 6 samples, 3 parental and 3 MTX resistent. The data is also available as a zipped file below.
Gene expression profiling of human glioma samples (U95Av2 arrays). This data was downloaded from GEO record GSE12657 and contains 7 Glioblastoma, 5 controls, 6 Pilocytic astrocytoma and 7 Oligodendroglioma cases. This data is also available as a zipped file below.
Paired/replicate samples Expression analysis of 36 pancreatic ductal adenocarcinoma tumors and matching normal pancreatic tissue samples from pancreatic cancer patients using Affymetrix U133 Plus 2.0. Available from GEO under accession number GSE15471. Expression analysis of pairs of normal and tumour tissue samples obtained from resected pancreas of 36 pancreatic cancer patients. For three of the 36 normal-tumor sample pairs, technical replicate microarray hybridizations were performed. This data is also available as a zipped file below.
Normalised Data file You need to create a zipped file of your normalised data file. On MAC, select all CEL files & use compress. On PC,right click and select 'send to' The interface will automatically upload and decompress this file (which may take a few minutes,so please be patient) and will then ask you to assign a name and a target group to each sample. N.B. your data must be logged expression values, each sample identifier must be unique.
Based on the target groups that were set up, the next step is to decide which LIMMA comparisons you want to include in your analysis (e.g. cancer vs normal etc.)
MiaPaCa2 parental vs resistant arrays normalised input. This data is a subset of the GEO record GSE16648 and contains 6 samples, 3 parental and 3 resistent. The data is also available as a zipped file below.