Method
Systematic bioinformatic analysis of expression levels of 17,330 human genes across 9,783 samples from 175 types of healthy and pathological tissues
- † Equal contributors
1 Medical Biotechnology, VTT Technical Research Centre and University of Turku, Itäinen pitkäkatu 4C, Turku, Finland
2 Institute for Molecular Medicine Finland (FIMM), University of Helsinki, Tukholmankatu 8, Helsinki, Finland
3 Department of Signal Processing, Tampere University of Technology, Korkeakoulunkatu 1, Tampere, Finland
4 Department of Cancer Prevention, Institute for Cancer Research, Rikshospitalet-Radiumhospitalet Medical Centre, Oslo, NO-0310, Norway
5 Computational Systems Biology Laboratory, Institute of Biomedicine and Genome-Scale Biology Research Program, University of Helsinki, Haartmaninkatu 8, Finland
Genome Biology 2008, 9:R139 doi:10.1186/gb-2008-9-9-r139
Published: 19 September 2008Additional files
Additional data file 1:
Distribution of preprocessed datapoints across the entire database (solid line) and normal distribution (N(8, 4)) estimated from it (dashed line).
Format: PNG Size: 11KB Download file
Additional data file 2:
(a) KLK3 (PSA) is a known prostate specific gene. This specificity is perfectly shown in its expression profile. (b) GFAP, a gene coding for glial fibrillary acidic protein, is known to be expressed in central nervous system. Its expression profile perfectly confirms this prior knowledge.
Format: PNG Size: 196KB Download file
Additional data file 3:
Sources for all the raw expression data files used in this study.
Format: XLS Size: 55KB Download file
This file can be viewed with: Microsoft Excel Viewer
Additional data file 4:
Various healthy tissues, cancers and non-cancer diseases represented by the samples in the database and the amounts of samples in each of these categories.
Format: XLS Size: 34KB Download file
This file can be viewed with: Microsoft Excel Viewer
Additional data file 5:
Rand indices for the different normalizations, and the distribution of array generations and tissues into clusters with Q and QAGC normalized data.
Format: XLS Size: 35KB Download file
This file can be viewed with: Microsoft Excel Viewer
Additional data file 6:
(a) Insulin (INS) has pancreas specific expression, as one expects it to have. (b) LDHC is a known testis-specific gene and it is expressed above background only in healthy testis.
Format: PNG Size: 469KB Download file
Additional data file 7:
Most interestingly this ETS-factor family member appears to have slightly elevated expression in prostate cancer when compared to healthy prostate.
Format: EPS Size: 5.1MB Download file
Additional data file 8:
Expression of the C1orf56 gene, also known as AF1Q or MLLT11, shows extreme expression in several cancers, especially in neuroblastoma.
Format: EPS Size: 6MB Download file
