The ' multiple tissue types ' dataset (Su et al., 2002 ) are gene expression profiles from human cancer samples from diverse tissues and cell lines.
Taking advantage of several multiple tissue microarray datasets, we rated the expression levels of putative E3s as 5 levels (A, P, HP, MS and SP).
Multiple tissues: this dataset is very heterogeneous and the samples differ in many biological processes; hence, it is difficult to provide a comprehensible biological interpretation.
Building on improved computational methods to correct such opposition, Chan et al. [ 16] compared multiple tissue-expression datasets across five vertebrate species: human, mouse, chicken, frog and pufferfish, and found the evidence of conserved expression in more than a third of unique orthologous genes.
Here it is important to note that the MASP2 gene is predominantly expressed in the liver (Additional file 14a) and that all the samples showing this ASE effect were liver samples, demonstrating the power of a dataset containing multiple tissue types to target a variety of diseases.
Fig. 1 Analysis of the normal tissue dataset by ConTra's multiple attribute values approach Fig. 2 Result of the analysis of the normal tissue dataset by ConTra's multiple attribute values approach.
For quality control, we mapped our results to another recently produced V. planifolia sequence dataset that did not include multiple tissue types.
High-throughput sequencing of RNA extracted from multiple tissue samples followed by de novo transcriptome assembly has produced a dataset of 75,002 transcripts for E. chloroticus.
We have also used a large number of experimental datasets across multiple tissues, but there may be datasets with substantially different properties that require different handling.
To mine putative E3s from the mouse and human genomes, we first compiled all protein-coding genes from several microarray datasets (GSE96, GSE97, GSE1133, GSE2361,GSE9954, GSE1986) generated from gene expression profiling of multiple tissues and the EST dataset from the UniGene database [ 19- 22].
