Searching for differentially expressed gene combinations
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* Corresponding author: Marcel Dettling dettling@jhu.edu
1 Department of Oncology, Johns Hopkins Medical Institutions, Baltimore, MD 21205, USA
2 Department of Pathology, Johns Hopkins Medical Institutions, Baltimore, MD 21205, USA
3 Department of Biostatistics, Johns Hopkins Medical Institutions, Baltimore, MD 21205, USA
Genome Biology 2005, 6:R88 doi:10.1186/gb-2005-6-10-r88
Published: 19 September 2005Additional files
Additional File 1:
Data from a publicly available leukemia study by Armstrong et al. [27,28]. The data originated from Affymetrix HG U95A arrays and, after our normalization, feature the expression of 6,177 genes across a total of 72 samples. For the CorScor analysis, we restricted to the binary distinction of 24 samples from acute lymphoblastic leukemias (ALL) versus 28 samples from acute myeloid leukemias (AML)
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Additional File 2:
A dataset from a publicly available lung cancer study of Bhattacharjee et al. [29,30]. It also originated from Affymetrix HG U95A arrays and contains 3,171 genes after our normalization. The CorScor analysis was run on 20 carcinoid samples and 17 normal lung tissues
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Additional File 3:
A dataset from the seminal leukemia study of Golub et al. [31,32]. It originated from Affymetrix Hu6800 arrays. The version we used after our normalization contained the expression of 3,571 genes across a total of 72 samples, 25 of which were from patients who had acute myeloid leukemias and 47 of which were from patients with acute lymphoblastic leukemia
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Additional File 4:
Our analysis of publicly available cDNA arrays from Gruvberger et al. [33,34]. The data monitor 3,389 genes across 30 estrogen-receptor-negative and 28 estrogen-receptor-positive breast cancer samples
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