Genome Biology

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Searching for differentially expressed gene combinations

Marcel Dettling1*, Edward Gabrielson1,2 and Giovanni Parmigiani1,2,3

Author Affiliations

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

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Genome Biology 2005, 6:R88 doi:10.1186/gb-2005-6-10-r88

Published: 19 September 2005

Additional 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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Open Data

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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Open Data