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EXPANDER – an integrative program suite for microarray data analysis

Ron Shamir1*, Adi Maron-Katz1, Amos Tanay1, Chaim Linhart1, Israel Steinfeld1, Roded Sharan1, Yosef Shiloh2 and Ran Elkon2

Author Affiliations

1 School of Computer Science, Sackler Faculty of Exact Sciences. Tel Aviv University, Tel Aviv 69978 Israel

2 The David and Inez Myers Laboratory for Genetic Research, Department of Human Genetics, Sackler School of Medicine. Tel Aviv University, Tel Aviv 69978, Israel

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BMC Bioinformatics 2005, 6:232  doi:10.1186/1471-2105-6-232

Published: 21 September 2005

Additional files

Additional File 1:

Examples of 13 major biclusters identified on the human cells stress-response dataset. Enriched GO categories and TFBS signature found in these biclusters are summarized in Table 1. In each matrix, rows and columns correspond, respectively, to genes and conditions that participate in the bicluster. Labels of the conditions follow this convention: the cell line is indicated first (Hela for Hela cells, WI for WI38 fibroblasts, or K for K-562 cells), followed by an indication for the stress agent (HS – heat shock, DDT, Ox – H2O2 oxidative stress, Crd – crowding, Men – Menadione, Tun – Tunicamycin, CC – cell cycle data measured in Hela cells synchronized using double thymidine, and CCb – cell cycle data in Hela cells synchronized using thymidine-nocodazole). The last number in the label indicates the time point.

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