TY - CHAP AU - Sharan, R. AU - Ulitsky, I. AU - Shamir, R. PY - 2007 DA - 2007// TI - Network-based prediction of protein function BT - Molecular Systems Biology ID - Sharan2007 ER - TY - JOUR AU - Jiang, D. AU - Tang, C. AU - Zhang, A. PY - 2004 DA - 2004// TI - Clustering analysis for gene expression data: A survey JO - IEEE Transactions on knowledge and data engineering VL - 16 UR - https://doi.org/10.1109/TKDE.2004.68 DO - 10.1109/TKDE.2004.68 ID - Jiang2004 ER - TY - CHAP AU - van Berlo, R. J. P. AU - Wessels, L. F. A. AU - Martes, S. D. C. AU - Reinders, M. J. T. PY - 2005 DA - 2005// TI - Predicting gene function by combining expression and interaction data BT - CSBW '05: Proceedings of the 2005 IEEE Computational Systems Bioinformatics Conference - Workshops PB - IEEE Computer Society CY - Washington, DC UR - https://doi.org/10.1109/CSBW.2005.111 DO - 10.1109/CSBW.2005.111 ID - van Berlo2005 ER - TY - JOUR AU - Segal, E. AU - Wang, H. AU - Koller, D. PY - 2003 DA - 2003// TI - Discovering molecular pathways from protein interaction and gene expression data JO - Bioinformatics VL - 19 UR - https://doi.org/10.1093/bioinformatics/btg1037 DO - 10.1093/bioinformatics/btg1037 ID - Segal2003 ER - TY - JOUR AU - Ulitsky, I. AU - Shamir, R. PY - 2007 DA - 2007// TI - Identification of functional modules using network topology and high-throughput data JO - BMC Systems Biology VL - 1 UR - https://doi.org/10.1186/1752-0509-1-8 DO - 10.1186/1752-0509-1-8 ID - Ulitsky2007 ER - TY - JOUR AU - Hanisch, D. AU - Zien, A. AU - Zimmer, R. AU - Lengauer, T. PY - 2002 DA - 2002// TI - Co-clustering of biological networks and gene expression data JO - Bioinformatics VL - 18 UR - https://doi.org/10.1093/bioinformatics/18.suppl_1.S145 DO - 10.1093/bioinformatics/18.suppl_1.S145 ID - Hanisch2002 ER - TY - CHAP AU - Sharan, R. AU - Shamir, R. PY - 2000 DA - 2000// TI - CLICK: A clustering algorithm with applications to gene expression analysis BT - Proceedings of the International Conference on Intelligent Systems for Molecular Biology PB - AAAI Press CY - Menlo Park, CA ID - Sharan2000 ER - TY - JOUR AU - Shiga, M. AU - Takigawa, I. AU - Mamitsuka, H. PY - 2007 DA - 2007// TI - Annotating Gene Function by Combining Expression Data with a Modular Gene Network JO - Bioinformatics VL - 23 UR - https://doi.org/10.1093/bioinformatics/btm173 DO - 10.1093/bioinformatics/btm173 ID - Shiga2007 ER - TY - JOUR AU - von Mering, C. AU - Krause, R. AU - Snel, B. AU - Cornell, M. AU - Oliver, S. G. AU - Fields, S. AU - Bork, P. PY - 2002 DA - 2002// TI - Comparative assessment of large-scale data sets of protein-protein interactions JO - Nature VL - 417 UR - https://doi.org/10.1038/nature750 DO - 10.1038/nature750 ID - von Mering2002 ER - TY - CHAP AU - Sinkkonen, J. AU - Aukia, J. AU - Kaski, S. PY - 2007 DA - 2007// TI - Inferring vertex properties from topology in large networks BT - Working Notes of the 5th International Workshop on Mining and Learning with Graphs (MLG'07) PB - Universita degli Studi di Firenze CY - Florence, Italy ID - Sinkkonen2007 ER - TY - JOUR AU - Hahn, A. AU - Rahnenfuhrer, J. AU - Talwar, P. AU - Lengauer, T. PY - 2005 DA - 2005// TI - Confirmation of human protein interaction data by human expression data JO - BMC Bioinformatics VL - 6 UR - https://doi.org/10.1186/1471-2105-6-112 DO - 10.1186/1471-2105-6-112 ID - Hahn2005 ER - TY - JOUR AU - Ge, H. AU - Liu, Z. AU - Church, G. M. AU - Vidal, M. PY - 2001 DA - 2001// TI - Correlation between transcriptome and interactome mapping data from Saccharomyces cerevisiae JO - Nature Genetics VL - 29 UR - https://doi.org/10.1038/ng776 DO - 10.1038/ng776 ID - Ge2001 ER - TY - CHAP AU - Sinkkonen, J. AU - Aukia, J. AU - Kaski, S. PY - 2008 DA - 2008// TI - Component models for large networks BT - ArXiv e-prints ID - Sinkkonen2008 ER - TY - BOOK AU - Bishop, C. M. PY - 2006 DA - 2006// TI - Pattern Recognition and Machine Learning PB - Springer Science+Bussiness Media LLC CY - New York ID - Bishop2006 ER - TY - JOUR AU - Ashburner, M. AU - Ball, C. A. AU - Blake, J. A. AU - Botstein, D. AU - Butler, H. PY - 2000 DA - 2000// TI - Gene ontology: tool for the unification of biology. The Gene Ontology Consortium JO - Nature Genetics VL - 25 UR - https://doi.org/10.1038/75556 DO - 10.1038/75556 ID - Ashburner2000 ER - TY - JOUR AU - Nariai, N. AU - Kolaczyk, E. D. AU - Kasif, S. PY - 2007 DA - 2007// TI - Probabilistic Protein Function Prediction from Heterogenous Genome-Wide Data JO - PLoS ONE VL - 2 UR - https://doi.org/10.1371/journal.pone.0000337 DO - 10.1371/journal.pone.0000337 ID - Nariai2007 ER - TY - JOUR AU - Maraziotis, I. AU - Dimitrakopoulou, K. AU - Bezerianos, A. PY - 2008 DA - 2008// TI - An in silico method for detecting overlapping functional modules from composite biological networks JO - BMC Systems Biology VL - 2 UR - https://doi.org/10.1186/1752-0509-2-93 DO - 10.1186/1752-0509-2-93 ID - Maraziotis2008 ER - TY - JOUR AU - Neal, R. M. PY - 2000 DA - 2000// TI - Markov Chain Sampling Methods for Dirichlet Process Mixture Models JO - Journal of Computational and Graphical Statistics VL - 9 ID - Neal2000 ER - TY - JOUR AU - O'Rourke, S. AU - Herskowitz, I. PY - 2004 DA - 2004// TI - Unique and redundant roles for Hog MAPK pathway components as revealed by whole-genome expression analysis JO - Molecular Biology of the Cell VL - 15 UR - https://doi.org/10.1091/mbc.E03-07-0521 DO - 10.1091/mbc.E03-07-0521 ID - O'Rourke2004 ER - TY - JOUR AU - Gasch, A. AU - Huang, M. AU - Metzner, S. AU - Botstein, D. AU - Elledge, S. PY - 2001 DA - 2001// TI - Genomic expression responses to DNA-damaging agents and the regulatory role of the yeast ATR homolog Mec1p JO - Molecular Biology of the Cell VL - 12 UR - https://doi.org/10.1091/mbc.12.10.2987 DO - 10.1091/mbc.12.10.2987 ID - Gasch2001 ER - TY - JOUR AU - Troyanskaya, O. AU - Cantor, M. AU - Sherlock, G. AU - Brown, P. AU - Hastie, T. AU - Tibshirani, R. AU - Botstein, D. AU - Altman, R. B. PY - 2001 DA - 2001// TI - Missing value estimation methods for DNA microarrays JO - Bioinformatics VL - 17 UR - https://doi.org/10.1093/bioinformatics/17.6.520 DO - 10.1093/bioinformatics/17.6.520 ID - Troyanskaya2001 ER - TY - CHAP AU - Güldener, U. AU - Münsterkötter, M. AU - Kastenmüller, G. AU - Strack, N. AU - van Helden, J. AU - Lemer, C. AU - Richelles, J. AU - Wodak, S. J. AU - Garcia-Martinez, J. AU - Perez-Ortin, J. E. AU - Michael, H. AU - Kaps, A. AU - Talla, E. AU - Dujon, B. AU - Andre, B. AU - Souciet, J. L. AU - Montigny, J. D. AU - Bon, E. AU - Gaillardin, C. AU - Mewes, H. W. PY - 2005 DA - 2005// TI - CYGD: the Comprehensive Yeast Genome Database BT - Nucleic Acids Research ID - Güldener2005 ER - TY - JOUR AU - Meilă, M. PY - 2007 DA - 2007// TI - Comparing clusterings--an information based distance JO - Journal of Multivariate Analysis VL - 98 UR - https://doi.org/10.1016/j.jmva.2006.11.013 DO - 10.1016/j.jmva.2006.11.013 ID - Meilă2007 ER - TY - JOUR AU - Rivals, I. AU - Personnaz, L. AU - Taing, L. AU - Potier, M. C. C. PY - 2007 DA - 2007// TI - Enrichment or depletion of a GO category within a class of genes: which test? JO - Bioinformatics VL - 23 UR - https://doi.org/10.1093/bioinformatics/btl633 DO - 10.1093/bioinformatics/btl633 ID - Rivals2007 ER -