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Revealing modularity and organization in the yeast molecular network by integrated analysis of highly heterogeneous genomewide data

, : Revealing modularity and organization in the yeast molecular network by integrated analysis of highly heterogeneous genomewide data. Proceedings of the National Academy of Sciences of the United States of America 101(9): 2981-2986

The dissection of complex biological systems is a challenging task, made difficult by the size of the underlying molecular network and the heterogeneous nature of the control mechanisms involved. Novel high-throughput techniques are generating massive data sets on various aspects of such systems. Here, we perform analysis of a highly diverse collection of genomewide data sets, including gene expression, protein interactions, growth phenotype data, and transcription factor binding, to reveal the modular organization of the yeast system. By integrating experimental data of heterogeneous sources and types, we are able to perform analysis on a much broader scope than previous studies. At the core of our methodology is the ability to identify modules, namely, groups of genes with statistically significant correlated behavior across diverse data sources. Numerous biological processes are revealed through these modules, which also obey global hierarchical organization. We use the identified modules to study the yeast transcriptional network and predict the function of >800 uncharacterized genes. Our analysis framework, SAMBA (Statistical-Algorithmic Method for Bicluster Analysis), enables the processing of current and future sources of biological information and is readily extendable to experimental techniques and higher organisms.


PMID: 14973197

DOI: 10.1073/pnas.0308661100

Other references

Langhans, W., 1997: The anorectic effect of bacterial cell wall compounds - mechanisms and clinical implications. The aims were to study food and general neophobia in Swedish families, age and gender differences and familial resemblance. Also, the relationships between the level of food neophobia of individual family members and earlier experience with and th...

Pabuccu, E.G.; Seval, M.; Sonmezer, M.; Atabekoglu, C., 2016: Laparoscopic Management of Juvenile Cystic Adenomyoma. Journal of Minimally Invasive Gynecology 22(6s): S141-S141

Grover, P., 1968: A new grass midge belonging to the genus Tristephanus Kieffer. Cecidologia Indica, 3: 165-170

Mann, R.A.; Rudicel, S.; Graves, S.C., 1992: Repair of hallux valgus with a distal soft-tissue procedure and proximal metatarsal osteotomy. A long-term follow-up. We retrospectively reviewed the results for seventy-five patients (109 feet) in whom a hallux valgus deformity had been corrected with the release of the distal soft tissues, excision of the medial eminence, plication of the medial part of the cap...

Groot, E.H., 1942: The nutritive value of potato proteins. Potato protein (tuberin), isolated from potatoes by means of heat coagulation of the press-juice, was tested for its nutritive value by feeding it to rats in a diet containing all other nutrients in optimum amts. In most instances, growth on a com...

Toledo, J.B.; Arnold, M.; Kastenmüller, G.; Chang, R.; Baillie, R.A.; Han, X.; Thambisetty, M.; Tenenbaum, J.D.; Suhre, K.; Thompson, J.Will.; John-Williams, L.St.; MahmoudianDehkordi, S.; Rotroff, D.M.; Jack, J.R.; Motsinger-Reif, A.; Risacher, S.L.; Blach, C.; Lucas, J.E.; Massaro, T.; Louie, G.; Zhu, H.; Dallmann, G.; Klavins, K.; Koal, T.; Kim, S.; Nho, K.; Shen, L.; Casanova, R.; Varma, S.; Legido-Quigley, C.; Moseley, M.Arthur.; Zhu, K.; Henrion, M.Y.R.; van der Lee, S.J.; Harms, A.C.; De, 2017: Metabolic network failures in Alzheimer's disease: A biochemical road map. The Alzheimer's Disease Research Summits of 2012 and 2015 incorporated experts from academia, industry, and nonprofit organizations to develop new research directions to transform our understanding of Alzheimer's disease (AD) and propel...

Kraft, E., 1966: Critical comment on reinforcements in acrylic resin prosthesis. Deutsche Zahnarztliche Zeitschrift 21(8): 890-894

Zhang, L.; Tang, Y.; Yang, Y.; Fu, P., 2013: Myoglobin clearance by continuous venous-venous haemofiltration in rhabdomyolysis with acute kidney injury: reply to letter. Injury 43(7): 1221-1222

Aruscavage Phillip J., 1996: Chloride by ion-selective electrode following KMnO (sub 4) -H (sub 2) SO (sub 4) -HF dissolution. Open-File Report - U S

Yamaguchi, T.; Fujita, K.; Sakai, K., 1999: Biological activity of extracts from Cupressus lusitanica cell culture. Ethyl acetate extracts of Cupressus lusitanica suspension cell cultures were examined for their biological activities (viz., tyrosinase inhibitory, antioxidant, and antimicrobial activities). The extract from elicitor-treated cells showed all of t...