Motifs, themes and thematic maps of an integrated Saccharomyces cerevisiae interaction network
نویسندگان
چکیده
BACKGROUND Large-scale studies have revealed networks of various biological interaction types, such as protein-protein interaction, genetic interaction, transcriptional regulation, sequence homology, and expression correlation. Recurring patterns of interconnection, or 'network motifs', have revealed biological insights for networks containing either one or two types of interaction. RESULTS To study more complex relationships involving multiple biological interaction types, we assembled an integrated Saccharomyces cerevisiae network in which nodes represent genes (or their protein products) and differently colored links represent the aforementioned five biological interaction types. We examined three- and four-node interconnection patterns containing multiple interaction types and found many enriched multi-color network motifs. Furthermore, we showed that most of the motifs form 'network themes' -- classes of higher-order recurring interconnection patterns that encompass multiple occurrences of network motifs. Network themes can be tied to specific biological phenomena and may represent more fundamental network design principles. Examples of network themes include a pair of protein complexes with many inter-complex genetic interactions -- the 'compensatory complexes' theme. Thematic maps -- networks rendered in terms of such themes -- can simplify an otherwise confusing tangle of biological relationships. We show this by mapping the S. cerevisiae network in terms of two specific network themes. CONCLUSION Significantly enriched motifs in an integrated S. cerevisiae interaction network are often signatures of network themes, higher-order network structures that correspond to biological phenomena. Representing networks in terms of network themes provides a useful simplification of complex biological relationships.
منابع مشابه
Network motifs in integrated cellular networks of transcription-regulation and protein-protein interaction.
Genes and proteins generate molecular circuitry that enables the cell to process information and respond to stimuli. A major challenge is to identify characteristic patterns in this network of interactions that may shed light on basic cellular mechanisms. Previous studies have analyzed aspects of this network, concentrating on either transcription-regulation or protein-protein interactions. Her...
متن کاملEffect of Saccharomyces Cerevisiae Yeast and Butyrate Monoglycerides on Performance, Blood Parameters and Nutrients Digestibility in Holstein Suckling Calves
The aim of this study was to investigate the effects of saccharomyces cerevisiae yeast and butyrate monoglycerides on the performance, blood parameters and nutrients digestibility in suckling Holstein calves. For this experiment, 32 newly-born Holstein calves (average age 1-8 days; average weight 38±1 kg) were used in a completely randomized design with 2×2 factorial arrangement, 4 treatmen...
متن کاملInteraction maps of the Saccharomyces cerevisiae ESCRT-III protein Snf7.
The Saccharomyces cerevisiae ESCRT-III protein Snf7 is part of an intricate interaction network at the endosomal membrane. Interaction maps of Snf7 were established by measuring the degree of binding of individual binding partners to putative binding motifs along the Snf7 sequence by glutathione S-transferase (GST) pulldown. For each interaction partner, distinct binding profiles were obtained....
متن کاملStudy of Iconographic Transformation of Pictorial Sample in Images of Merrkh- Bahram in Islamic Era
The study of the image of Merrīkh- Bahram in Islamic era implies both formal and thematic similarities with constellation of Barsavosh and Perseus. The three images illustrate one Man with a bare sword and severed head in his hand. This similarity raises this question that what is the relationship of these images? In other word, which image is the precedent to the later representations? This st...
متن کاملذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
عنوان ژورنال:
- Journal of Biology
دوره 4 شماره
صفحات -
تاریخ انتشار 2005