Network motifs in the transcriptional regulation network of Escherichia coli. Export

@article{citeulike:307461, abstract = {Little is known about the design principles of transcriptional regulation networks that control gene expression in cells. Recent advances in data collection and analysis, however, are generating unprecedented amounts of information about gene regulation networks. To understand these complex wiring diagrams, we sought to break down such networks into basic building blocks. We generalize the notion of motifs, widely used for sequence analysis, to the level of networks. We define 'network motifs' as patterns of interconnections that recur in many different parts of a network at frequencies much higher than those found in randomized networks. We applied new algorithms for systematically detecting network motifs to one of the best-characterized regulation networks, that of direct transcriptional interactions in Escherichia coli. We find that much of the network is composed of repeated appearances of three highly significant motifs. Each network motif has a specific function in determining gene expression, such as generating temporal expression programs and governing the responses to fluctuating external signals. The motif structure also allows an easily interpretable view of the entire known transcriptional network of the organism. This approach may help define the basic computational elements of other biological networks.}, author = {Shen-Orr, Shai S. and Milo, Ron and Mangan, Shmoolik and Alon, Uri}, citeulike-article-id = {307461}, citeulike-linkout-0 = {http://dx.doi.org/10.1038/ng881}, citeulike-linkout-1 = {http://dx.doi.org/10.1038/ng881}, citeulike-linkout-2 = {http://view.ncbi.nlm.nih.gov/pubmed/11967538}, citeulike-linkout-3 = {http://www.hubmed.org/display.cgi?uids=11967538}, day = {22}, doi = {10.1038/ng881}, issn = {1061-4036}, journal = {Nature genetics}, keywords = {ecoli, networks, regulation}, month = {May}, number = {1}, pages = {64--68}, posted-at = {2006-05-04 12:43:01}, priority = {2}, publisher = {Nature Publishing Group}, title = {Network motifs in the transcriptional regulation network of Escherichia coli.}, url = {http://dx.doi.org/10.1038/ng881}, volume = {31}, year = {2002} }

TY - JOUR ID - citeulike:307461 L3 - citeulike-article-id:307461 N2 - Little is known about the design principles of transcriptional regulation networks that control gene expression in cells. Recent advances in data collection and analysis, however, are generating unprecedented amounts of information about gene regulation networks. To understand these complex wiring diagrams, we sought to break down such networks into basic building blocks. We generalize the notion of motifs, widely used for sequence analysis, to the level of networks. We define 'network motifs' as patterns of interconnections that recur in many different parts of a network at frequencies much higher than those found in randomized networks. We applied new algorithms for systematically detecting network motifs to one of the best-characterized regulation networks, that of direct transcriptional interactions in Escherichia coli. We find that much of the network is composed of repeated appearances of three highly significant motifs. Each network motif has a specific function in determining gene expression, such as generating temporal expression programs and governing the responses to fluctuating external signals. The motif structure also allows an easily interpretable view of the entire known transcriptional network of the organism. This approach may help define the basic computational elements of other biological networks. IS - 1 JF - Nature genetics SN - 1061-4036 EP - 68 TI - Network motifs in the transcriptional regulation network of Escherichia coli. PB - Nature Publishing Group VL - 31 SP - 64 KW - ecoli KW - networks KW - regulation AU - Shen-Orr, Shai AU - Milo, Ron AU - Mangan, Shmoolik AU - Alon, Uri PY - 2002/05/22/ UR - http://dx.doi.org/10.1038/ng881 ER -