Searching for repetitions in biological networks: methods, resources and tools
نویسندگان
چکیده
منابع مشابه
Searching for repetitions in biological networks: methods, resources and tools
We present here a compact overview of the data, models and methods proposed for the analysis of biological networks based on the search for significant repetitions. In particular, we concentrate on three problems widely studied in the literature: 'network alignment', 'network querying' and 'network motif extraction'. We provide (i) details of the experimental techniques used to obtain the main ...
متن کاملSupplementary Material for Searching for repetitions in biological networks: methods, resources and tools
The graph in Figure S1 is undirected, since the edges have no orientation. If it is necessary to specify the orientation of edges, then the graph is directed and this is graphically represented by inserting arrows on the edges, having (x, y) to denote a strictly ordered pair, such that x corresponds to the tail and y to the head of the arrow. The degree of a vertex is the number of edges that c...
متن کاملManaging Water Resources: Methods and Tools for a Systems Approach
Water resources systems management practice around the world is challenged by serious problems. Climate change and land use change are increasingly recognized as having the major impact on hydrologic variables and therefore on management of water resources. Certainly, the profession has been slow to acknowledge these changes, and that fundamentally new approaches will be required to address the...
متن کاملTools for visual analysis of biological networks
The trend in tools for visualization and analysis of cell pathways is to go beyond small-scale static depictions of pathways and towards large-scale networks capturing cellular dynamics. Such tools attempt to construct pathways automatically and integrate data from large datasets in genomics, proteomics and transcriptomics to give a more meaningful representation of cell activity. We look at te...
متن کاملTools for visually exploring biological networks
UNLABELLED Many tools exist for visually exploring biological networks including well-known examples such as Cytoscape, VisANT, Pathway Studio and Patika. These systems play a key role in the development of integrative biology, systems biology and integrative bioinformatics. The trend in the development of these tools is to go beyond 'static' representations of cellular state, towards a more dy...
متن کاملذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
ژورنال
عنوان ژورنال: Briefings in Bioinformatics
سال: 2013
ISSN: 1467-5463,1477-4054
DOI: 10.1093/bib/bbt084