Computing topological parameters of biological networks.

Computing topological parameters of biological networks. Research Abstract Details 

Research Abstract Table of Contents

Jump to the:

Computing topological parameters of biological networks. Abstract Text:

Yassen Assenov,Fidel ,Sven-Eric Schelhorn,Thomas Lengauer,Mario Albrecht,Yassen Assenov,Fidel Ramírez,Sven-Eric Schelhorn,Thomas Lengauer,Mario Albrecht,

Rapidly increasing amounts of molecular interaction data are being produced by various experimental techniques and computational prediction methods. In order to gain insight into the organization and structure of the resultant large complex networks formed by the interacting molecules, we have developed the versatile Cytoscape plugin NetworkAnalyzer. It computes and displays a comprehensive set of topological parameters, which includes the number of nodes, edges, and connected components, the network diameter, radius, density, centralization, heterogeneity, and clustering coefficient, the characteristic path length, and the distributions of node degrees, neighborhood connectivities, average clustering coefficients, and shortest path lengths. NetworkAnalyzer can be applied to both directed and undirected networks and also contains extra functionality to construct the intersection or union of two networks. It is an interactive and highly customizable application that requires no expert knowledge in graph theory from the user. AVAILABILITY: NetworkAnalyzer can be downloaded via the Cytoscape web site: http://www.cytoscape.org

Computing topological parameters of biological networks. Publishing Authors By Initials

Y Assenov,F ,SE Schelhorn,T Lengauer,M Albrecht,Y Assenov,F Ramírez,SE Schelhorn,T Lengauer,M Albrecht,

For similar abstracts research abstracts see: abstracts research

PUBMED ID PMID:

MEDLINE DATE:

Computing topological parameters of biological networks. Journal Published:

PUBLICATION TYPE: Research Support, Non-U.S. Gov

Journal: Bioinformatics (Oxford, England)

VOLUME: 24

Page Numbers: 282-4

Journal Abbreviation: Bioinformatics

ISSN: 1460-2059

DAY: 15

MONTH: 11

YEAR: 2007

Computing topological parameters of biological networks. Information

Number of References:

LANGUAGE: eng

NlmUniqueID: 9808944

Computing topological parameters of biological networks. Keywords Mesh Terms:

KEYWORDS:

MESH TERMS:

Chemical & Substance for Abstract: Computing topological parameters of biological networks. Information

Substance Name:

Registry Number:

Grant and Affiliation Information for Computing topological parameters of biological networks.

AFFILIATION: Department of Computational Biology and Applied Algorithmics, Max Planck Institute for Informatics, Stuhlsatzenhausweg 85, 66123 Saarbrücken, Germany.

Country: England

AGENCY:

GRANT:

ACRONYM:

MEDLINETA: Bioinformatics

REFSOURCE:

DATABASENAME:

ACCESSION NUMBER:

Number Hits: 0

Computing topological parameters of biological networks Related Publications

• Actin plays a crucial role in the phagocytosis and biological response to respirable quartz particles in macrophages.
• Alkynes as masked ylides: Gold-catalysed intermolecular reactions of propargylic carboxylates with sulfides.
• Changes in the slope of the CD4 cell count increase after initiation of potent antiretroviral treatment.
• Classification of systems and methods used in biological basic research on homeopathy.
• Cyclic GMP in blood and minimal hepatic encephalopathy: fine-tuning of the diagnosis.
• Developmental expression of cell cycle regulators in the baboon fetal adrenal gland.
• Differential expression of placental villous angiopoietin-1 and -2 during early, mid and late baboon pregnancy.
• Disruption of mCry2 restores circadian rhythmicity in mPer2 mutant mice.
• EEG variables as measures of arousal during propofol anaesthesia for general surgery in children: rational selection and age dependence.
• Effect of feeding cows genetically modified maize on the bacterial community in the bovine rumen.
• Fluorescence quenching by colloidal heavy metals nanoparticles: implications for correlative fluorescence and electron microscopy studies.
• Hyperammonemia inhibits the natriuretic peptide receptor 2 (NPR-2)-mediated cyclic GMP synthesis in the astrocytic compartment of rat cerebral cortex slices.
• Information seeking during "bad news" oncology interactions: Question asking by patients and their companions.
• Mid-term results of ross procedure: our limited experience.
• Multiple correlative immunolabeling for light and electron microscopy using fluorophores and colloidal metal particles.
• Orchestration of gene expression and physiology by the circadian clock.
• Parent communication and child pain and distress during painful pediatric cancer treatments.
• Patient-physician communication barriers regarding fertility preservation among newly diagnosed cancer patients.
• Per2 has time on its side.
• Placental villous vascular endothelial growth factor expression and vascularization after estrogen suppression during the last two-thirds of baboon pregnancy.
• Proving and therapeutic experiments in the HomBRex basic homeopathy research database.
• Regulation of expression and localisation of the Na+/H+ exchanger (NHE) 3 and the NHE regulatory factor 2 in baboon placental syncytiotrophoblast by oestrogen.
• Robust circadian rhythmicity of Per1 and Per2 mutant mice in constant light, and dynamics of Per1 and Per2 gene expression under long and short photoperiods.
• Stabilization of p53 in human cytomegalovirus-initiated cells is associated with sequestration of HDM2 and decreased p53 ubiquitination.
• The circadian clock as a molecular calendar.
• The circadian clock: a manager of biochemical processes within the organism.
• The clock gene Per2 influences the glutamatergic system and modulates alcohol consumption.
• [Not Available.]
• [Nutrition and metabolism under extreme conditions at high altitudes]
• cGMP-dependent protein kinase II modulates mPer1 and mPer2 gene induction and influences phase shifts of the circadian clock.