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NAR
2011
191views Computer Vision» more  NAR 2011»
8 years 2 months ago
ConsensusPathDB: toward a more complete picture of cell biology
ConsensusPathDB is a meta-database that integrates different types of functional interactions from heterogeneous interaction data resources. Physical protein interactions, metabol...
Atanas Kamburov, Konstantin Pentchev, Hanna Galick...
NAR
2011
234views Computer Vision» more  NAR 2011»
8 years 2 months ago
The UCSC cancer genomics browser: update 2011
The UCSC Cancer Genomics Browser (https:// genome-cancer.ucsc.edu) comprises a suite of web-based tools to integrate, visualize and analyze cancer genomics and clinical data. The ...
J. Zachary Sanborn, Stephen C. Benz, Brian Craft, ...
BMCBI
2011
8 years 3 months ago
Fusion of metabolomics and proteomics data for biomarkers discovery: case study on the experimental autoimmune encephalomyelitis
Background: Analysis of Cerebrospinal Fluid (CSF) samples holds great promise to diagnose neurological pathologies and gain insight into the molecular background of these patholog...
Lionel Blanchet, Agnieszka Smolinska, Amos Attali,...
SIGMETRICS
2008
ACM
130views Hardware» more  SIGMETRICS 2008»
8 years 11 months ago
Using probabilistic model checking in systems biology
Probabilistic model checking is a formal verification framework for systems which exhibit stochastic behaviour. It has been successfully applied to a wide range of domains, includ...
Marta Z. Kwiatkowska, Gethin Norman, David Parker
ENTCS
2007
119views more  ENTCS 2007»
8 years 11 months ago
PML: Toward a High-Level Formal Language for Biological Systems
Documentation of knowledge about biological pathways is often informal and vague, making it difficult to efficiently synthesize the work of others into a holistic understanding of...
Bor-Yuh Evan Chang, Manu Sridharan
IJBRA
2008
88views more  IJBRA 2008»
8 years 12 months ago
GOSAP: Gene Ontology-Based Semantic Alignment of Biological Pathways
A large number of biological pathways have been assembled in later years, and are being stored in databases. Hence, the need for methods to analyse these pathways has emerged. One ...
Jonas Gamalielsson, Björn Olsson
BMCBI
2008
91views more  BMCBI 2008»
8 years 12 months ago
Presenting and exploring biological pathways with PathVisio
nd: Biological pathways are a useful abstraction of biological concepts, and software tools to deal with pathway diagrams can help biological research. PathVisio is a new visualiz...
Martijn P. van Iersel, Thomas Kelder, Alexander R....
BMCBI
2007
157views more  BMCBI 2007»
8 years 12 months ago
Improving gene set analysis of microarray data by SAM-GS
Background: Gene-set analysis evaluates the expression of biological pathways, or a priori defined gene sets, rather than that of individual genes, in association with a binary ph...
Irina Dinu, John D. Potter, Thomas Mueller, Qi Liu...
BMCBI
2008
155views more  BMCBI 2008»
8 years 12 months ago
ComPath: comparative enzyme analysis and annotation in pathway/subsystem contexts
Background: Once a new genome is sequenced, one of the important questions is to determine the presence and absence of biological pathways. Analysis of biological pathways in a ge...
Kwangmin Choi, Sun Kim
BIOINFORMATICS
2007
117views more  BIOINFORMATICS 2007»
8 years 12 months ago
Mining biological networks for unknown pathways
Biological pathways provide significant insights on the interaction mechanisms of molecules. Presently, many essential pathways still remain unknown or incomplete for newly sequen...
Ali Cakmak, Gultekin Özsoyoglu
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