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» Information Extraction as Link Prediction: Using Curated Cit...
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WASA
2009
Springer
189views Algorithms» more  WASA 2009»
13 years 11 months ago
Information Extraction as Link Prediction: Using Curated Citation Networks to Improve Gene Detection
Abstract. In this paper we explore the usefulness of various types of publicationrelated metadata, such as citation networks and curated databases, for the task of identifying gene...
Andrew Arnold, William W. Cohen
BMCBI
2011
12 years 8 months ago
Reconstructing genome-wide regulatory network of E. coli using transcriptome data and predicted transcription factor activities
Background: Gene regulatory networks play essential roles in living organisms to control growth, keep internal metabolism running and respond to external environmental changes. Un...
Yao Fu, Laura R. Jarboe, Julie A. Dickerson
BMCBI
2010
136views more  BMCBI 2010»
13 years 4 months ago
A hub-attachment based method to detect functional modules from confidence-scored protein interactions and expression profiles
Background: Many research results show that the biological systems are composed of functional modules. Members in the same module usually have common functions. This is useful inf...
Chia-Hao Chin, Shu-Hwa Chen, Chin-Wen Ho, Ming-Tat...
BMCBI
2010
191views more  BMCBI 2010»
13 years 4 months ago
BiGG: a Biochemical Genetic and Genomic knowledgebase of large scale metabolic reconstructions
Background: Genome-scale metabolic reconstructions under the Constraint Based Reconstruction and Analysis (COBRA) framework are valuable tools for analyzing the metabolic capabili...
Jan Schellenberger, Junyoung O. Park, Tom M. Conra...
CIKM
2009
Springer
13 years 11 months ago
Completing wikipedia's hyperlink structure through dimensionality reduction
Wikipedia is the largest monolithic repository of human knowledge. In addition to its sheer size, it represents a new encyclopedic paradigm by interconnecting articles through hyp...
Robert West, Doina Precup, Joelle Pineau