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BMCBI
2008
68views more  BMCBI 2008»
13 years 11 months ago
GraphCrunch: A tool for large network analyses
Tijana Milenkovic, Jason Lai, Natasa Przulj
BMCBI
2008
146views more  BMCBI 2008»
13 years 11 months ago
Can molecular dynamics simulations help in discriminating correct from erroneous protein 3D models?
Background: Recent approaches for predicting the three-dimensional (3D) structure of proteins such as de novo or fold recognition methods mostly rely on simplified energy potentia...
Jean-François Taly, Antoine Marin, Jean-Fra...
BMCBI
2008
95views more  BMCBI 2008»
13 years 11 months ago
Identification and correction of abnormal, incomplete and mispredicted proteins in public databases
Background: Despite significant improvements in computational annotation of genomes, sequences of abnormal, incomplete or incorrectly predicted genes and proteins remain abundant ...
Alinda Nagy, Hédi Hegyi, Krisztina Farkas, ...
BMCBI
2008
160views more  BMCBI 2008»
13 years 11 months ago
VariVis: a visualisation toolkit for variation databases
Background: With the completion of the Human Genome Project and recent advancements in mutation detection technologies, the volume of data available on genetic variations has rise...
Timothy D. Smith, Richard G. H. Cotton
BMCBI
2008
145views more  BMCBI 2008»
13 years 11 months ago
Mapping gene expression quantitative trait loci by singular value decomposition and independent component analysis
Background: The combination of gene expression profiling with linkage analysis has become a powerful paradigm for mapping gene expression quantitative trait loci (eQTL). To date, ...
Shameek Biswas, John D. Storey, Joshua M. Akey
BMCBI
2008
116views more  BMCBI 2008»
13 years 11 months ago
The combination approach of SVM and ECOC for powerful identification and classification of transcription factor
Background: Transcription factors (TFs) are core functional proteins which play important roles in gene expression control, and they are key factors for gene regulation network co...
Guangyong Zheng, Ziliang Qian, Qing Yang, Chaochun...
BMCBI
2008
167views more  BMCBI 2008»
13 years 11 months ago
Not proper ROC curves as new tool for the analysis of differentially expressed genes in microarray experiments
Background: Most microarray experiments are carried out with the purpose of identifying genes whose expression varies in relation with specific conditions or in response to enviro...
Stefano Parodi, Vito Pistoia, Marco Muselli
BMCBI
2008
124views more  BMCBI 2008»
13 years 11 months ago
Computational identification of ubiquitylation sites from protein sequences
Background: Ubiquitylation plays an important role in regulating protein functions. Recently, experimental methods were developed toward effective identification of ubiquitylation...
Chun-Wei Tung, Shinn-Ying Ho
BMCBI
2008
146views more  BMCBI 2008»
13 years 11 months ago
Rank-based edge reconstruction for scale-free genetic regulatory networks
Background: The reconstruction of genetic regulatory networks from microarray gene expression data has been a challenging task in bioinformatics. Various approaches to this proble...
Guanrao Chen, Peter Larsen, Eyad Almasri, Yang Dai