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CANDC
2006
ACM
11 years 8 months ago
A comment on "Prediction of protein structural classes by a new measure of information discrepancy"
Protein structural class describes the overall folding type of a protein or its domain. A number of methods were developed to predict protein structural class based on its primary...
Kanaka Durga Kedarisetti, Lukasz A. Kurgan, Scott ...
CANDC
2006
ACM
11 years 8 months ago
Hydrophobic collapse in (in silico) protein folding
A model of hydrophobic collapse, which is treated as the driving force for protein folding, is presented. This model is the superposition of three models commonly used in protein ...
Michal Brylinski, Leszek Konieczny, Irena Roterman
CANDC
2006
ACM
11 years 8 months ago
Dealing with repetitions in sequencing by hybridization
DNA sequencing by hybridization (SBH) induces errors in the biochemical experiment. Some of them are random and disappear when the experiment is repeated. Others are systematic, i...
Jacek Blazewicz, Fred Glover, Marta Kasprzak, Wojc...
CANDC
2006
ACM
11 years 8 months ago
Prediction of protein subcellular location using hydrophobic patterns of amino acid sequence
The function of eukaryotic protein is closely correlated with its subcellular location. The number of newly found protein sequences entering into data banks is rapidly increasing ...
Tongliang Zhang, Yongsheng Ding, Kuo-Chen Chou
CANDC
2006
ACM
11 years 8 months ago
Unraveling the nature of the segmentation clock: Intrinsic disorder of clock proteins and their interaction map
Vertebrate segmentation has been proved to be under a strict temporal control governed by a biological clock, known as the segmentation clock. The present experimental evidence su...
Sourav Roy, Santiago Schnell, Predrag Radivojac
CANDC
2006
ACM
11 years 8 months ago
Identification of functional modules in a PPI network by clique percolation clustering
Large-scale experiments and data integration have provided the opportunity to systematically analyze and comprehensively understand the topology of biological networks and biochem...
Shi-Hua Zhang, Xue-Mei Ning, Xiang-Sun Zhang
CANDC
2006
ACM
11 years 8 months ago
Detecting and aligning peaks in mass spectrometry data with applications to MALDI
In this paper, we address the peak detection and alignment problem in the analysis of mass spectrometry data. To deal with the peak redundancy problem existing in the MALDI data a...
Weichuan Yu, Baolin Wu, Ning Lin, Kathy Stone, Ken...
CANDC
2006
ACM
11 years 8 months ago
Why substrate depletion has apparent first-order kinetics in enzymatic digestion
A number of enzyme digestion assays show apparent first-order kinetics of reactant depletion. There are four possible explanations of this phenomenon: (i) the reaction is dominate...
Jeyaraman Srividhya, Santiago Schnell
CANDC
2006
ACM
11 years 8 months ago
An RNA folding algorithm including pseudoknots based on dynamic weighted matching
On the basis of maximum weighted matching (MWM) algorithm, we introduced a dynamic weight related with stem length and used a recursive algorithm to predict RNA secondary structur...
Haijun Liu, Dong Xu, Jianlin Shao, Yifei Wang
CANDC
2006
ACM
11 years 8 months ago
Predicting O-glycosylation sites in mammalian proteins by using SVMs
O-glycosylation is one of the most important, frequent and complex post-translational modifications. This modification can activate and affect protein functions. Here, we present ...
Sujun Li, Boshu Liu, Rong Zeng, Yu-Dong Cai, Yixue...
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