Computational Systems Biology Methods and Protocols.7z
modules showed relatively high expression in blood and brain tissue. Zhou et al. [69] used computational method to analysis of l ...
computational approaches for lncRNA-disease interaction predic- tion. Although these methods have achieved a great success in th ...
Substructures. Complexity 2017 (2017), Arti- cle ID 2713280 Chen Q, Chen P, Zhang C (2016) Effective classification of conserve ...
discovery platform for the dynamical explora- tion of human diseases and their genes. Data- base 2015(3):bav028 Volders PJ, Hel ...
using positive-unlabeled learning. Neurocom- puting 206(C):50–57 Liu J, Li M, Lan W, Wu FX, Pan Y, Wang J (2016) Classification ...
Chapter 13 Survey of Computational Approaches for Prediction of DNA-Binding Residues on Protein Surfaces Yi Xiong, Xiaolei Zhu, ...
evolution [8]. The second category of methods employs various machine learning techniques such as logistic regression, neural ne ...
protein multimer in the absence of DNA. A surface residue is labeled as a binding residue if it satisfies one of the three defin ...
window or patch is constructed as follows: for each surface residue, its distances by their alpha C atoms with all other surface ...
B-factors for the selected chain, respectively. In our previous studies, the average values of theB-factors of 20 types of resid ...
indicated that DNA-binding residues are distinguishable from the nonbinding residues on protein surfaces by their higher weighte ...
4.4 Model Validation and Evaluation When a prediction model is constructed by one type of classification algorithms, it requires ...
out cross-validation (LOOCV) involves using a single instance (or sample) from the sample set as the validation data and the rem ...
of performance of an algorithm. Instead, the precision-recall (PR) curve is a plot of the recall versus precision for a binary c ...
Ahmad S, Keskin O, Sarai A, Nussinov R (2008) Protein-DNA interactions: structural, thermodynamic and clustering patterns of co ...
Ofran Y, Mysore V, Rost B (2007) Prediction of DNA-binding residues from sequence. Bio- informatics 23(13):I347–I353 Hwang S, G ...
site on protein molecular surfaces. Bioinfor- matics 21(8):1721–1723 Ozbek P, Soner S, Erman B, Haliloglu T (2010) DNABINDPROT: ...
Chapter 14 Computational Prediction of Protein O-GlcNAc Modification Cangzhi Jia and Yun Zuo Abstract Protein O-GlcNAcylation on ...
in the past several years, it remains likely that only a small portion of the O-GlcNAcylation proteins have been discovered. Eve ...
protein O-GlcNAcylation sites with respect to their datasets, fea- ture extraction methods, and classifier algorithms. We also d ...
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