scholarly journals Prediction of Extracellular Matrix Proteins by Fusing Multiple Feature Information, Elastic Net, and Random Forest Algorithm

Mathematics ◽  
2020 ◽  
Vol 8 (2) ◽  
pp. 169 ◽  
Author(s):  
Minghui Wang ◽  
Lingling Yue ◽  
Xiaowen Cui ◽  
Cheng Chen ◽  
Hongyan Zhou ◽  
...  

Extracellular matrix (ECM) proteins play an important role in a series of biological processes of cells. The study of ECM proteins is helpful to further comprehend their biological functions. We propose ECMP-RF (extracellular matrix proteins prediction by random forest) to predict ECM proteins. Firstly, the features of the protein sequence are extracted by combining encoding based on grouped weight, pseudo amino-acid composition, pseudo position-specific scoring matrix, a local descriptor, and an autocorrelation descriptor. Secondly, the synthetic minority oversampling technique (SMOTE) algorithm is employed to process the class imbalance data, and the elastic net (EN) is used to reduce the dimension of the feature vectors. Finally, the random forest (RF) classifier is used to predict the ECM proteins. Leave-one-out cross-validation shows that the balanced accuracy of the training and testing datasets is 97.3% and 97.9%, respectively. Compared with other state-of-the-art methods, ECMP-RF is significantly better than other predictors.

2013 ◽  
Vol 317 ◽  
pp. 377-383 ◽  
Author(s):  
Krishna Kumar Kandaswamy ◽  
Ganesan Pugalenthi ◽  
Kai-Uwe Kalies ◽  
Enno Hartmann ◽  
Thomas Martinetz

1999 ◽  
Vol 67 (5) ◽  
pp. 2649-2652 ◽  
Author(s):  
Margaret E. Bauer ◽  
Stanley M. Spinola

ABSTRACT We developed an enzyme-linked immunosorbent assay-based assay to assess Haemophilus ducreyi binding to extracellular matrix (ECM) proteins. H. ducreyi 35000HP bound to fibronectin, laminin, and type I and III collagen but not to type IV, V, or VI collagen or elastin. Isogenic strains with mutations inftpA or losB bound as well as the parent, suggesting that neither pili nor full-length lipooligosaccharide is required for H. ducreyi to bind to ECM proteins.


2004 ◽  
Vol 216 (03) ◽  
Author(s):  
U Schüller ◽  
W Hartmann ◽  
A Koch ◽  
K Schilling ◽  
OD Wiestler ◽  
...  

2017 ◽  
Vol 12 (4) ◽  
Author(s):  
Imran Naseem ◽  
Shujaat Khan ◽  
Roberto Togneri ◽  
Mohammed Bennamoun

1990 ◽  
Vol 265 (29) ◽  
pp. 17837-17843 ◽  
Author(s):  
K Elenius ◽  
M Salmivirta ◽  
P Inki ◽  
M Mali ◽  
M Jalkanen

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