SNP site-drug association prediction algorithm based on denoising variational auto-encoder

Single nucletide polymorphism(SNP)is an important factor for the study of genetic variation in human families and animal and plant strains.Therefore,it is widely used in the study of population genetics and disease related gene.In pharmacogenomics research,identifying the association between SNP site and drug is the key to clinical precision medication,therefore,a predictive model of SNP site and drug association based on denoising variational auto-encoder(DVAE-SVM)is proposed.Firstly,k-mer algorithm is used to construct the initial SNP site feature vector,meanwhile,MACCS molecular fingerprint is introduced to generate the feature vector of the drug module.Then,we use the DVAE to extract the effective features of the initial feature vector of the SNP site.Finally,the effective feature vector of the SNP site and the feature vector of the drug module are fused input to the support vector machines(SVM)to predict the relationship of SNP site and drug module.The results of five-fold cross-validation experiments indicate that the proposed algorithm performs better than random forest(RF)and logistic regression(LR)classification.Further experiments show that compared with the feature extraction algorithms of principal component analysis(PCA),denoising auto-encoder(DAE)and variational auto-encode(VAE),the proposed algorithm has better prediction results.

Comments on:Perioperative von Willebrand factor dynamics are associated with liver regeneration and predict outcome after liver resection

Recentlythearticle"PerioperativevonWillebrandfactordynamics are associated with liver regeneration and predict outcome afterliver resection" was published in Hepatology[1].Prof.Starlinger et al. aimed to assess the association of von Willebrand factor (vWF) levels and clinical outcome in patients with liver cancers post-liverresection(LR).Basedonthemechanismthatplatelets accumulation in the liver may promote liver regeneration after partial LR in mice, they found the vWF-dependent pattern of platelets accumulationduringliverregenerationinpatientsaftersurgery.

Predictive risk factors associated with prolonged stay in the intensive care unit for patients undergoing coronary artery bypass grafting surgery

Objective The rate of post-operative complications has been increased with the changes in patients’age,prolonged duration,more severe and diffused lesions,and more patients with complications in recent years. We try to identify the risk factors associated with prolonged stay in the intensive care unit (ICU) after coronary artery bypass graft surgery (CABG) . Methods 1623 patients who received CABG surgery in Beijing Anzhen Hospital

Progress on the Key Technology Development in Application of Ensemble Prediction Products Associated with TIGGE

This project is supported by the 2007 R ＆ D Special Fund for Public Welfare by Ministry of Science and Technology and Ministry of Finance.Research tasks in this project are proposed based on the implementation plan of the＂THORPEX（The Observing System Research and Predictability Experiment） Interactive Grand Global Ensemble（TIGGE）＂,a sub-project of the THORPEX international program.