Drug Repositioning for Schizophrenia and Depression/Anxiety Disorders: A Machine Learning Approach Leveraging Expression Data

2019 ◽  
Vol 23 (3) ◽  
pp. 1304-1315 ◽  
Author(s):  
Kai Zhao ◽  
Hon-Cheong So
PLoS ONE ◽  
2016 ◽  
Vol 11 (11) ◽  
pp. e0165524 ◽  
Author(s):  
Kimberly L. H. Carpenter ◽  
Pablo Sprechmann ◽  
Robert Calderbank ◽  
Guillermo Sapiro ◽  
Helen L. Egger

2020 ◽  
pp. 1-11
Author(s):  
Wicher A. Bokma ◽  
Paul Zhutovsky ◽  
Erik J. Giltay ◽  
Robert A. Schoevers ◽  
Brenda W.J.H. Penninx ◽  
...  

Abstract Background Disease trajectories of patients with anxiety disorders are highly diverse and approximately 60% remain chronically ill. The ability to predict disease course in individual patients would enable personalized management of these patients. This study aimed to predict recovery from anxiety disorders within 2 years applying a machine learning approach. Methods In total, 887 patients with anxiety disorders (panic disorder, generalized anxiety disorder, agoraphobia, or social phobia) were selected from a naturalistic cohort study. A wide array of baseline predictors (N = 569) from five domains (clinical, psychological, sociodemographic, biological, lifestyle) were used to predict recovery from anxiety disorders and recovery from all common mental disorders (CMDs: anxiety disorders, major depressive disorder, dysthymia, or alcohol dependency) at 2-year follow-up using random forest classifiers (RFCs). Results At follow-up, 484 patients (54.6%) had recovered from anxiety disorders. RFCs achieved a cross-validated area-under-the-receiving-operator-characteristic-curve (AUC) of 0.67 when using the combination of all predictor domains (sensitivity: 62.0%, specificity 62.8%) for predicting recovery from anxiety disorders. Classification of recovery from CMDs yielded an AUC of 0.70 (sensitivity: 64.6%, specificity: 62.3%) when using all domains. In both cases, the clinical domain alone provided comparable performances. Feature analysis showed that prediction of recovery from anxiety disorders was primarily driven by anxiety features, whereas recovery from CMDs was primarily driven by depression features. Conclusions The current study showed moderate performance in predicting recovery from anxiety disorders over a 2-year follow-up for individual patients and indicates that anxiety features are most indicative for anxiety improvement and depression features for improvement in general.


2013 ◽  
Vol 5 (1) ◽  
Author(s):  
Francesco Napolitano ◽  
Yan Zhao ◽  
Vânia M Moreira ◽  
Roberto Tagliaferri ◽  
Juha Kere ◽  
...  

Cancers ◽  
2019 ◽  
Vol 11 (10) ◽  
pp. 1562 ◽  
Author(s):  
Maurizio Polano ◽  
Marco Chierici ◽  
Michele Dal Bo ◽  
Davide Gentilini ◽  
Federica Di Cintio ◽  
...  

Immunotherapy by using immune checkpoint inhibitors (ICI) has dramatically improved the treatment options in various cancers, increasing survival rates for treated patients. Nevertheless, there are heterogeneous response rates to ICI among different cancer types, and even in the context of patients affected by a specific cancer. Thus, it becomes crucial to identify factors that predict the response to immunotherapeutic approaches. A comprehensive investigation of the mutational and immunological aspects of the tumor can be useful to obtain a robust prediction. By performing a pan-cancer analysis on gene expression data from the Cancer Genome Atlas (TCGA, 8055 cases and 29 cancer types), we set up and validated a machine learning approach to predict the potential for positive response to ICI. Support vector machines (SVM) and extreme gradient boosting (XGboost) models were developed with a 10×5-fold cross-validation schema on 80% of TCGA cases to predict ICI responsiveness defined by a score combining tumor mutational burden and TGF- β signaling. On the remaining 20% validation subset, our SVM model scored 0.88 accuracy and 0.27 Matthews Correlation Coefficient. The proposed machine learning approach could be useful to predict the putative response to ICI treatment by expression data of primary tumors.


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