Classification and Prognosis Prediction from Histopathological Images of Hepatocellular Carcinoma by a Fully Automated Pipeline Based on Machine Learning

2020 ◽  
Vol 27 (7) ◽  
pp. 2359-2369 ◽  
Author(s):  
Haotian Liao ◽  
Tianyuan Xiong ◽  
Jiajie Peng ◽  
Lin Xu ◽  
Mingheng Liao ◽  
...  
2021 ◽  
Vol 22 (3) ◽  
pp. 1075
Author(s):  
Luca Bedon ◽  
Michele Dal Bo ◽  
Monica Mossenta ◽  
Davide Busato ◽  
Giuseppe Toffoli ◽  
...  

Although extensive advancements have been made in treatment against hepatocellular carcinoma (HCC), the prognosis of HCC patients remains unsatisfied. It is now clearly established that extensive epigenetic changes act as a driver in human tumors. This study exploits HCC epigenetic deregulation to define a novel prognostic model for monitoring the progression of HCC. We analyzed the genome-wide DNA methylation profile of 374 primary tumor specimens using the Illumina 450 K array data from The Cancer Genome Atlas. We initially used a novel combination of Machine Learning algorithms (Recursive Features Selection, Boruta) to capture early tumor progression features. The subsets of probes obtained were used to train and validate Random Forest models to predict a Progression Free Survival greater or less than 6 months. The model based on 34 epigenetic probes showed the best performance, scoring 0.80 accuracy and 0.51 Matthews Correlation Coefficient on testset. Then, we generated and validated a progression signature based on 4 methylation probes capable of stratifying HCC patients at high and low risk of progression. Survival analysis showed that high risk patients are characterized by a poorer progression free survival compared to low risk patients. Moreover, decision curve analysis confirmed the strength of this predictive tool over conventional clinical parameters. Functional enrichment analysis highlighted that high risk patients differentiated themselves by the upregulation of proliferative pathways. Ultimately, we propose the oncogenic MCM2 gene as a methylation-driven gene of which the representative epigenetic markers could serve both as predictive and prognostic markers. Briefly, our work provides several potential HCC progression epigenetic biomarkers as well as a new signature that may enhance patients surveillance and advances in personalized treatment.


2019 ◽  
Vol 54 ◽  
pp. 116-127 ◽  
Author(s):  
Wojciech Książek ◽  
Moloud Abdar ◽  
U. Rajendra Acharya ◽  
Paweł Pławiak

F1000Research ◽  
2017 ◽  
Vol 6 ◽  
pp. 1929
Author(s):  
Jiandong Zhao ◽  
Jiazhou Wang ◽  
Mingxia Cheng

Hepatocellular carcinoma (HCC) is a leading cause of cancer death in China and around the world. Tumoricidal doses of modern radiation therapy (RT) can now be safely delivered with excellent local control and minimal toxicity. Delivering adequate doses of radiation to the primary tumor, while preserving adjacent healthy organs, depends on accurate target identification. In recent years, different novel machine learning techniques, including artificial intelligence technology, have been exploited in RT with impressive results in automatic image segmentation. If the machine learning algorithms are trained on delineated contours, according to consensus contouring guidelines, it promises greatly reduced interobserver and intraobserver variability in target delineation, thus substantially improving the quality and efficiency of HCC radiotherapy. This study protocol proposes to develop a fully-automated target structure contouring system, which is based on deep neural networks trained on contours delineated according to consensus contouring guidelines in HCC radiotherapy. In addition, the study will evaluate the contouring system’s feasibility and performance during application in normal clinical operations. The study is ongoing (data analysis).


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