AIMC Topic: Neoplasms

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massNet: integrated processing and classification of spatially resolved mass spectrometry data using deep learning for rapid tumor delineation.

Bioinformatics (Oxford, England)
MOTIVATION: Mass spectrometry imaging (MSI) provides rich biochemical information in a label-free manner and therefore holds promise to substantially impact current practice in disease diagnosis. However, the complex nature of MSI data poses computat...

Development of a Machine Learning Model Using Limited Features to Predict 6-Month Mortality at Treatment Decision Points for Patients With Advanced Solid Tumors.

JCO clinical cancer informatics
PURPOSE: Patients with advanced solid tumors may receive intensive treatments near the end of life. This study aimed to create a machine learning (ML) model using limited features to predict 6-month mortality at treatment decision points (TDPs).

Universal encoding of pan-cancer histology by deep texture representations.

Cell reports
Cancer histological images contain rich biological and clinical information, but quantitative representation can be problematic and has prevented the direct comparison and accumulation of large-scale datasets. Here, we show successful universal encod...

Automated classification of cytogenetic abnormalities in hematolymphoid neoplasms.

Bioinformatics (Oxford, England)
MOTIVATION: Algorithms for classifying chromosomes, like convolutional deep neural networks (CNNs), show promise to augment cytogeneticists' workflows; however, a critical limitation is their inability to accurately classify various structural chromo...

Artificial intelligence in clinical research of cancers.

Briefings in bioinformatics
Several factors, including advances in computational algorithms, the availability of high-performance computing hardware, and the assembly of large community-based databases, have led to the extensive application of Artificial Intelligence (AI) in th...

Stratified neural networks in a time-to-event setting.

Briefings in bioinformatics
Deep neural networks are frequently employed to predict survival conditional on omics-type biomarkers, e.g., by employing the partial likelihood of Cox proportional hazards model as loss function. Due to the generally limited number of observations i...

DeepDDS: deep graph neural network with attention mechanism to predict synergistic drug combinations.

Briefings in bioinformatics
MOTIVATION: Drug combination therapy has become an increasingly promising method in the treatment of cancer. However, the number of possible drug combinations is so huge that it is hard to screen synergistic drug combinations through wet-lab experime...

How much can deep learning improve prediction of the responses to drugs in cancer cell lines?

Briefings in bioinformatics
The drug response prediction problem arises from personalized medicine and drug discovery. Deep neural networks have been applied to the multi-omics data being available for over 1000 cancer cell lines and tissues for better drug response prediction....

lncRNAfunc: a knowledgebase of lncRNA function in human cancer.

Nucleic acids research
The long non-coding RNAs associating with other molecules can coordinate several physiological processes and their dysfunction can impact diverse human diseases. To date, systematic and intensive annotations on diverse interaction regulations of lncR...

TGSA: protein-protein association-based twin graph neural networks for drug response prediction with similarity augmentation.

Bioinformatics (Oxford, England)
MOTIVATION: Drug response prediction (DRP) plays an important role in precision medicine (e.g. for cancer analysis and treatment). Recent advances in deep learning algorithms make it possible to predict drug responses accurately based on genetic prof...