AIMC Topic: Computational Biology

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Efficient utilization on PSSM combining with recurrent neural network for membrane protein types prediction.

Computational biology and chemistry
Position-Specific Scoring Matrix (PSSM) is an excellent feature extraction method that was proposed early in protein classifying prediction, but within the restriction of feature shape in PSSM, researchers make a lot attempts to process it so that PS...

PaleAle 5.0: prediction of protein relative solvent accessibility by deep learning.

Amino acids
Predicting the three-dimensional structure of proteins is a long-standing challenge of computational biology, as the structure (or lack of a rigid structure) is well known to determine a protein's function. Predicting relative solvent accessibility (...

Beyond the "Conceptual Nervous System": Can computational cognitive neuroscience transform learning theory?

Behavioural processes
In the last century, learning theory has been dominated by an approach assuming that associations between hypothetical representational nodes can support the acquisition of knowledge about the environment. The similarities between this approach and c...

Detecting drug-drug interactions using artificial neural networks and classic graph similarity measures.

PloS one
Drug-drug interactions are preventable causes of medical injuries and often result in doctor and emergency room visits. Computational techniques can be used to predict potential drug-drug interactions. We approach the drug-drug interaction prediction...

Comparison of machine learning algorithms for clinical event prediction (risk of coronary heart disease).

Journal of biomedical informatics
AIM: The aim of this study is to compare the utility of several supervised machine learning (ML) algorithms for predicting clinical events in terms of their internal validity and accuracy. The results, which were obtained using two statistical softwa...

A novel bio-heuristic computing algorithm to solve the capacitated vehicle routing problem based on Adleman-Lipton model.

Bio Systems
DNA computing, as one of potential means to solve complicated computational problems, is a new field of interdisciplinary research, including computational mathematics, parallel algorithms, bioinformatics. Capacitated vehicle routing problem is one o...

Combining evolution and self-organization to find natural Boolean representations in unconventional computational media.

Bio Systems
Designing novel unconventional computing systems often requires the selection of the computational structure as well as choosing the right symbol encoding. Several approaches apply heuristic search and evolutionary algorithms to find both computation...

scGen predicts single-cell perturbation responses.

Nature methods
Accurately modeling cellular response to perturbations is a central goal of computational biology. While such modeling has been based on statistical, mechanistic and machine learning models in specific settings, no generalization of predictions to ph...

Applicability Domain of Active Learning in Chemical Probe Identification: Convergence in Learning from Non-Specific Compounds and Decision Rule Clarification.

Molecules (Basel, Switzerland)
Efficient identification of chemical probes for the manipulation and understanding of biological systems demands specificity for target proteins. Computational means to optimize candidate compound selection for experimental selectivity evaluation are...

G-DipC: An Improved Feature Representation Method for Short Sequences to Predict the Type of Cargo in Cell-Penetrating Peptides.

IEEE/ACM transactions on computational biology and bioinformatics
Cell-penetrating peptides (CPPs) are functional short peptides with high carrying capacity. CPP sequences with targeting functions for the highly efficient delivery of drugs to target cells. In this paper, which is focused on the prediction of the ca...