Prioritization of cancer-related genes from gene expression profiles and proteomic data is vital to improve the targeted therapies research. Although computational approaches have been complementing high-throughput biological experiments on the under...
Journal of bioinformatics and computational biology
Jun 1, 2019
Deep learning technologies are permeating every field from image and speech recognition to computational and systems biology. However, the application of convolutional neural networks (CCNs) to "omics" data poses some difficulties, such as the proces...
N 6-methyladenosine (m6A) is the most prevalent post-transcriptional modification in eukaryotes, and plays a pivotal role in various biological processes, such as splicing, RNA degradation and RNA-protein interaction. We report here a prediction fram...
Journal of bioinformatics and computational biology
Apr 1, 2019
Identification of effective drug combinations for patients is an expensive and time-consuming procedure, especially for experiments. To accelerate the synergistic drug discovery process, we present a new classification model to identify more effecti...
MOTIVATION: Protein-Protein Interactions (PPI) are essentials for most cellular processes and thus, unveiling how proteins interact is a crucial question that can be better understood by identifying which residues are responsible for the interaction....
Database : the journal of biological databases and curation
Jan 1, 2019
The scientific literature contains large amounts of information on genes, proteins, chemicals and their interactions. Extraction and integration of this information in curated knowledge bases help researchers support their experimental results, leadi...
Journal of bioinformatics and computational biology
Oct 1, 2018
Multifunctional genes are important genes because of their essential roles in human cells. Studying and analyzing multifunctional genes can help understand disease mechanisms and drug discovery. We propose a computational method for scoring gene mult...
MOTIVATION: Biological knowledge is widely represented in the form of ontology-based annotations: ontologies describe the phenomena assumed to exist within a domain, and the annotations associate a (kind of) biological entity with a set of phenomena ...
MOTIVATION: The use of drug combinations, termed polypharmacy, is common to treat patients with complex diseases or co-existing conditions. However, a major consequence of polypharmacy is a much higher risk of adverse side effects for the patient. Po...
MOTIVATION: Network propagation has been widely used to aggregate and amplify the effects of tumor mutations using knowledge of molecular interaction networks. However, propagating mutations through interactions irrelevant to cancer leads to erosion ...
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