AIMC Topic: Models, Genetic

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Kinetics of -induced gene silencing can be predicted from combinations of epigenetic and genomic features.

Genome research
To initiate X-Chromosome inactivation (XCI), the long noncoding RNA mediates chromosome-wide gene silencing of one X Chromosome in female mammals to equalize gene dosage between the sexes. The efficiency of gene silencing is highly variable across g...

A novel matrix of sequence descriptors for predicting protein-protein interactions from amino acid sequences.

PloS one
Protein-protein interactions (PPIs) play an important role in the life activities of organisms. With the availability of large amounts of protein sequence data, PPIs prediction methods have attracted increasing attention. A variety of protein sequenc...

A Deep Neural Network for Predicting and Engineering Alternative Polyadenylation.

Cell
Alternative polyadenylation (APA) is a major driver of transcriptome diversity in human cells. Here, we use deep learning to predict APA from DNA sequence alone. We trained our model (APARENT, APA REgression NeT) on isoform expression data from over ...

Identification of leukemia stem cell expression signatures through Monte Carlo feature selection strategy and support vector machine.

Cancer gene therapy
Acute myeloid leukemia (AML) is a type of blood cancer characterized by the rapid growth of immature white blood cells from the bone marrow. Therapy resistance resulting from the persistence of leukemia stem cells (LSCs) are found in numerous patient...

New Deep Learning Genomic-Based Prediction Model for Multiple Traits with Binary, Ordinal, and Continuous Phenotypes.

G3 (Bethesda, Md.)
Multiple-trait experiments with mixed phenotypes (binary, ordinal and continuous) are not rare in animal and plant breeding programs. However, there is a lack of statistical models that can exploit the correlation between traits with mixed phenotypes...

Predicting miRNA-lncRNA interactions and recognizing their regulatory roles in stress response of plants.

Mathematical biosciences
It has been found that each non-coding RNA (ncRNA) can act not only through its target gene, but also interact with each other to act on biological traits, and this interaction is more common. Many studies focus mainly on the analysis of microRNA(miR...

A directed learning strategy integrating multiple omic data improves genomic prediction.

Plant biotechnology journal
Genomic prediction (GP) aims to construct a statistical model for predicting phenotypes using genome-wide markers and is a promising strategy for accelerating molecular plant breeding. However, current progress of phenotype prediction using genomic d...

GNE: a deep learning framework for gene network inference by aggregating biological information.

BMC systems biology
BACKGROUND: The topological landscape of gene interaction networks provides a rich source of information for inferring functional patterns of genes or proteins. However, it is still a challenging task to aggregate heterogeneous biological information...