AIMC Topic: Computational Biology

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Embedding assisted prediction architecture for event trigger identification.

Journal of bioinformatics and computational biology
Molecular events normally have significant meanings since they describe important biological interactions or alternations such as binding of a protein. As a crucial step of biological event extraction, event trigger identification has attracted much ...

An improved poly(A) motifs recognition method based on decision level fusion.

Computational biology and chemistry
Polyadenylation is the process of addition of poly(A) tail to mRNA 3' ends. Identification of motifs controlling polyadenylation plays an essential role in improving genome annotation accuracy and better understanding of the mechanisms governing gene...

repDNA: a Python package to generate various modes of feature vectors for DNA sequences by incorporating user-defined physicochemical properties and sequence-order effects.

Bioinformatics (Oxford, England)
UNLABELLED: In order to develop powerful computational predictors for identifying the biological features or attributes of DNAs, one of the most challenging problems is to find a suitable approach to effectively represent the DNA sequences. To facili...

Active-learning strategies in computer-assisted drug discovery.

Drug discovery today
High-throughput compound screening is time and resource consuming, and considerable effort is invested into screening compound libraries, profiling, and selecting the most promising candidates for further testing. Active-learning methods assist the s...

Quantifying the determinants of outbreak detection performance through simulation and machine learning.

Journal of biomedical informatics
OBJECTIVE: To develop a probabilistic model for discovering and quantifying determinants of outbreak detection and to use the model to predict detection performance for new outbreaks.

Functional annotation and biological interpretation of proteomics data.

Biochimica et biophysica acta
Proteomics experiments often generate a vast amount of data. However, the simple identification and quantification of proteins from a cell proteome or subproteome is not sufficient for the full understanding of complex mechanisms occurring in the bio...

BiobankConnect: software to rapidly connect data elements for pooled analysis across biobanks using ontological and lexical indexing.

Journal of the American Medical Informatics Association : JAMIA
OBJECTIVE: Pooling data across biobanks is necessary to increase statistical power, reveal more subtle associations, and synergize the value of data sources. However, searching for desired data elements among the thousands of available elements and h...

Integrating GO and KEGG terms to characterize and predict acute myeloid leukemia-related genes.

Hematology (Amsterdam, Netherlands)
BACKGROUND/OBJECTIVE: Acute myeloid leukemia (AML) is a progressive and malignant cancer of myelogenous blood cells, which disturbs the production of normal blood cells. Although several risk and genetic factors (AML-related genes) have been investig...

A novel representation of genomic sequences for taxonomic clustering and visualization by means of self-organizing maps.

Bioinformatics (Oxford, England)
MOTIVATION: Self-organizing maps (SOMs) are readily available bioinformatics methods for clustering and visualizing high-dimensional data, provided that such biological information is previously transformed to fixed-size, metric-based vectors. To inc...