AIMC Topic: Software

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Drug-drug interaction extraction from biomedical texts using long short-term memory network.

Journal of biomedical informatics
The simultaneous administration of multiple drugs increases the probability of interaction among them, as one drug may affect the activities of others. This interaction among drugs may have a positive or negative impact on the therapeutic outcomes. T...

Algorithmic Analysis of Cahn-Ingold-Prelog Rules of Stereochemistry: Proposals for Revised Rules and a Guide for Machine Implementation.

Journal of chemical information and modeling
The most recent version of the Cahn-Ingold-Prelog rules for the determination of stereodescriptors as described in Nomenclature of Organic Chemistry: IUPAC Recommendations and Preferred Names 2013 (the "Blue Book"; Favre and Powell. Royal Society of ...

iRNA-2OM: A Sequence-Based Predictor for Identifying 2'-O-Methylation Sites in Homo sapiens.

Journal of computational biology : a journal of computational molecular cell biology
2'-O-methylation plays an important biological role in gene expression. Owing to the explosive increase in genomic sequencing data, it is necessary to develop a method for quickly and efficiently identifying whether a sequence contains the 2'-O-methy...

A convolutional route to abbreviation disambiguation in clinical text.

Journal of biomedical informatics
OBJECTIVE: Abbreviations sense disambiguation is a special case of word sense disambiguation. Machine learning methods based on neural networks showed promising results for word sense disambiguation (Festag and Spreckelsen, 2017) [1] and, here we ass...

KELM-CPPpred: Kernel Extreme Learning Machine Based Prediction Model for Cell-Penetrating Peptides.

Journal of proteome research
Cell-penetrating peptides (CPPs) facilitate the transport of pharmacologically active molecules, such as plasmid DNA, short interfering RNA, nanoparticles, and small peptides. The accurate identification of new and unique CPPs is the initial step to ...

Towards the development of robot immune system: A combined approach involving innate immune cells and T-lymphocytes.

Bio Systems
Mobile robots in uncertain and unstructuredenvironments frequently encounter faults. Therefore, an effective fault detection and recovery mechanism is required. One can possibly investigate natural systems to seek inspiration to develop systems that ...

Deep learning to predict the lab-of-origin of engineered DNA.

Nature communications
Genetic engineering projects are rapidly growing in scale and complexity, driven by new tools to design and construct DNA. There is increasing concern that widened access to these technologies could lead to attempts to construct cells for malicious i...

A heuristic method for fast and accurate phasing and imputation of single-nucleotide polymorphism data in bi-parental plant populations.

TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik
Key message New fast and accurate method for phasing and imputation of SNP chip genotypes within diploid bi-parental plant populations. This paper presents a new heuristic method for phasing and imputation of genomic data in diploid plant species. Ou...

Prioritising references for systematic reviews with RobotAnalyst: A user study.

Research synthesis methods
Screening references is a time-consuming step necessary for systematic reviews and guideline development. Previous studies have shown that human effort can be reduced by using machine learning software to prioritise large reference collections such t...