AIMC Topic: Software

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DDxNet: a deep learning model for automatic interpretation of electronic health records, electrocardiograms and electroencephalograms.

Scientific reports
Effective patient care mandates rapid, yet accurate, diagnosis. With the abundance of non-invasive diagnostic measurements and electronic health records (EHR), manual interpretation for differential diagnosis has become time-consuming and challenging...

LncLocation: Efficient Subcellular Location Prediction of Long Non-Coding RNA-Based Multi-Source Heterogeneous Feature Fusion.

International journal of molecular sciences
Recent studies uncover that subcellular location of long non-coding RNAs (lncRNAs) can provide significant information on its function. Due to the lack of experimental data, the number of lncRNAs is very limited, experimentally verified subcellular l...

Metabolic pathway inference using multi-label classification with rich pathway features.

PLoS computational biology
Metabolic inference from genomic sequence information is a necessary step in determining the capacity of cells to make a living in the world at different levels of biological organization. A common method for determining the metabolic potential encod...

Mustache: multi-scale detection of chromatin loops from Hi-C and Micro-C maps using scale-space representation.

Genome biology
We present MUSTACHE, a new method for multi-scale detection of chromatin loops from Hi-C and Micro-C contact maps. MUSTACHE employs scale-space theory, a technical advance in computer vision, to detect blob-shaped objects in contact maps. MUSTACHE is...

Analysis of COVID-19 clinical trials: A data-driven, ontology-based, and natural language processing approach.

PloS one
With the novel COVID-19 pandemic disrupting and threatening the lives of millions, researchers and clinicians have been recently conducting clinical trials at an unprecedented rate to learn more about the virus and potential drugs/treatments/vaccines...

Automated rotator cuff tear classification using 3D convolutional neural network.

Scientific reports
Rotator cuff tear (RCT) is one of the most common shoulder injuries. When diagnosing RCT, skilled orthopedists visually interpret magnetic resonance imaging (MRI) scan data. For automated and accurate diagnosis of RCT, we propose a full 3D convolutio...

REDBot: Natural language process methods for clinical copy number variation reporting in prenatal and products of conception diagnosis.

Molecular genetics & genomic medicine
BACKGROUND: Current copy number variation (CNV) identification methods have rapidly become mature. However, the postdetection processes such as variant interpretation or reporting are inefficient. To overcome this situation, we developed REDBot as an...

SAPPHIRE: a neural network based classifier for σ70 promoter prediction in Pseudomonas.

BMC bioinformatics
BACKGROUND: In silico promoter prediction represents an important challenge in bioinformatics as it provides a first-line approach to identifying regulatory elements to support wet-lab experiments. Historically, available promoter prediction software...

Multi-scale supervised clustering-based feature selection for tumor classification and identification of biomarkers and targets on genomic data.

BMC genomics
BACKGROUND: The small number of samples and the curse of dimensionality hamper the better application of deep learning techniques for disease classification. Additionally, the performance of clustering-based feature selection algorithms is still far ...

A fuzzy TOPSIS based analysis toward selection of effective security requirements engineering approach for trustworthy healthcare software development.

BMC medical informatics and decision making
BACKGROUND: Today's healthcare organizations want to implement secure and quality healthcare software as cyber-security is a significant risk factor for healthcare data. Considering security requirements during trustworthy healthcare software develop...