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Oligonucleotides

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Improved workflow for constructing machine learning models: Predicting retention times and peak widths in oligonucleotide separation.

Journal of chromatography. A
This study presents an improved workflow to support the development of machine learning models to predict oligonucleotide retention times, peak widths and thus peak resolutions, from larger datasets where manual processing is not feasible. We explore...

Proteomics profiling and machine learning in nusinersen-treated patients with spinal muscular atrophy.

Cellular and molecular life sciences : CMLS
AIM: The availability of disease-modifying therapies and newborn screening programs for spinal muscular atrophy (SMA) has generated an urgent need for reliable prognostic biomarkers to classify patients according to disease severity. We aim to identi...

Development and validation of AI/ML derived splice-switching oligonucleotides.

Molecular systems biology
Splice-switching oligonucleotides (SSOs) are antisense compounds that act directly on pre-mRNA to modulate alternative splicing (AS). This study demonstrates the value that artificial intelligence/machine learning (AI/ML) provides for the identificat...

An RNA origami robot that traps and releases a fluorescent aptamer.

Science advances
RNA nanotechnology aims to use RNA as a programmable material to create self-assembling nanodevices for application in medicine and synthetic biology. The main challenge is to develop advanced RNA robotic devices that both sense, compute, and actuate...

Design and testing of ultrasound probe adapters for a robotic imaging platform.

Scientific reports
Medical imaging-based triage is a critical tool for emergency medicine in both civilian and military settings. Ultrasound imaging can be used to rapidly identify free fluid in abdominal and thoracic cavities which could necessitate immediate surgical...

A D-Shaped Polymer Optical Fiber Surface Plasmon Resonance Biosensor for Breast Cancer Detection Applications.

Biosensors
Fiber-optic biosensors have garnered significant attention and witnessed rapid development in recent years owing to their remarkable attributes such as high sensitivity, immunity to electromagnetic interference, and real-time monitoring. They have em...

Comparative Study of Single-stranded Oligonucleotides Secondary Structure Prediction Tools.

BMC bioinformatics
BACKGROUND: Single-stranded nucleic acids (ssNAs) have important biological roles and a high biotechnological potential linked to their ability to bind to numerous molecular targets. This depends on the different spatial conformations they can assume...

Leveraging attention-enhanced variational autoencoders: Novel approach for investigating latent space of aptamer sequences.

International journal of biological macromolecules
Aptamers are increasingly recognized as potent alternatives to antibodies for diagnostic and therapeutic applications. The application of deep learning, particularly attention-based models, for aptamer (DNA/RNA) sequences is an innovative field. The ...

Deep learning based sentiment analysis and offensive language identification on multilingual code-mixed data.

Scientific reports
Sentiment analysis is a process in Natural Language Processing that involves detecting and classifying emotions in texts. The emotion is focused on a specific thing, an object, an incident, or an individual. Although some tasks are concerned with det...

Integrating DNA structure switch with branched hairpins for the detection of uracil-DNA glycosylase activity and inhibitor screening.

Talanta
The detection of uracil-DNA glycosylase (UDG) activity is pivotal for its biochemical studies and the development of drugs for UDG-related diseases. Here, we explored an integrated DNA structure switch for high sensitive detection of UDG activity. Th...