Leveraging transformers‐based language models in proteome bioinformatics

NQK Le - Proteomics, 2023 - Wiley Online Library
In recent years, the rapid growth of biological data has increased interest in using
bioinformatics to analyze and interpret this data. Proteomics, which studies the structure …

A unified evolution-driven deep learning framework for virus variation driver prediction

Z Nie, X Liu, J Chen, Z Wang, Y Liu, H Si… - Nature Machine …, 2025 - nature.com
The increasing frequency of emerging viral infections necessitates a rapid human response,
highlighting the cost-effectiveness of computational methods. However, existing …

Synthcap: Augmenting transformers with synthetic data for image captioning

D Caffagni, M Barraco, M Cornia, L Baraldi… - … Conference on Image …, 2023 - Springer
Image captioning is a challenging task that combines Computer Vision and Natural
Language Processing to generate descriptive and accurate textual descriptions for input …

MiREx: mRNA levels prediction from gene sequence and miRNA target knowledge

E Pianfetti, M Lovino, E Ficarra, L Martignetti - Bmc Bioinformatics, 2023 - Springer
Messenger RNA (mRNA) has an essential role in the protein production process. Predicting
mRNA expression levels accurately is crucial for understanding gene regulation, and …

[HTML][HTML] TExCNN: Leveraging Pre-Trained Models to Predict Gene Expression from Genomic Sequences

G Dong, Y Wu, L Huang, F Li, F Zhou - Genes, 2024 - mdpi.com
Background/Objectives: Understanding the relationship between DNA sequences and gene
expression levels is of significant biological importance. Recent advancements have …

Location Matters: Harnessing Spatial Information to Enhance the Segmentation of the Inferior Alveolar Canal in CBCTs

L Lumetti, V Pipoli, F Bolelli, E Ficarra… - … Conference on Pattern …, 2024 - Springer
The segmentation of the Inferior Alveolar Canal (IAC) plays a central role in maxillofacial
surgery, drawing significant attention in the current research. Because of their outstanding …

Transformer-Based Gene Expression Levels Prediction Using Multimodal Information

T Song, Z Pan, H Song, Y Gao, H Dai… - … on Bioinformatics and …, 2024 - ieeexplore.ieee.org
Gene expression is a pivotal biological process within organisms, and in recent years, the
prediction of gene expression levels has garnered increasing attention due to its vast …

Learning Regulatory Contributions to Gene Expression Variation in Grasses

TH Ferebee - 2024 - search.proquest.com
In the advent of a rapidly changing climate, there is a need for rapid selection and editing of
plants to develop climate resilience. To aid in these efforts, interpretable and accurate …

[ΒΙΒΛΙΟ][B] Rotationally equivariant learning of generalizable protein structure-to-function maps

M Pun - 2023 - search.proquest.com
Proteins play a central role in biology from immune recognition to brain activity. Although
major advances in machine learning have improved our ability to predict protein structure …