Decoding enhancer complexity with machine learning and high-throughput discovery

GD Smith, WH Ching, P Cornejo-Páramo, ES Wong - Genome biology, 2023 - Springer
Enhancers are genomic DNA elements controlling spatiotemporal gene expression. Their
flexible organization and functional redundancies make deciphering their sequence-function …

Dnabert-2: Efficient foundation model and benchmark for multi-species genome

Z Zhou, Y Ji, W Li, P Dutta, R Davuluri, H Liu - arXiv preprint arXiv …, 2023 - arxiv.org
Decoding the linguistic intricacies of the genome is a crucial problem in biology, and pre-
trained foundational models such as DNABERT and Nucleotide Transformer have made …

Enhanced preprocessing approach using ensemble machine learning algorithms for detecting liver disease

AQ Md, S Kulkarni, CJ Joshua, T Vaichole, S Mohan… - Biomedicines, 2023 - mdpi.com
There has been a sharp increase in liver disease globally, and many people are dying
without even knowing that they have it. As a result of its limited symptoms, it is extremely …

From genotype to phenotype: computational approaches for inferring microbial traits relevant to the food industry

ST Karlsen, MH Rau, BJ Sánchez… - FEMS Microbiology …, 2023 - academic.oup.com
When selecting microbial strains for the production of fermented foods, various microbial
phenotypes need to be taken into account to achieve target product characteristics, such as …

Designing antimicrobial peptides using deep learning and molecular dynamic simulations

Q Cao, C Ge, X Wang, PJ Harvey… - Briefings in …, 2023 - academic.oup.com
With the emergence of multidrug-resistant bacteria, antimicrobial peptides (AMPs) offer
promising options for replacing traditional antibiotics to treat bacterial infections, but …

Ichrom-deep: an attention-based deep learning model for identifying chromatin interactions

P Zhang, H Wu - IEEE Journal of Biomedical and Health …, 2023 - ieeexplore.ieee.org
Identification of chromatin interactions is crucial for advancing our knowledge of gene
regulation. However, due to the limitations of high-throughput experimental techniques …

Acp-bc: a model for accurate identification of anticancer peptides based on fusion features of bidirectional long short-term memory and chemically derived information

M Sun, H Hu, W Pang, Y Zhou - International Journal of Molecular …, 2023 - mdpi.com
Anticancer peptides (ACPs) have been proven to possess potent anticancer activities.
Although computational methods have emerged for rapid ACPs identification, their accuracy …

CRCNet: Global-local context and multi-modality cross attention for polyp segmentation

J Zhu, M Ge, Z Chang, W Dong - Biomedical Signal Processing and Control, 2023 - Elsevier
Accurate polyp segmentation is important for the diagnosis and treatment of colon cancer. In
recent years, efforts have been made to improve the encoder-decoder framework by using …

EMDL-ac4C: identifying N4-acetylcytidine based on ensemble two-branch residual connection DenseNet and attention

J Jia, Z Wei, X Cao - Frontiers in Genetics, 2023 - frontiersin.org
Introduction: N4-acetylcytidine (ac4C) is a critical acetylation modification that has an
essential function in protein translation and is associated with a number of human diseases …

Hybrid inceptionv3-svm-based approach for human posture detection in health monitoring systems

RO Ogundokun, R Maskeliūnas, S Misra… - Algorithms, 2022 - mdpi.com
Posture detection targets toward providing assessments for the monitoring of the health and
welfare of humans have been of great interest to researchers from different disciplines. The …