Emerging trends in post-translational modification: Shedding light on Glioblastoma multiforme
Recent multi-omics studies, including proteomics, transcriptomics, genomics, and
metabolomics have revealed the critical role of post-translational modifications (PTMs) in the …
metabolomics have revealed the critical role of post-translational modifications (PTMs) in the …
LMPhosSite: a deep learning-based approach for general protein phosphorylation site prediction using embeddings from the local window sequence and pretrained …
Phosphorylation is one of the most important post-translational modifications and plays a
pivotal role in various cellular processes. Although there exist several computational tools to …
pivotal role in various cellular processes. Although there exist several computational tools to …
Post-translational modification prediction via prompt-based fine-tuning of a GPT-2 model
Post-translational modifications (PTMs) are pivotal in modulating protein functions and
influencing cellular processes like signaling, localization, and degradation. The complexity …
influencing cellular processes like signaling, localization, and degradation. The complexity …
Brain-computer Interaction in the Smart Era
Z Yan, P Liu, H Zhou, J Zhang, S Liu, Y Xie… - Current Medical …, 2024 - Springer
The brain-computer interface (BCI) system serves as a critical link between external output
devices and the human brain. A monitored object's mental state, sensory cognition, and …
devices and the human brain. A monitored object's mental state, sensory cognition, and …
Integrating Embeddings from Multiple Protein Language Models to Improve Protein O-GlcNAc Site Prediction
O-linked β-N-acetylglucosamine (O-GlcNAc) is a distinct monosaccharide modification of
serine (S) or threonine (T) residues of nucleocytoplasmic and mitochondrial proteins. O …
serine (S) or threonine (T) residues of nucleocytoplasmic and mitochondrial proteins. O …
CaLMPhosKAN: Prediction of General Phosphorylation Sites in Proteins via Fusion of Codon Aware Embeddings with Amino Acid Aware Embeddings and Wavelet …
The mapping from codon to amino acid is surjective due to the high degeneracy of the
codon alphabet, suggesting that codon space might harbor higher information content …
codon alphabet, suggesting that codon space might harbor higher information content …
[PDF][PDF] NCSP-PLM: An ensemble learning framework for predicting non-classical secreted proteins based on protein language models and deep learning
T Liu, C Song, C Wang - cancer, 2023 - aimspress.com
Non-classical secreted proteins (NCSPs) refer to a group of proteins that are located in the
extracellular environment despite the absence of signal peptides and motifs. They usually …
extracellular environment despite the absence of signal peptides and motifs. They usually …
LMCrot: an enhanced protein crotonylation site predictor by leveraging an interpretable window-level embedding from a transformer-based protein language model
Motivation Recent advancements in natural language processing have highlighted the
effectiveness of global contextualized representations from protein language models (pLMs) …
effectiveness of global contextualized representations from protein language models (pLMs) …
Improving PTM Site Prediction by Coupling of Multi-Granularity Structure and Multi-Scale Sequence Representation
Protein post-translational modification (PTM) site prediction is a fundamental task in
bioinformatics. Several computational methods have been developed to predict PTM sites …
bioinformatics. Several computational methods have been developed to predict PTM sites …
PLM‐T3SE: Accurate Prediction of Type III Secretion Effectors Using Protein Language Model Embeddings
M Gao, C Song, T Liu - Journal of Cellular Biochemistry, 2024 - Wiley Online Library
The Type III secretion effectors (T3SEs) are bacterial proteins synthesized by Gram‐negative
pathogens and delivered into host cells via the Type III secretion system (T3SS). These …
pathogens and delivered into host cells via the Type III secretion system (T3SS). These …