AIMC Topic: Protein Transport

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Deep generative model for protein subcellular localization prediction.

Briefings in bioinformatics Mar 4, 2025
Protein sequence not only determines its structure but also provides important clues of its subcellular localization. Although a series of artificial intelligence models have been reported to predict protein subcellular localization, most of them pro...
Humans Deep Learning Computational Biology Protein Transport Cytoplasm Subcellular Fractions Proteins Cell Nucleus
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Interpretable feature extraction and dimensionality reduction in ESM2 for protein localization prediction.

Briefings in bioinformatics Jan 22, 2024
As the application of large language models (LLMs) has broadened into the realm of biological predictions, leveraging their capacity for self-supervised learning to create feature representations of amino acid sequences, these models have set a new b...
Neural Networks, Computer Amino Acid Sequence Computational Biology Protein Transport
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Digitally predicting protein localization and manipulating protein activity in fluorescence images using 4D reslicing GAN.

Bioinformatics (Oxford, England) Jan 1, 2023
MOTIVATION: While multi-channel fluorescence microscopy is a vital imaging method in biological studies, the number of channels that can be imaged simultaneously is limited by technical and hardware limitations such as emission spectra cross-talk. On...
Microscopy, Fluorescence Neural Networks, Computer Protein Transport Probability Software
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GraphLoc: a graph neural network model for predicting protein subcellular localization from immunohistochemistry images.

Bioinformatics (Oxford, England) Oct 31, 2022
MOTIVATION: Recognition of protein subcellular distribution patterns and identification of location biomarker proteins in cancer tissues are important for understanding protein functions and related diseases. Immunohistochemical (IHC) images enable v...
Neural Networks, Computer Neoplasms Proteins Humans Immunohistochemistry Protein Transport
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Multi-scale deep learning for the imbalanced multi-label protein subcellular localization prediction based on immunohistochemistry images.

Bioinformatics (Oxford, England) Apr 28, 2022
MOTIVATION: The development of microscopic imaging techniques enables us to study protein subcellular locations from the tissue level down to the cell level, contributing to the rapid development of image-based protein subcellular location prediction...
Proteins Immunohistochemistry Neural Networks, Computer Deep Learning Protein Transport
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iDeepSubMito: identification of protein submitochondrial localization with deep learning.

Briefings in bioinformatics Nov 5, 2021
Mitochondria are membrane-bound organelles containing over 1000 different proteins involved in mitochondrial function, gene expression and metabolic processes. Accurate localization of those proteins in the mitochondrial compartments is critical to t...
Deep Learning Datasets as Topic Mitochondrial Proteins Submitochondrial Particles Protein Transport Neural Networks, Computer Algorithms
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Removing Noise from Extracellular Neural Recordings Using Fully Convolutional Denoising Autoencoders.

Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference Nov 1, 2021
Extracellular recordings are severely contaminated by a considerable amount of noise sources, rendering the denoising process an extremely challenging task that should be tackled for efficient spike sorting. To this end, we propose an end-to-end deep...
Signal-To-Noise Ratio Protein Transport Cell Movement Noise Neural Networks, Computer
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ImPLoc: a multi-instance deep learning model for the prediction of protein subcellular localization based on immunohistochemistry images.

Bioinformatics (Oxford, England) Apr 1, 2020
MOTIVATION: The tissue atlas of the human protein atlas (HPA) houses immunohistochemistry (IHC) images visualizing the protein distribution from the tissue level down to the cell level, which provide an important resource to study human spatial prote...
Immunohistochemistry Protein Transport Humans Deep Learning Neural Networks, Computer Proteome
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A reference library for assigning protein subcellular localizations by image-based machine learning.

The Journal of cell biology Mar 2, 2020
Confocal micrographs of EGFP fusion proteins localized at key cell organelles in murine and human cells were acquired for use as subcellular localization landmarks. For each of the respective 789,011 and 523,319 optically validated cell images, morph...
Protein Transport Humans Green Fluorescent Proteins Machine Learning Secretory Pathway Organelles Mice Pattern Recognition, Automated Recombinant Fusion Proteins Epithelial Cells Microscopy, Confocal Reference Standards Animals Mutation Cell Line Image Processing, Computer-Assisted
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An Overview on Predicting Protein Subchloroplast Localization by using Machine Learning Methods.

Current protein & peptide science Jan 1, 2020
The chloroplast is a type of subcellular organelle of green plants and eukaryotic algae, which plays an important role in the photosynthesis process. Since the function of a protein correlates with its location, knowing its subchloroplast localizatio...
Chloroplast Proteins Plants Proteome Chloroplasts Amino Acid Sequence Models, Statistical Machine Learning Datasets as Topic Computational Biology Protein Transport Gene Expression Regulation, Plant
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