AIMC Topic: Cell Membrane
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Deciphering the Complexity of Ligand-Protein Recognition Pathways Using Supervised Molecular Dynamics (SuMD) Simulations.
Journal of chemical information and modeling
Apr 14, 2016
Molecular recognition is a crucial issue when aiming to interpret the mechanism of known active substances as well as to develop novel active candidates. Unfortunately, simulating the binding process is still a challenging task because it requires cl...
A Prediction Model for Membrane Proteins Using Moments Based Features.
BioMed research international
Feb 15, 2016
The most expedient unit of the human body is its cell. Encapsulated within the cell are many infinitesimal entities and molecules which are protected by a cell membrane. The proteins that are associated with this lipid based bilayer cell membrane are...
Quantitative analysis of mitochondrial morphology and membrane potential in living cells using high-content imaging, machine learning, and morphological binning.
Biochimica et biophysica acta
Nov 13, 2014
Understanding the processes of mitochondrial dynamics (fission, fusion, biogenesis, and mitophagy) has been hampered by the lack of automated, deterministic methods to measure mitochondrial morphology from microscopic images. A method to quantify mit...
Cell Membrane
Sodium-Potassium-Exchanging ATPase
Cell Line
Carbonyl Cyanide m-Chlorophenyl Hydrazone
Stress, Physiological
Cell Respiration
Electron Transport
Cell Survival
Animals
tert-Butylhydroperoxide
Membrane Potential, Mitochondrial
Oxidants
Imaging, Three-Dimensional
Artificial Intelligence
Mitochondria
Mice
Phenotype
TmDet 4.0: determining membrane orientation of transmembrane proteins from 3D structure.
Nucleic acids research
Jul 7, 2025
During the structural determination of transmembrane proteins, one crucial piece of information is lost: the orientation of the protein within the lipid bilayer. The TmDet algorithm was developed in the early 2000s to determine the relative position ...
AACFlow: an end-to-end model based on attention augmented convolutional neural network and flow-attention mechanism for identification of anticancer peptides.
Bioinformatics (Oxford, England)
Mar 4, 2024
MOTIVATION: Anticancer peptides (ACPs) have natural cationic properties and can act on the anionic cell membrane of cancer cells to kill cancer cells. Therefore, ACPs have become a potential anticancer drug with good research value and prospect.
A deep learning-based approach to model anomalous diffusion of membrane proteins: the case of the nicotinic acetylcholine receptor.
Briefings in bioinformatics
Jan 17, 2022
We present a concatenated deep-learning multiple neural network system for the analysis of single-molecule trajectories. We apply this machine learning-based analysis to characterize the translational diffusion of the nicotinic acetylcholine receptor...
Machine learning-driven multiscale modeling reveals lipid-dependent dynamics of RAS signaling proteins.
Proceedings of the National Academy of Sciences of the United States of America
Jan 4, 2022
RAS is a signaling protein associated with the cell membrane that is mutated in up to 30% of human cancers. RAS signaling has been proposed to be regulated by dynamic heterogeneity of the cell membrane. Investigating such a mechanism requires near-at...
PolarProtPred: predicting apical and basolateral localization of transmembrane proteins using putative short linear motifs and deep learning.
Bioinformatics (Oxford, England)
Dec 7, 2021
MOTIVATION: Cell polarity refers to the asymmetric organization of cellular components in various cells. Epithelial cells are the best-known examples of polarized cells, featuring apical and basolateral membrane domains. Mounting evidence suggests th...
DM3Loc: multi-label mRNA subcellular localization prediction and analysis based on multi-head self-attention mechanism.
Nucleic acids research
May 7, 2021
Subcellular localization of messenger RNAs (mRNAs), as a prevalent mechanism, gives precise and efficient control for the translation process. There is mounting evidence for the important roles of this process in a variety of cellular events. Computa...
In-Cell Single-Molecule Analysis of Molecular State and Reaction Kinetics Coupling.
Advances in experimental medicine and biology
Jan 1, 2021
Cellular signaling is regulated by the spatiotemporal dynamics and kinetics of molecular behavior. To investigate the mechanisms at the molecular level, fluorescence single-molecule analysis is an effective method owing to the direct observation of i...
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