Vesicle Formation Calculator Vesicle Formation Calculator The Vesicle Formation Calculator is a biophysical tool designed to estimate the bending energy required for vesicle formation and predict optimal vesicle radius based on membrane properties. Vesicle formation is a fundamental process in cellular trafficking, governed by the Helfrich curvature elasticity theory. Bending Rigidity κ (in k_B T, […]
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Membrane Curvature Calculator Calculate Membrane Curvature Parameters This calculator is based on the Helfrich-Canham bending energy model (1970-1973), a cornerstone of membrane biophysics. Enter the two principal radii of curvature to compute mean curvature (H), Gaussian curvature (K), and bending energy density. Principal Radius 1 (R₁ in nm): Principal Radius 2 (R₂ in nm): Spontaneous
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Exocytosis Rate Calculator Exocytosis Rate Calculator The Exocytosis Rate Calculator is a practical tool designed to estimate exocytosis rates in cellular systems, particularly for nanoparticle studies and vesicle fusion events. This calculator uses established methods from peer-reviewed research, including change in membrane capacitance (ΔCm) and nanoparticle excretion kinetics. Change in Membrane Capacitance (ΔCm in fF):
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Endocytosis Rate Calculator Calculate Endocytosis Rate Constant (ke) This calculator uses the established In/Sur ratio method for receptor-mediated endocytosis (Wiley & Cunningham, 1982). Plot In/Sur vs. time should be linear, and the slope is ke (in min-1). Enter multiple time points (at least 3 for accuracy) with corresponding Internalized/Surface ratios. Time (minutes) 1: In/Sur Ratio
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Vesicle Trafficking Calculator Vesicle Trafficking Calculator The Vesicle Trafficking Calculator is a scientific tool designed to estimate key kinetic parameters in membrane vesicle trafficking, such as recycling times and steady-state distributions, based on established rate constants from peer-reviewed models of endocytosis and exocytosis. Exocytosis Rate Constant (k_exo, per minute): Endocytosis Rate Constant (k_endo, per minute):
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Protein Trafficking Calculator The Protein Trafficking Calculator is an advanced bioinformatics tool designed to predict the subcellular localization and trafficking pathways of proteins based on their amino acid sequences. Protein trafficking, also known as protein sorting, refers to the precise mechanisms that direct newly synthesized proteins to their correct destinations within or outside the cell.
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Protein Secretion Calculator Protein Secretion Calculator The Protein Secretion Calculator is a bioinformatics tool designed to predict the likelihood of classical secretory pathway entry via an N-terminal signal peptide in protein sequences. Protein secretion, particularly through the classical pathway involving signal peptides, is essential for extracellular functions. Enter Protein Sequence (one-letter code, e.g., FASTA format
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Secretion Rate Calculator The Secretion Rate Calculator is an essential bioprocess engineering tool designed to compute the specific secretion rate (q_p) and volumetric productivity for secreted recombinant proteins in cell culture systems, such as mammalian or yeast-based production. Secretion rate quantification is fundamental in optimizing biopharmaceutical manufacturing, where secreted proteins like monoclonal antibodies dominate the
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Glycosylation Pattern Calculator The Glycosylation Pattern Calculator is a powerful bioinformatics tool designed to predict potential glycosylation patterns in protein sequences. Glycosylation, one of the most common and complex post-translational modifications (PTMs), involves the attachment of glycan chains to proteins, significantly influencing their structure, stability, folding, and biological function. This calculator focuses on identifying key
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O-Glycosylation Calculator O-Glycosylation Calculator The O-Glycosylation Calculator is a user-friendly tool designed to predict potential mucin-type O-GalNAc glycosylation sites in protein sequences. O-glycosylation, particularly the mucin-type initiated by GalNAc attachment to serine (Ser) or threonine (Thr) residues, is a critical post-translational modification. Enter Protein Sequence (one-letter code, e.g., FASTA format without header): Calculate Potential Sites
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