cellsim

MOLECULAR MOTILITY LAB
MODEL 0.1
IN SILICO · SINGLE CELL

Dictyostelium discoideumAmoeboid migration

Genome-wide expression · 13,731 genes
coupled to reduced motility mechanics.
SIM TIME00:00:00
Running/Starting worker0.0× achieved
01

Cell motility

LIVE FIELD
INITIALIZINGLIVE
ENERGY100%
MEMBRANE100%
22°COX 0.0×FEED 100%
Polymerized actin lowhighClick to redirect gradient
Speed—µm/min

10 s centroid path window

Persistence—

Net / path · last 30 s

Circularity—

4π area / perimeter²

Chemotactic index—

Up-gradient / path · 30 s

CORTICAL ACTIN · MEMBRANE COORDINATETime →
360°0°
0.0 min0.0 min
02

Molecular state

GENE / EFFECTIVE POOLmRNAPROTEIN
mRNAProteinRelative to initial abundance

Gene

SLOW POOLS

Loading molecular state.

0.00.81.6mrna: awaiting data fold of initial abundanceprotein: awaiting data fold of initial abundance0.0 min0.5 min1.0 minWaiting for simulation samples
mRNA—molecules
Protein—molecules
Translation—proteins/s
1.0× basal
Off5×

Activity changes in seconds. Expression changes take minutes to hours. Use 1000× to explore transcription perturbations.

Experiment

Live perturbations
1.0×
Direction: 20°

Acute inhibitors change activity; arrest preserves existing molecular pools.

applied on reset

Activity → motion

FAST STATE
Mean cortical actinSpeed / 15 µm·min⁻¹
0.00.61.3Mean cortical actin: awaiting data normalized activity and speedSpeed divided by 15 µm/min: awaiting data normalized activity and speed0.0 min0.5 min1.0 minWaiting for simulation samples

Environment & stress

Dose-dependent response · model thresholds

Heat induces chaperone expression and protein damage. Brief stress can recover; sustained severe stress can kill.

A normalized oxidant input damages proteins and membrane integrity. It is not a calibrated chemical concentration.

A reduced energy supply affects synthesis and motility. The energy pool is dimensionless, not an ATP molecule count.

ViableEnergy100%Unfolded proteins0.0%Membrane damage0.0%

Death is irreversible until reset. Survival kinetics are uncalibrated.