Threshold and delayNucleation barrier · concentration · valency
↓
03
Assembly and exchangeLocal enrichment · finite kinetics
↓
04
Persistence and resetLifetime · dissolution
↓
05
Transcriptional outputBurst frequency · duration · output
↶
Kinetic filteringRapid fluctuations may be attenuated; sustained inputs may accumulate.
Figures and interactive outputs are conceptual illustrations, not experimental measurements.
01 / DYNAMIC INPUT
Test the kinetic filter
Change pulse timing and assembly/reset kinetics to see how the model responds.
Live simulation
Assembly-favored regime
Input Condensate occupancy Transcription output
Peak assembly—
Peak output—
Residual assembly—
Compare the timing of the input, assembly and output curves, not just their peaks.
02 / FILTER BEHAVIOR
What kind of temporal filter emerges?
Select a behavior to inspect its predicted signature and competing explanations.
Model explorer
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DURATION GATING
Inputs must last long enough to assemble
Threshold-dependent nucleation introduces a delay. A brief signal may end before a stable assembly forms, while a sustained input can cross the threshold.
Predicted signatureA duration-response curve with a transition in condensate formation probability.
Alternative explanationCooperative transcription-factor binding or promoter-state switching can also create thresholds and delays.
03 / TRANSCRIPTIONAL BURSTING
From condensate kinetics to bursts
Explore the model's predicted links between assembly and transcriptional output.
Burst explorer
Predicted burst frequencyModerate
Predicted burst durationModerate
Output per burstModerate
Change condensate lifetime, enrichment and exchange to see how the model qualitatively maps these properties to bursting.
04 / CELLULAR OPERATING REGIME
Condensates work inside living cells
Choose a physiological context to explore what could shift assembly or reset kinetics.
Context matters
✳
Dynamic assemblies can remain responsive
Molecular exchange and reversible assembly may permit transcription-associated condensates to respond to changing inputs while enriching regulatory components locally.
MeasureInput timing, exchange kinetics and nascent RNA in the same cells.
05 / EXPERIMENT DESIGN
Build a causal test
Select a perturbation and measurement to generate predictions, controls and falsification criteria.
Study planner
Choose settings, then generate the plan.
EXPERIMENT PREDICTION
Brief vs sustained input
Defined input→Condensate kinetics→Nascent RNA
Apply defined signal patterns and quantify assembly, dissolution and transcription in the same cells.
IF KINETIC FILTERING CONTRIBUTES
Temporal outputs should track selectively altered condensate kinetics.
KEY ALTERNATIVES
Upstream signaling, DNA binding, chromatin or promoter-state switching may explain the output.
Primary readoutAssembly latency, lifetime and nascent RNA timing
Essential controlsMatched expression, localization, DNA binding and upstream signaling.
Falsification criterionTemporal transcription remains unchanged after a validated selective change in condensate kinetics.
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THE CENTRAL QUESTION
Do condensates decode time, or reflect transcription already in progress?
The model is useful only if controlled changes in condensate kinetics predictably change nascent transcription while competing mechanisms are measured and controlled.