Salt Extraction Profile
Summarize a chromatin salt-extraction solubility profile.
Description
A salt-extraction profile summarizes a supplied fraction series and its concentration-weighted center.
A salt-extraction profile summarizes a supplied fraction series and its concentration-weighted center.1
Summarize a chromatin salt-extraction solubility profile.
When to use Salt Extraction Profile
Use this tool to summarize a chromatin salt-extraction solubility profile.
Prepare the already measured signals, counts, coordinates, fitted coefficients or sequence strings requested. Keep assay definitions, units, aligned lists and caller-selected thresholds consistent.
How to use Salt Extraction Profile and understand its results
- Prepare the already measured signals, counts, coordinates, fitted coefficients or sequence strings requested. Keep assay definitions, units, aligned lists and caller-selected thresholds consistent.
- Enter saltConcentrationsMm, solubleFractions using the field table and calculation rules, then run the tool.
- Read peakSolubilityConcentrationMm, peakSolubleFraction, weightedMeanConcentrationMm. The explanation below defines the units, signs, ordering and any flags or placeholder values.
- If the tool reports an input issue, correct the values and run it again. Apply the stated assumptions when interpreting a successfully returned result.
| Input field | Meaning | Value type; see rules below | Requirement |
|---|---|---|---|
| saltConcentrationsMm | Salt concentrations (mM) | list of number | Required |
| solubleFractions | Soluble chromatin fractions | list of number | Required |
Enter nonempty aligned finite concentrations and nonnegative fractions with positive total. Return first maximum-fraction position and weighted concentration.
weightedConcentration=Σ(concentration×fraction)/Σfraction Units, indexing, boundary conditions and exceptional cases are defined in the calculation rules above.
| Output field | Meaning | Value type |
|---|---|---|
| peakSolubilityConcentrationMm | Concentration at peak solubility (mM) | number |
| peakSolubleFraction | Peak soluble fraction | number |
| weightedMeanConcentrationMm | Solubility-weighted concentration (mM) | number |
{
"input": {
"saltConcentrationsMm": [
100,
300,
500
],
"solubleFractions": [
0.1,
0.6,
0.3
]
},
"output": {
"peakSolubilityConcentrationMm": 300,
"peakSolubleFraction": 0.6,
"weightedMeanConcentrationMm": 340
}
}Limitations and assumptions
Concentrations need not be ordered; fractions need not sum to one. No affinity is inferred.
Numeric inputs, where present, must be finite. Follow the calculation-specific rules for overflow, underflow and exceptional cases. Lists are limited to 100,000 entries; the rules above may require smaller limits. Missing required fields, extra fields, wrong value types and violations of the calculation rules are input errors.
Alternative or Complementary methods
Use HP1 Enrichment: Calculate HP1 enrichment after background correction. For a complementary task, use H2A.Z Enrichment: Calculate H2A.Z enrichment relative to H2A.
References
-
Salt Extraction Profile — tool.io
Similar or alternative tools
- HP1 Enrichment
Calculate HP1 enrichment after background correction.
- H2A.Z Enrichment
Calculate H2A.Z enrichment relative to H2A.