| Id: | gene_properties/gene_scores/new/pLI |
| Type: | gene_score |
| Version: | 0 |
| Summary: |
Probability of Loss-of-Function Intolerance |
| Description: |
The probability of loss-of-function intolerance (pLI) score reflects a gene's sensitivity to LoF mutations, with higher scores indicating greater intolerance. It's calculated by comparing observed versus expected protein-truncating variants (PTVs), where a pLI near 1 suggests LoF mutations are likely deleterious. Genes with pLI >= 0.9 are strongly considered LoF-intolerant, often associated with haploinsufficiency and dominant genetic diseases. pLI calculations utilize human genetic diversity data from large-scale databases, including the Exome Aggregation Consortium (ExAC) and gnomAD. Lek et al., Analysis of protein-coding genetic variation in 60,706 humans, Nature 2016 Downloaded on: 10/24/25 Dataprep.py takes the pLI column from Supplementary Table 13 "Gene Constraint" sheet and adds a pLI_rank column. |
| Labels: |
| ID | Type | Description | Histograms | Range |
|---|---|---|---|---|
| pLI |
Probability of Loss-of-Function Intolerance
Small values desc: less likely to be Loss-of-function intolerant
Large values desc: more likely to be Loss-of-function intolerant
|
|
[5.36e-91, 1] | |
| pLI_rank |
Gene rank after sorting by pLI intolerance score
Small values desc: less likely to be Loss-of-function intolerant
Large values desc: more likely to be Loss-of-function intolerant
|
|
[7.5, 1.82e+04] |
| Filename | Size | md5 |
|---|---|---|
| dataprep.py | 522.0 B | 36efc66f7c02353d1304ce5b553068db |
| genomic_resource.yaml | 1.74 KB | 09e112a8f1dda8f19322dbec2093b9a8 |
| nature19057-SI Table 13.xlsx | 5.55 MB | 183617a934bf63b9df992104391bbecc |
| pLI.csv | 589.83 KB | 60ea0afbe92bd623ffc610b71c4af8b6 |
| statistics/ |