Six readers
| reader | found | score |
|---|---|---|
| genetics Open Targets | genetic association 0.09 (overall 0.06) | 0.09 |
| cell type Human Protein Atlas | cell type enhanced in astrocytes (39 nCPM) | 1.00 |
| chemistry Open Targets | a small-molecule pocket | 0.60 |
| trials ClinicalTrials.gov | no Parkinson's trials on record: an open field | 1.00 |
| literature PubMed | 2 Parkinson's papers of 379 | 0.85 |
| pathways Reactome | 6 pathways; mostly other | 0.30 |
Knock down and overexpress SCRIB in astrocytes; measure a transcriptome-wide state shift (bulk RNA-seq) and α-synuclein uptake and degradation, and dopamine neuron survival in co-culture.
- Cell type
- astrocytes
- Direction
- Both arms: public data does not say which way helps.
- Molecular readout
- a transcriptome-wide state shift (bulk RNA-seq)
- Functional readout
- α-synuclein uptake and degradation, and dopamine neuron survival in co-culture
- Rule-out
- If neither arm moves a transcriptome-wide state shift (bulk RNA-seq) by 20% or more against non-targeting and empty-vector controls, across three independent differentiations, the hypothesis is wrong.
- Lab request
- CRISPRi knockdown and lentiviral overexpression of SCRIB in iPSC-derived midbrain astrocytes; n = 3 differentiations; readouts: a transcriptome-wide state shift (bulk RNA-seq); α-synuclein uptake and degradation, and dopamine neuron survival in co-culture. Controls: non-targeting guide, empty vector. About 8 to 10 weeks, most of it differentiation.
Sealed predictions
- SCRIB in dopamine neurons, braak+0.30 (p 0.430) → -0.76 (p 0.018)receipt 4579
- SCRIB in astrocytes, braak+0.25 (p 0.518) → +0.40 (p 0.288)receipt 4578
Swarm cases
receipt 4579: SCRIB in dopamine neurons, braak
- power
- full sample -0.32 (p 0.201, n 18), 95% CI -0.68 to +0.18. the interval is wide: not enough donors to tell.
- confounder
- adjusted for sex: -0.33 (p 0.182, n 18). does not hold up.
- composition
- dopamine neurons share of nuclei vs axis +0.05 (p 0.854); controlling for it: -0.30 (p 0.228, n 18). could be the mix.
- skeptic
- leave-one-out range -0.44 to -0.23, sign flips 0; without severely affected donors -0.32 (p 0.201, n 18). fragile.
- cell type
- no other cell group does better.
- axis
- no measure beats "tracks Braak Lewy-body stage" for SCRIB in dopamine neurons.
case closed: nothing better to follow up.
receipt 4578: SCRIB in astrocytes, braak
- power
- full sample +0.29 (p 0.250, n 18), 95% CI -0.21 to +0.66. the interval is wide: not enough donors to tell.
- confounder
- adjusted for sex: +0.30 (p 0.232, n 18). does not hold up.
- composition
- astrocytes share of nuclei vs axis -0.21 (p 0.413); controlling for it: +0.22 (p 0.384, n 18). could be the mix.
- skeptic
- leave-one-out range +0.20 to +0.46, sign flips 0; without severely affected donors +0.29 (p 0.250, n 18). fragile.
- cell type
- no other cell group does better.
- axis
- no measure beats "tracks Braak Lewy-body stage" for SCRIB in astrocytes.
case closed: nothing better to follow up.
Receipts
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