Six readers
| reader | found | score |
|---|---|---|
| genetics Open Targets | genetic association 0.10 (overall 0.06) | 0.10 |
| cell type Human Protein Atlas | expressed broadly, no clear home in brain cells | 0.40 |
| 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 91 | 0.85 |
| pathways Reactome | 37 pathways; mostly protein handling | 0.90 |
Knock down and overexpress UBE2D1 in a dopamine neuron, astrocyte and microglia tri-culture; measure proteasome activity and the load of ubiquitinated protein and dopamine neuron survival after α-synuclein fibril challenge.
- Cell type
- a dopamine neuron, astrocyte and microglia tri-culture
- Direction
- Both arms: public data does not say which way helps.
- Molecular readout
- proteasome activity and the load of ubiquitinated protein
- Functional readout
- dopamine neuron survival after α-synuclein fibril challenge
- Rule-out
- If neither arm moves proteasome activity 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 UBE2D1 in a tri-culture of iPSC dopamine neurons, astrocytes and microglia; n = 3 differentiations; readouts: proteasome activity and the load of ubiquitinated protein; dopamine neuron survival after α-synuclein fibril challenge. Controls: non-targeting guide, empty vector. About 8 to 10 weeks, most of it differentiation.
Sealed predictions
- UBE2D1 in dopamine neurons, braak+0.28 (p 0.458) → -0.20 (p 0.613)receipt 4272
Swarm cases
receipt 4272: UBE2D1 in dopamine neurons, braak
- power
- full sample -0.00 (p 0.990, n 18), 95% CI -0.47 to +0.46. the interval is wide: not enough donors to tell.
- confounder
- adjusted for sex: +0.02 (p 0.928, n 18). does not hold up.
- composition
- dopamine neurons share of nuclei vs axis +0.05 (p 0.854); controlling for it: +0.02 (p 0.949, n 18). could be the mix.
- skeptic
- leave-one-out range -0.12 to +0.11, sign flips 9; without severely affected donors -0.00 (p 0.990, n 18). fragile.
- cell type
- no other cell group does better.
- axis
- no measure beats "tracks Braak Lewy-body stage" for UBE2D1 in dopamine neurons.
case closed: nothing better to follow up.
Receipts
loading the receipts