Six readers
| reader | found | score |
|---|---|---|
| genetics Open Targets | no genetic evidence; overall 0.04 from other evidence | 0.00 |
| cell type Human Protein Atlas | cell type enhanced in oligodendrocytes (161 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 | no papers tie it to Parkinson's yet | 1.00 |
| pathways Reactome | 13 pathways; mostly other | 0.30 |
Knock down and overexpress NDE1 in oligodendrocytes; measure a transcriptome-wide state shift (bulk RNA-seq) and α-synuclein uptake and myelin basic protein output under oxidative stress.
- Cell type
- oligodendrocytes
- 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 myelin basic protein output under oxidative stress
- 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 NDE1 in iPSC-derived oligodendrocytes; n = 3 differentiations; readouts: a transcriptome-wide state shift (bulk RNA-seq); α-synuclein uptake and myelin basic protein output under oxidative stress. Controls: non-targeting guide, empty vector. About 8 to 10 weeks, most of it differentiation.
Sealed predictions
- NDE1 in oligodendrocytes, braak-0.53 (p 0.138) → -0.40 (p 0.287)receipt 6196
- NDE1 in dopamine neurons, braak-0.03 (p 0.946) → -0.53 (p 0.145)receipt 6197
Swarm cases
receipt 6197: NDE1 in dopamine neurons, braak
- power
- full sample -0.27 (p 0.273, n 18), 95% CI -0.66 to +0.22. the interval is wide: not enough donors to tell.
- confounder
- adjusted for sex: -0.18 (p 0.487, n 18). does not hold up.
- composition
- dopamine neurons share of nuclei vs axis +0.05 (p 0.854); controlling for it: -0.18 (p 0.471, n 18). could be the mix.
- skeptic
- leave-one-out range -0.46 to -0.19, sign flips 0; without severely affected donors -0.27 (p 0.273, n 18). fragile.
- cell type
- no other cell group does better.
- axis
- no measure beats "tracks Braak Lewy-body stage" for NDE1 in dopamine neurons.
case closed: nothing better to follow up.
receipt 6196: NDE1 in oligodendrocytes, braak
- power
- full sample -0.44 (p 0.067, n 18), 95% CI -0.75 to +0.03. the interval is wide: not enough donors to tell.
- confounder
- adjusted for sex: -0.43 (p 0.075, n 18). does not hold up.
- composition
- oligodendrocytes share of nuclei vs axis +0.03 (p 0.915); controlling for it: -0.46 (p 0.052, n 18). could be the mix.
- skeptic
- leave-one-out range -0.55 to -0.37, sign flips 0; without severely affected donors -0.44 (p 0.067, n 18). robust.
- cell type
- no other cell group does better.
- axis
- no measure beats "tracks Braak Lewy-body stage" for NDE1 in oligodendrocytes.
case closed: nothing better to follow up.
Receipts
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