Six readers
| reader | found | score |
|---|---|---|
| genetics Open Targets | genetic association 0.61 (overall 0.37) | 0.61 |
| cell type Human Protein Atlas | cell type enhanced, including astrocytes; strongest in ependymal cells | 0.75 |
| chemistry Open Targets | hard to drug | 0.00 |
| trials ClinicalTrials.gov | no Parkinson's trials on record: an open field | 1.00 |
| literature PubMed | 4 Parkinson's papers of 9 | 0.79 |
| pathways Reactome | in no curated pathway | 0.00 |
Knock down and overexpress FAM47E 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 FAM47E 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
- FAM47E in dopamine neurons, braak-0.05 (p 0.891) → +0.16 (p 0.672)receipt 0736
- FAM47E in astrocytes, braak-0.14 (p 0.722) → -0.24 (p 0.533)receipt 0735
Swarm cases
receipt 0736: FAM47E in dopamine neurons, braak
- power
- full sample +0.09 (p 0.709, n 18), 95% CI -0.39 to +0.54. the interval is wide: not enough donors to tell.
- confounder
- adjusted for sex: +0.08 (p 0.754, n 18). does not hold up.
- composition
- dopamine neurons share of nuclei vs axis +0.05 (p 0.854); controlling for it: -0.08 (p 0.748, n 18). could be the mix.
- skeptic
- leave-one-out range -0.02 to +0.23, sign flips 1; without severely affected donors +0.09 (p 0.709, n 18). fragile.
- cell type
- no other cell group does better.
- axis
- no measure beats "tracks Braak Lewy-body stage" for FAM47E in dopamine neurons.
case closed: nothing better to follow up.
receipt 0735: FAM47E in astrocytes, braak
- power
- full sample -0.14 (p 0.579, n 18), 95% CI -0.57 to +0.35. the interval is wide: not enough donors to tell.
- confounder
- adjusted for sex: -0.19 (p 0.444, n 18). does not hold up.
- composition
- astrocytes share of nuclei vs axis -0.21 (p 0.413); controlling for it: -0.20 (p 0.434, n 18). could be the mix.
- skeptic
- leave-one-out range -0.27 to -0.04, sign flips 0; without severely affected donors -0.14 (p 0.579, n 18). fragile.
- cell type
- no other cell group does better.
- axis
- no measure beats "tracks Braak Lewy-body stage" for FAM47E in astrocytes.
case closed: nothing better to follow up.
Receipts
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