Next-generation genotype imputation service and methods
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DNA samples were matched to the RNA-seq data to confirm the same donor origin, and sex mismatching samples were removed.
“DNA samples were matched to the RNA-seq data to confirm the same donor origin using the MBV tool from QTLtools98 (Supplementary Fig. 10b) and sex mismatching samples were removed by comparing DNA inferred sex from PLINK to RNA gene expression of the UTY and XIST genes (Supplementary Fig. 10c).”
From Genetic analysis of the human microglial transcriptome across brain regions, aging and disease pathologies (2022) · cites this paper as [98]
Imputation was performed to 1000 Genome Project Phase 3 using Michigan Imputation Server, and SNPs with R2>0.3 were retained.
“For samples with array-based genotypes, imputation was performed to 1000 Genome Project Phase 370 using the Michigan Imputation Server71, and SNPs with R2>0.3 were retained.”
From Mapping the microRNA landscape in the older adult brain and its genetic contribution to neuropsychiatric conditions (2024) · cites this paper as [71]
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- Authors
- Das, S., Forer, L., Schönherr, S., Sidore, C., Locke, A. E., Kwong, A., Vrieze, S. I., Chew, E. Y., Levy, S., McGue, M., Schlessinger, D., Stambolian, D., Loh, P.-R., Iacono, W. G., Swaroop, A., Scott, L. J., Cucca, F., Kronenberg, F., Boehnke, M., Abecasis, G. R., & Fuchsberger, C.
- Venue
- Nature Genetics
- Published
- 2016-08-29
- Volume
- 48
- Issue
- 10
- Pages
- 1284-1287
- ISSN
- 1061-4036
- 1546-1718
- PMC
- PMC5157836
- Cited by
- 4,190
- References
- 8
- Language
- en
- Licence
- www.springer.com/tdm (tdm)
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
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