Protocol detail

Genome-wide Genotyping and Imputation

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Genome-wide genotyping of participants within our recruitment pool was previously performed using a range of genotyping arrays including Illumina chips designed using HapMap references (317 K, 370 K, 610 K, 660 K) and more recent Illumina arrays designed using the 1KGP reference (Core + Exome, PsychArray, OmniExpress) as previously detailed (Cuellar-Partida et al., 2015 (link), Medland et al., 2009 (link)). All datasets have been combined with strict quality control procedures and imputed to the Haplotype Reference Consortium (HRC) Release 1 reference panel (McCarthy et al., 2016 (link)).

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Lupton M.K., Robinson G.A., Adam R.J., Rose S., Byrne G.J., Salvado O., Pachana N.A., Almeida O.P., McAloney K., Gordon S.D., Raniga P., Fazlollahi A., Xia Y., Ceslis A., Sonkusare S., Zhang Q., Kholghi M., Karunanithi M., Mosley P.E., Lv J., Borne L., Adsett J., Garden N., Fripp J., Martin N.G., Guo C.C, & Breakspear M. (2020). A prospective cohort study of prodromal Alzheimer’s disease: Prospective Imaging Study of Ageing: Genes, Brain and Behaviour (PISA). NeuroImage : Clinical, 29, 102527.

Publication 2020

Core + Exome PsychArray

Chips Exome Genome Haplotype Hapmap

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Variable analysis

independent variables

Not explicitly mentioned

dependent variables

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control variables

Genome-wide genotyping of participants within our recruitment pool was previously performed using a range of genotyping arrays including Illumina chips designed using HapMap references (317 K, 370 K, 610 K, 660 K) and more recent Illumina arrays designed using the 1KGP reference (Core + Exome, PsychArray, OmniExpress)
All datasets have been combined with strict quality control procedures and imputed to the Haplotype Reference Consortium (HRC) Release 1 reference panel

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