Protocol detail

Cerebellar and Temporal Cortex mRNA Expression GWAS

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These data were generated and previously reported in a brain expression GWAS (eGWAS) by Zou and colleagues^{23 (link)}, where the detailed mRNA extraction and quality assessment using RNAqueous kit (Ambion, Grand Island, NY) and RNA 6000 Nano Chip (Agilent, Santa Clara, CA), Whole Genome DASL assay (Illumina, San Diego, CA), and data quality control methods can be found. This eGWAS cohort included 374 cerebellar and 399 temporal cortex mRNA samples from the Mayo Clinic Florida Brain Bank. Neuropathologic diagnoses for the cohort include Alzheimer’s disease, PSP, CBD, Lewy body disease, frontotemporal lobar degeneration, and other diagnoses (Supplementary Table 7). The Bonferroni P-value threshold for SNP/transcript association significance was P < 1.56 × 10⁻³ (four SNPs and eight probes).

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Kouri N., Ross O.A., Dombroski B., Younkin C.S., Serie D.J., Soto-Ortolaza A., Baker M., Finch N.C., Yoon H., Kim J., Fujioka S., McLean C.A., Ghetti B., Spina S., Cantwell L.B., Farlow M.R., Grafman J., Huey E.D., Ryung Han M., Beecher S., Geller E.T., Kretzschmar H.A., Roeber S., Gearing M., Juncos J.L., Vonsattel J.P., Van Deerlin V.M., Grossman M., Hurtig H.I., Gross R.G., Arnold S.E., Trojanowski J.Q., Lee V.M., Wenning G.K., White C.L., Höglinger G.U., Müller U., Devlin B., Golbe L.I., Crook J., Parisi J.E., Boeve B.F., Josephs K.A., Wszolek Z.K., Uitti R.J., Graff-Radford N.R., Litvan I., Younkin S.G., Wang L.S., Ertekin-Taner N., Rademakers R., Hakonarsen H., Schellenberg G.D, & Dickson D.W. (2015). Genome-wide association study of corticobasal degeneration identifies risk variants shared with progressive supranuclear palsy. Nature Communications, 6, 7247.

Publication 2015

RNAqueous kit RNA 6000 Nano Chip Whole Genome DASL assay

Assay Brain Cerebellar Chip Diagnoses Frontotemporal lobar degeneration Genome Gwas Lewy body disease Mrna Snps Temporal cortex

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Protocol cited in 3 other protocols

Variable analysis

independent variables

Four SNPs

dependent variables

Eight mRNA probes

control variables

Neuropathologic diagnoses for the cohort include Alzheimer's disease, PSP, CBD, Lewy body disease, frontotemporal lobar degeneration, and other diagnoses

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