Dataset updated 02/21/2019
NG00034 - ACT and Genetic Differences genotype, phenotype, covariate and imputation data files

This GWAS dataset was used in the discovery stage of the ADGC Naj et al. meta-analysis from 2011.
It is one of the ten cohorts assembled by ADGC to identify genetic variants in LOAD.

The Adult Changes in Thought (ACT) study is a longitudinal prospective cohort study that began in 1994.  
Participants are randomly selected from Seattle area members of Group Health aged 65 years or older.  
Participants are cognitively intact at study enrollment, defined operationally as a CASI (Cognitive Abilities Screening Instrument) score of >85 or consensus diagnosis of "not demented" following comprehensive neurological and neuropsychological assessment.
Incident cases of dementia are identified with the same 2-stage sampling scheme, where all participants with CASI scores <86 are evaluated with a comprehensive neurological and neuropsychological assessment, and all results are considered at a consensus conference. 

Genetic Differences (GenDiff) was an epidemiologic case control study. Cases were newly recognized (e.g, "incident") "Probable AD" (McKhann criteria NINCDS-ADRDA).
Subjects were discovered and diagnosed by the Alzheimer's Disease Patient Registry from a community based HMO. Controls were selected at random from the same HMO, without cognitive impairment, and frequency matched for age and sex.
They were also cognitively screened and followed. Genetic Differences was funded through R01 AG007584.

This dataset was generated in 2009.  While ACT is continutally enrolling subjects, Genetic Differences has completed enrollment.

Due to consent updates, the following IDs were removed:
ACT150544
ACT95171
ACT96934
ACT90269
ACT92992
ACT90767
ACT95300
ACT95313
ACT91447
ACT90210
ACT94207
ACT94519
ACT92489
ACT92198
ACT96312
ACT92441
ACT90167
ACT96259
ACT95414
ACT93844
ACT92373
ACT92850
ACT91887
ACT90285
ACT95410
ACT96207
ACT94971
ACT91456
ACT150402
ACT90188
ACT90993
ACT93740
ACT94830
ACT90717
ACT92225
ACT92362
ACT93277
ACT92116
ACT90536
ACT96438
ACT93375
ACT91731
ACT91590
ACT91733
ACT95334
ACT92242
ACT90619
ACT96600
ACT94173
ACT92870
ACT95140
ACT92613
ACT93577
ACT96969
ACT91207
ACT90906
ACT95386
ACT93065
ACT91776
ACT96512
ACT97489
ACT96605
ACT93734
ACT92222
ACT91225
ACT99299
ACT92154
ACT99469
ACT91746
ACT99049
ACT94534
ACT92086
ACT94889
ACT90591
ACT91432
ACT90419
ACT91549
ACT93435
ACT92755
ACT92321
ACT92709
ACT97617
ACT98822
ACT93243
ACT91994
ACT92433
ACT90088
ACT94109
ACT96813
ACT91807
ACT90917
ACT94756
ACT91239
ACT94870
ACT94977
ACT91978
ACT93615
ACT91672
ACT90861
ACT91800
ACT92929
ACT93877
ACT91489
ACT90159
ACT95670
ACT90422
ACT91409
ACT91538
ACT93711
ACT95810
ACT96129
ACT96114
ACT93446
ACT94973
ACT95348
ACT90456
ACT90608
ACT90797
ACT93180
ACT93797
ACT94460
ACT91627
ACT92496
ACT94407
ACT95231
ACT92147
ACT92021
ACT95123
ACT90207
ACT91955
ACT93371
ACT94158
ACT94925
ACT92093
ACT91196
ACT91302
ACT95734
ACT90348
ACT97206
ACT91058
ACT91427
ACT90510
ACT95088
ACT90596
ACT97246
ACT95668
ACT93473
ACT90307
ACT94663
ACT90466
ACT90915
ACT92665
ACT94472
ACT94310
ACT90844
ACT93307
ACT96388
ACT93173
ACT92085
ACT95821
ACT92465
ACT91310
ACT91720
ACT96279
ACT96286
ACT93091
ACT93361
ACT91107
ACT92380
ACT92964
ACT92130
ACT94249
ACT95206
ACT93736
ACT90858
ACT98222
ACT91428
ACT95439
ACT90690
ACT91950
ACT92437
ACT93981
ACT93068
ACT96054
ACT91444
ACT90295
ACT93332
ACT96252
ACT93890
ACT91924
ACT90709
ACT92930
ACT90332
ACT94272
ACT97924
ACT94058
ACT91929
ACT96553
ACT90838
ACT92756
ACT94065
ACT91635
ACT91521
ACT96649
ACT93994
ACT96093
ACT93388
ACT91393
ACT98619
ACT93971
ACT91209
ACT92212
ACT96143

The covariate file was generated by ADGC in 2013. The only updates were to remove the IDs listed above.
1000G March 2012 imputation data has been added and has replaced 1000G December 2010 and HapMap2 Imputation Data. If you would like access to either 1000G Dec 2010 or HapMap2 imputation data, please contact NIAGADS.

Subject Consent file: NG00034_ACT_GenDiff_Consent.xlsx
Genotype files: NG00034_ACT_GenDiff_genotype.*
Phenotype file: NG00034_ACT_GenDiff_phenotype_withConsent.xlsx
Phenotype Data Dictionary: Phenotype_Data_dictionary.xlsx
Covariate file: NG00034_ACT_GenDiff.covar.2013Dec06.txt
Covariate Data Dictionary: ADGC_covar_Data_Dictionary.xlsx
Imputation Data: NG00034_ACT_GenDiff_1000GMar2012.tar.gz