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Humans

J. H. Lee, Mayeux, R., Mayo, D., Mo, J., Santana, V., Williamson, J., Flaquer, A., Ciappa, A., Rondon, H., Estevez, P., Lantigua, R., Kawarai, T., Toulina, A., Medrano, M., Torres, M., Stern, Y., Tycko, B., Rogaeva, E., St George-Hyslop, P., and Knowles, J. A., “Fine mapping of 10q and 18q for familial Alzheimer's disease in Caribbean Hispanics.”, Mol Psychiatry, vol. 9, no. 11, pp. 1042-51, 2004.

Y. Deming, Li, Z., Kapoor, M., Harari, O., Del-Aguila, J. L., Black, K., Carrell, D., Cai, Y., Fernández, M. Victoria, Budde, J., Ma, S., Saef, B., Howells, B., Huang, K. - L., Bertelsen, S., Fagan, A. M., Holtzman, D. M., Morris, J. C., Kim, S., Saykin, A. J., De Jager, P. L., Albert, M., Moghekar, A., O'Brien, R., Riemenschneider, M., Petersen, R. C., Blennow, K., Zetterberg, H., Minthon, L., Van Deerlin, V. M., Lee, V. Man- Yee, Shaw, L. M., Trojanowski, J. Q., Schellenberg, G., Haines, J. L., Mayeux, R., Pericak-Vance, M. A., Farrer, L. A., Peskind, E. R., Li, G., Di Narzo, A. F., Kauwe, J. S. K., Goate, A. M., and Cruchaga, C., “Genome-wide association study identifies four novel loci associated with Alzheimer's endophenotypes and disease modifiers.”, Acta Neuropathol, vol. 133, no. 5, pp. 839-856, 2017.

Y. - C. Hwang, Zheng, Q., Gregory, B. D., and San Wang, L. -, “High-throughput identification of long-range regulatory elements and their target promoters in the human genome.”, Nucleic Acids Res, vol. 41, no. 9, pp. 4835-46, 2013.

P. L. Kramer, Xu, H., Woltjer, R. L., Westaway, S. K., Clark, D., Erten-Lyons, D., Kaye, J. A., Welsh-Bohmer, K. A., Troncoso, J. C., Markesbery, W. R., Petersen, R. C., R Turner, S., Kukull, W. A., Bennett, D. A., Galasko, D., Morris, J. C., and Ott, J., “Alzheimer disease pathology in cognitively healthy elderly: a genome-wide study.”, Neurobiol Aging, vol. 32, no. 12, pp. 2113-22, 2011.

Y. Deming, Xia, J., Cai, Y., Lord, J., Holmans, P., Bertelsen, S., Holtzman, D., Morris, J. C., Bales, K., Pickering, E. H., Kauwe, J., Goate, A., and Cruchaga, C., “A potential endophenotype for Alzheimer's disease: cerebrospinal fluid clusterin.”, Neurobiol Aging, vol. 37, pp. 208.e1-208.e9, 2016.

K. - L. Huang, Marcora, E., Pimenova, A. A., Di Narzo, A. F., Kapoor, M., Jin, S. Chih, Harari, O., Bertelsen, S., Fairfax, B. P., Czajkowski, J., Chouraki, V., Grenier-Boley, B., Bellenguez, C., Deming, Y., McKenzie, A., Raj, T., Renton, A. E., Budde, J., Smith, A., Fitzpatrick, A., Bis, J. C., DeStefano, A., Adams, H. H. H., M Ikram, A., van der Lee, S., Del-Aguila, J. L., Fernández, M. Victoria, Ibañez, L., Sims, R., Escott-Price, V., Mayeux, R., Haines, J. L., Farrer, L. A., Pericak-Vance, M. A., Lambert, J. Charles, van Duijn, C., Launer, L., Seshadri, S., Williams, J., Amouyel, P., Schellenberg, G. D., Zhang, B., Borecki, I., Kauwe, J. S. K., Cruchaga, C., Hao, K., and Goate, A. M., “A common haplotype lowers PU.1 expression in myeloid cells and delays onset of Alzheimer's disease.”, Nat Neurosci, vol. 20, no. 8, pp. 1052-1061, 2017.

Y. Yee Leung, Kuksa, P. P., Amlie-Wolf, A., Valladares, O., Ungar, L. H., Kannan, S., Gregory, B. D., and San Wang, L. -, “DASHR: database of small human noncoding RNAs.”, Nucleic Acids Res, vol. 44, no. D1, pp. D216-22, 2016.

M. Daniele Fallin, Szymanski, M., Wang, R., Gherman, A., Bassett, S. S., and Avramopoulos, D., “Fine mapping of the chromosome 10q11-q21 linkage region in Alzheimer's disease cases and controls.”, Neurogenetics, vol. 11, no. 3, pp. 335-48, 2010.

M. I. Kamboh, Barmada, M. M., Demirci, F. Y., Minster, R. L., Carrasquillo, M. M., Pankratz, V. S., Younkin, S. G., Saykin, A. J., Sweet, R. A., Feingold, E., DeKosky, S. T., and Lopez, O. L., “Genome-wide association analysis of age-at-onset in Alzheimer's disease.”, Mol Psychiatry, vol. 17, no. 12, pp. 1340-6, 2012.

D. Mastroeni, Sekar, S., Nolz, J., Delvaux, E., Lunnon, K., Mill, J., Liang, W. S., and Coleman, P. D., “ANK1 is up-regulated in laser captured microglia in Alzheimer's brain; the importance of addressing cellular heterogeneity.”, PLoS One, vol. 12, no. 7, p. e0177814, 2017.

Y. Yee Leung, Ryvkin, P., Ungar, L. H., Gregory, B. D., and San Wang, L. -, “CoRAL: predicting non-coding RNAs from small RNA-sequencing data.”, Nucleic Acids Res, vol. 41, no. 14, p. e137, 2013.

Y. - J. Li, Scott, W. K., Zhang, L., Lin, P. - I., Oliveira, S. A., Skelly, T., Doraiswamy, M. P., Welsh-Bohmer, K. A., Martin, E. R., Haines, J. L., Pericak-Vance, M. A., and Vance, J. M., “Revealing the role of glutathione S-transferase omega in age-at-onset of Alzheimer and Parkinson diseases.”, Neurobiol Aging, vol. 27, no. 8, pp. 1087-93, 2006.

C. Cruchaga, Kauwe, J. S. K., Harari, O., Jin, S. Chih, Cai, Y., Karch, C. M., Benitez, B. A., Jeng, A. T., Skorupa, T., Carrell, D., Bertelsen, S., Bailey, M., McKean, D., Shulman, J. M., De Jager, P. L., Chibnik, L., Bennett, D. A., Arnold, S. E., Harold, D., Sims, R., Gerrish, A., Williams, J., Van Deerlin, V. M., Lee, V. M. - Y., Shaw, L. M., Trojanowski, J. Q., Haines, J. L., Mayeux, R., Pericak-Vance, M. A., Farrer, L. A., Schellenberg, G. D., Peskind, E. R., Galasko, D., Fagan, A. M., Holtzman, D. M., Morris, J. C., and Goate, A. M., “GWAS of cerebrospinal fluid tau levels identifies risk variants for Alzheimer's disease.”, Neuron, vol. 78, no. 2, pp. 256-68, 2013.

M. Victoria Fernández, Kim, J. Hun, Budde, J. P., Black, K., Medvedeva, A., Saef, B., Deming, Y., Del-Aguila, J., Ibañez, L., Dube, U., Harari, O., Norton, J., Chasse, R., Morris, J. C., Goate, A., and Cruchaga, C., “Analysis of neurodegenerative Mendelian genes in clinically diagnosed Alzheimer Disease.”, PLoS Genet, vol. 13, no. 11, p. e1007045, 2017.

C. - F. Lin, Naj, A. C., and San Wang, L. -, “Analyzing copy number variation using SNP array data: protocols for calling CNV and association tests.”, Curr Protoc Hum Genet, vol. 79, p. Unit 1.27., 2013.

X. Liang, Schnetz-Boutaud, N., Kenealy, S. J., Jiang, L., Bartlett, J., Lynch, B., Gaskell, P. C., Gwirtsman, H., McFarland, L., Bembe, M. L., Bronson, P., Gilbert, J. R., Martin, E. R., Pericak-Vance, M. A., and Haines, J. L., “Covariate analysis of late-onset Alzheimer disease refines the chromosome 12 locus.”, Mol Psychiatry, vol. 11, no. 3, pp. 280-5, 2006.

A. C. Naj, Jun, G., Reitz, C., Kunkle, B. W., Perry, W., Park, Y. Son, Beecham, G. W., Rajbhandary, R. A., Hamilton-Nelson, K. L., San Wang, L. -, Kauwe, J. S. K., Huentelman, M. J., Myers, A. J., Bird, T. D., Boeve, B. F., Baldwin, C. T., Jarvik, G. P., Crane, P. K., Rogaeva, E., M Barmada, M., F Demirci, Y., Cruchaga, C., Kramer, P. L., Ertekin-Taner, N., Hardy, J., Graff-Radford, N. R., Green, R. C., Larson, E. B., St George-Hyslop, P. H., Buxbaum, J. D., Evans, D. A., Schneider, J. A., Lunetta, K. L., M Kamboh, I., Saykin, A. J., Reiman, E. M., De Jager, P. L., Bennett, D. A., Morris, J. C., Montine, T. J., Goate, A. M., Blacker, D., Tsuang, D. W., Hakonarson, H., Kukull, W. A., Foroud, T. M., Martin, E. R., Haines, J. L., Mayeux, R. P., Farrer, L. A., Schellenberg, G. D., Pericak-Vance, M. A., Albert, M. S., Albin, R. L., Apostolova, L. G., Arnold, S. E., Barber, R., Barnes, L. L., Beach, T. G., Becker, J. T., Beekly, D., Bigio, E. H., Bowen, J. D., Boxer, A., Burke, J. R., Cairns, N. J., Cantwell, L. B., Cao, C., Carlson, C. S., Carney, R. M., Carrasquillo, M. M., Carroll, S. L., Chui, H. C., Clark, D. G., Corneveaux, J., Cribbs, D. H., Crocco, E. A., DeCarli, C., DeKosky, S. T., Dick, M., Dickson, D. W., Duara, R., Faber, K. M., Fallon, K. B., Farlow, M. R., Ferris, S., Frosch, M. P., Galasko, D. R., Ganguli, M., Gearing, M., Geschwind, D. H., Ghetti, B., Gilbert, J. R., Glass, J. D., Growdon, J. H., Hamilton, R. L., Harrell, L. E., Head, E., Honig, L. S., Hulette, C. M., Hyman, B. T., Jicha, G. A., Jin, L. - W., Karydas, A., Kaye, J. A., Kim, R., Koo, E. H., Kowall, N. W., Kramer, J. H., LaFerla, F. M., Lah, J. J., Leverenz, J. B., Levey, A. I., Li, G., Lieberman, A. P., Lin, C. - F., Lopez, O. L., Lyketsos, C. G., Mack, W. J., Martiniuk, F., Mash, D. C., Masliah, E., McCormick, W. C., McCurry, S. M., McDavid, A. N., McKee, A. C., Mesulam, M., Miller, B. L., Miller, C. A., Miller, J. W., Murrell, J. R., Olichney, J. M., Pankratz, V. S., Parisi, J. E., Paulson, H. L., Peskind, E., Petersen, R. C., Pierce, A., Poon, W. W., Potter, H., Quinn, J. F., Raj, A., Raskind, M., Reisberg, B., Ringman, J. M., Roberson, E. D., Rosen, H. J., Rosenberg, R. N., Sano, M., Schneider, L. S., Seeley, W. W., Smith, A. G., Sonnen, J. A., Spina, S., Stern, R. A., Tanzi, R. E., Thornton-Wells, T. A., Trojanowski, J. Q., Troncoso, J. C., Valladares, O., Van Deerlin, V. M., Van Eldik, L. J., Vardarajan, B. N., Vinters, H. V., Vonsattel, J. Paul, Weintraub, S., Welsh-Bohmer, K. A., Williamson, J., Wishnek, S., Woltjer, R. L., Wright, C. B., Younkin, S. G., Yu, C. - E., and Yu, L., “Effects of multiple genetic loci on age at onset in late-onset Alzheimer disease: a genome-wide association study.”, JAMA Neurol, vol. 71, no. 11, pp. 1394-404, 2014.

R. A. Nafikov, Nato, A. Q., Sohi, H., Wang, B., Brown, L., Horimoto, A. R., Vardarajan, B. N., Barral, S. M., Tosto, G., Mayeux, R. P., Thornton, T. A., Blue, E., and Wijsman, E. M., “Analysis of pedigree data in populations with multiple ancestries: Strategies for dealing with admixture in Caribbean Hispanic families from the ADSP.”, Genet Epidemiol, vol. 42, no. 6, pp. 500-515, 2018.

P. Ryvkin, Leung, Y. Yee, Silverman, I. M., Childress, M., Valladares, O., Dragomir, I., Gregory, B. D., and San Wang, L. -, “HAMR: high-throughput annotation of modified ribonucleotides.”, RNA, vol. 19, no. 12, pp. 1684-92, 2013.

P. - T. Xu, Li, Y. - J., Qin, X. - J., Scherzer, C. R., Xu, H., Schmechel, D. E., Hulette, C. M., Ervin, J., Gullans, S. R., Haines, J., Pericak-Vance, M. A., and Gilbert, J. R., “Differences in apolipoprotein E3/3 and E4/4 allele-specific gene expression in hippocampus in Alzheimer disease.”, Neurobiol Dis, vol. 21, no. 2, pp. 256-75, 2006.

A. L. Boyles, Scott, W. K., Martin, E. R., Schmidt, S., Li, Y. - J., Ashley-Koch, A., Bass, M. P., Schmidt, M., Pericak-Vance, M. A., Speer, M. C., and Hauser, E. R., “Linkage disequilibrium inflates type I error rates in multipoint linkage analysis when parental genotypes are missing.”, Hum Hered, vol. 59, no. 4, pp. 220-7, 2005.

J. R. Murrell, Price, B., Lane, K. A., Baiyewu, O., Gureje, O., Ogunniyi, A., Unverzagt, F. W., Smith-Gamble, V., Gao, S., Hendrie, H. C., and Hall, K. S., “Association of apolipoprotein E genotype and Alzheimer disease in African Americans.”, Arch Neurol, vol. 63, no. 3, pp. 431-4, 2006.

E. E. Blue, Bis, J. C., Dorschner, M. O., Tsuang, D. W., Barral, S. M., Beecham, G., Below, J. E., Bush, W. S., Butkiewicz, M., Cruchaga, C., DeStefano, A., Farrer, L. A., Goate, A., Haines, J., Jaworski, J., Jun, G., Kunkle, B., Kuzma, A., Lee, J. J., Lunetta, K. L., Ma, Y., Martin, E., Naj, A., Nato, A. Q., Navas, P., Nguyen, H., Reitz, C., Reyes, D., Salerno, W., Schellenberg, G. D., Seshadri, S., Sohi, H., Thornton, T. A., Valadares, O., van Duijn, C., Vardarajan, B. N., San Wang, L. -, Boerwinkle, E., Dupuis, J., Pericak-Vance, M. A., Mayeux, R., and Wijsman, E. M., “Genetic Variation in Genes Underlying Diverse Dementias May Explain a Small Proportion of Cases in the Alzheimer's Disease Sequencing Project.”, Dement Geriatr Cogn Disord, vol. 45, no. 1-2, pp. 1-17, 2018.

P. Ryvkin, Leung, Y. Yee, Ungar, L. H., Gregory, B. D., and San Wang, L. -, “Using machine learning and high-throughput RNA sequencing to classify the precursors of small non-coding RNAs.”, Methods, vol. 67, no. 1, pp. 28-35, 2014.

E. R. Martin, Bronson, P. G., Li, Y. - J., Wall, N., Chung, R. - H., Schmechel, D. E., Small, G., Xu, P. - T., Bartlett, J., Schnetz-Boutaud, N., Haines, J. L., Gilbert, J. R., and Pericak-Vance, M. A., “Interaction between the alpha-T catenin gene (VR22) and APOE in Alzheimer's disease.”, J Med Genet, vol. 42, no. 10, pp. 787-92, 2005.