Raw data for the manuscripts published by NGI investigators can be found in NIAGADS, and Synapse.
Daniel Western, Jigyasha Timsina, Lihua Wang, Ciyang Wang, Chengran Yang, Bridget Phillips, Yueyao Wang, Menghan Liu, Muhammad Ali, Aleksandra Beric, Priyanka Gorijala, Pat Kohlfeld, John Budde, Allan I. Levey, John C. Morris, Richard J. Perrin, Agustin Ruiz, Marta Marquié, Mercè Boada, Itziar de Rojas, Jarod Rutledge, Hamilton Oh, Edward N. Wilson, Yann Le Guen, Lianne M. Reus, Betty Tijms, Pieter Jelle Visser, Sven J. van der Lee, Yolande A.L. Pijnenburg, Charlotte E. Teunissen, Marta del Campo Milan, Ignacio Alvarez, Miquel Aguilar, Dominantly Inherited Alzheimer Network (DIAN), the Alzheimer’s Disease Neuroimaging Initiative (ADNI), Michael D. Greicius, Pau Pastor, David J. Pulford, Laura Ibanez, Tony Wyss-Coray, Yun Ju Sung, Carlos Cruchaga.
Available as a Preprint: Research Square. https://doi.org/10.21203/rs.3.rs-2814616/v1
Summary Statistics
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Chengran Yang, Priyanka Gorijala, Jigyasha Timsina, Lihua Wang, Menghan Liu, Ciyang Wang, William Brock, Yueyao Wang, Yun Ju Sung, Carlos Cruchaga
Currently Under Review.
Summary Statistics
All full summary statistics can be found by following these links:
EUR Prot: Click here,
AFR Prot: Click here,
EUR Metab: Click here,
AFR Metab: Click here,
and explore in our Online Neurodegenerative Trait Integrative Multi-Omics Explorer (One-time) by clicking here.
Ciyang Wang, Dan Western, Chengran Yang, Muhammad Ali, Lihua Wang, Priyanka Gorijala, Jigyasha Timsina, Agustín Ruiz, Pau Pastor, Maria Fernandez, Daniel Panyard, Corinne Engelman, Yuetiva Deming, Merce Boada, Amanda Cano, Pablo García-González, Neill Graff-Radford, Hiroshi Mori, Jae-Hong Lee, Richard Perrin, Yun Ju Sung, Dominantly Inherited Alzheimer Network (DIAN), Alzheimer’s Disease Neuroimaging Initiative (ADNI).
Available as a Preprint: Research Square https://doi.org/10.21203/rs.3.rs-2923409/v1.
Summary Statistics
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Manuscript Full information
Ali M, Archer DB, Gorijala P, Western D, Timsina J, Fernández MV, Wang TC, Satizabal CL, Yang Q, Beiser AS, Wang R, Chen G, Gordon B, Benzinger TLS, Xiong C, Morris JC, Bateman RJ, Karch CM, McDade E, Goate A, Seshadri S, Mayeux RP, Sperling RA, Buckley RF, Johnson KA, Won HH, Jung SH, Kim HR, Seo SW, Kim HJ, Mormino E, Laws SM, Fan KH, Kamboh MI, Vemuri P, Ramanan VK, Yang HS, Wenzel A, Rajula HSR, Mishra A, Dufouil C, Debette S, Lopez OL, DeKosky ST, Tao F, Nagle MW; Knight Alzheimer Disease Research Center (Knight ADRC); Dominantly Inherited Alzheimer Network (DIAN); Alzheimer’s Disease Neuroimaging Initiative (ADNI); ADNI-DOD, A4 Study Team; Australian Imaging Biomarkers, Lifestyle (AIBL) Study; Hohman TJ, Sung YJ, Dumitrescu L, Cruchaga C. Acta Neuropathol Commun. 2023 Apr 26;11(1):68. doi: 10.1186/s40478-023-01563-4. PMID: 37101235
https://actaneurocomms.biomedcentral.com/articles/10.1186/s40478-023-01563-4
Summary Statistics
All full summary statistics can be found here.
Laura Ibanez , Laura Heitsch, Caty Carrera, Fabiana H G Farias, Jorge L Del Aguila, Rajat Dhar, John Budde, Kristy Bergmann , Joseph Bradley , Oscar Harari , Chia Ling Phuah, Robin Lemmens, Alessandro A Viana Oliveira Souza , Francisco Moniche , Antonio Cabezas-Juan , Juan Francisco Arenillas , Jerzy Krupinksi , Natalia Cullell , Nuria Torres-Aguila , Elena Muiño , Jara Cárcel-Márquez , Joan Marti-Fabregas , Raquel Delgado-Mederos, Rebeca Marin-Bueno , Alejandro Hornick, Cristofol Vives-Bauza , Rosa Diaz Navarro, Silvia Tur , Carmen Jimenez , Victor Obach , Tomas Segura, Gemma Serrano-Heras, Jong Won Chung , Jaume Roquer , Carol Soriano-Tarraga , Eva Giralt-Steinhauer , Marina Mola-Caminal , Joanna Pera , Katarzyna Lapicka-Bodzioch, Justyna Derbisz , Antoni Davalos, Elena Lopez-Cancio , Lucia Muñoz , Turgut Tatlisumak , Carlos Molina , Marc Ribo , Alejandro Bustamante, Tomas Sobrino, Jose Castillo-Sanchez, Francisco Campos, Emilio Rodriguez-Castro, Susana Arias-Rivas , Manuel Rodríguez-Yáñez , Christina Herbosa, Andria L Ford , Alonso Gutierrez-Romero, Rodrigo Uribe-Pacheco , Antonio Arauz , Iscia Lopes-Cendes , Theodore Lowenkopf , Miguel A Barboza, Hajar Amini , Boryana Stamova , Bradley P Ander, Frank R Sharp , Gyeong Moon Kim, Oh Young Bang, Jordi Jimenez-Conde , Agnieszka Slowik, Daniel Stribian , Ellen A Tsai , Linda C Burkly, Joan Montaner , Israel Fernandez-Cadenas, Jin Moo Lee , Carlos Cruchaga. Brain. 2022 Jul 29;145(7):2394-2406. doi: 10.1093/brain/awac080
https://academic.oup.com/brain/article/145/7/2394/6537118?login=true
Summary Statistics
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Manuscript Full information
Chengran Yang, Fabiana H. G. Farias, Laura Ibanez, Adam Suhy, Brooke Sadler, Maria Victoria Fernandez, Fengxian Wang, Joseph L. Bradley, Brett Eiffert, Jorge A. Bahena, John P. Budde, Zeran Li, Umber Dube, Yun Ju Sung, Kathie A. Mihindukulasuriya, John C. Morris, Anne M. Fagan, Richard J. Perrin, Bruno A. Benitez, Herve Rhinn, Oscar Harari & Carlos Cruchaga. Genomic atlas of the proteome from brain, CSF and plasma prioritizes proteins implicated in neurological disorders. Nature Neuroscience. 2021 Sep;24(9):1302-1312. doi: 10.1038/s41593-021-00886-6. Epub 2021 Jul 8
https://www.nature.com/articles/s41593-019-0501-5
Raw Data
Multi-tissue proteomics; at NIAGADS NG00102
Summary Statistics
All full summary statistics can be found here and explore in our Online Neurodegenerative Trait Integrative Multi-Omics Explorer (Ontime)
Manuscript Full information
Umber Dube, Jorge L Del-Aguila, Zeran Li, John P Budde, Shan Jiang, Simon Hsu Laura Ibanez, Maria Victoria Fernandez, Fabiana Farias, Joanne Norton, Jen Gentsch, Fengxian Wang, the Dominantly Inherited Alzheimer Network (DIAN), Stephen Salloway, Colin L Masters, Jae-Hong Lee, Neill R Graff-Radford, Jasmeer P Chhatwal, Randall J Bateman, John C Morris, Celeste M Karch, Oscar Harari, and Carlos Cruchaga. An atlas of cortical circular RNA expression demonstrates clinical and pathological associations with Alzheimer disease. Nature Neuroscience. 2019 Oct 3. DOI: 10.1038/s41593-019-0501-5.
https://www.nature.com/articles/s41593-019-0501-5
Summary Statistics
All full summary statistics can be found NIAGADS NG00083 and here.
Manuscript Full information
Li Z, Farias FHG, Dube U, Del-Aguila JL, Mihindukulasuriya KA, Fernandez MV, Ibanez L, Budde JP, Wang F, Lake AM, Deming Y, Perez J, Yang C, Bahena JA, Qin W, Bradley JL, Davenport R, Bergmann K, Morris JC, Perrin RJ, Benitez BA, Dougherty JD, Harari O, Cruchaga C. Acta Neuropathol. 2019 Aug 27. doi: 10.1007/s00401-019-02066-0. [Epub ahead of print] PMID: 31456032
https://link.springer.com/article/10.1007%2Fs00401-019-02066-0
Summary Statistics
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Manuscript Full information
Yuetiva Deming, Fabia Filipello, Francesca Cignarella, Claudia Cantoni, Simon Hsu, Robert Mikesell, Zeran Li, Jorge L Del-Aguila, Umber Dube, Fabiana Geraldo Farias, Joseph Bradley, John Budde, Laura Ibanez, Maria Victoria Fernandez, Kaj Blennow, Henrik Zetterberg, Amanda Heslegrave, Per M Johansson, Johan Svensson, Bengt Nellgård, Alberto Lleo, Daniel Alcolea, Jordi Clarimon, Lorena Rami, José Luis Molinuevo, Marc Suárez-Calvet, Estrella Morenas-Rodríguez, Gernot Kleinberger, Michael Ewers, Oscar Harari, Christian Haass, Thomas J Brett, Bruno a. Benitez, Celeste m. Karch, Laura Piccio, Carlos Cruchaga. Science Translational Medicine 14 Aug 2019: Vol. 11, Issue 505, eaau2291 DOI: 10.1126/scitranslmed.aau2291
https://stm.sciencemag.org/content/11/505/eaau2291
Free Access to the manuscript:
Summary Statistics
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Manuscript Full information
Yan Q, Nho K, Del-Aguila JL, Wang X, Risacher SL, Fan KH, Snitz BE, Aizenstein HJ, Mathis CA, Lopez OL, Demirci FY, Feingold E, Klunk WE, Saykin AJ; Alzheimer’s Disease Neuroimaging Initiative (ADNI), Cruchaga C, Kamboh MI. Genome-wide association study of brain amyloid deposition as measured by Pittsburgh Compound-B (PiB)-PET imaging. Mol Psychiatry. 2018; Oct 25. doi: 10.1038/s41380-018-0246-7 PMCID:PMC6219464.
https://www.nature.com/articles/s41380-018-0246-7
Raw Data
Washington University GWAS data: NIAGADS00030; https://www.niagads.org/datasets/ng00030
Summary Statistics
All full summary statistics can be found here and explore in our Online Neurodegenerative Trait Integrative Multi-Omics Explorer (Ontime)
Manuscript Full information
Maxwell TJ, Corcoran C, Del-Aguila JL, Budde JP, Deming Y, Cruchaga C, Goate AM, Kauwe JSK; Alzheimer’s Disease Neuroimaging Initiative. Genome-wide association study for variants that modulate relationships between cerebrospinal fluid amyloid-beta 42, tau, and p-tau levels. Alzheimers Res Ther. 2018; 10(1):86. PMCID: PMC6114488
https://alzres.biomedcentral.com/articles/10.1186/s13195-018-0410-y
Summary Statistics
NIAGADS00055; https://www.niagads.org/datasets/ng00055
Manuscript Full information
Deming Y, Dumitrescu L, Barnes LL, Thambisetty M, Kunkle B, Gifford KA, Bush WS, Chibnik LB, Mukherjee S, De Jager PL, Kukull W, Huentelman M, Crane PK, Resnick SM, Keene CD, Montine TJ, Schellenberg GD, Haines JL, Zetterberg H, Blennow K, Larson EB, Johnson SC, Albert M, Moghekar A, Del Aguila JL, Fernandez MV, Budde J, Hassenstab J, Fagan AM, Riemenschneider M, Petersen RC, Minthon L, Chao MJ, Van Deerlin VM, Lee VM, Shaw LM, Trojanowski JQ, Peskind ER, Li G, Davis LK, Sealock JM, Cox NJ; Alzheimer’s Disease Neuroimaging Initiative (ADNI); Alzheimer Disease Genetics Consortium (ADGC), Goate AM, Bennett DA, Schneider JA, Jefferson AL, Cruchaga C, Hohman TJ. Sex-specific genetic predictors of Alzheimer’s disease biomarkers. Acta Neuropathol. 2018; 136(6) 857-872. PMCID: PMC6280657
https://link.springer.com/article/10.1007%2Fs00401-018-1881-4
Raw Data
Washington University GWAS data: NIAGADS00030; https://www.niagads.org/datasets/ng00030
Summary Statistics
All full summary statistics can be found here
Manuscript Full information
Li Z, Del-Aguila JL, Dube U, Budde J, Martinez R, Black K, Xiao Q, Cairns NJ; Dominantly Inherited Alzheimer Network (DIAN), Dougherty JD, Lee JM, Morris JC, Bateman RJ, Karch CM, Cruchaga C, Harari O. Genetic variants associated with Alzheimer’s disease confer different cerebral cortex cell-type population structure. Genome Med. 2018; 10(1):43. PMCID: PMC5992755
https://genomemedicine.biomedcentral.com/articles/10.1186/s13073-018-0551-4
Raw Data
The gene expression data can be found in Synapse
Summary Statistics
All full gene-expression matrices can be found here
Manuscript Full information
Del-Aguila JL, Fernández MV, Schindler S, Ibanez L, Deming Y, Ma S, Saef B, Black K, Budde J, Norton J, Chasse R; Alzheimer’s Disease Neuroimaging Initiative (ADNI), Harari O, Goate A, Xiong C, Morris JC, Cruchaga C. Assessment of the Genetic Architecture of Alzheimer’s Disease Risk in Rate of Memory Decline. J Alzheimers Dis. 2018; 62(2):745-756. PMCID: PMC5989565
https://genomemedicine.biomedcentral.com/articles/10.1186/s13073-018-0551-4
Raw Data
The gene expression data can be found in
Summary Statistics
All full gene-expression matrices can be found here
Manuscript Full information
Fernández MV, Kim JH, Budde JP, Black K, Medvedeva A, Saef B, Deming Y, Del-Aguila J, Ibañez L, Dube U, Harari O, Norton J, Chasse R, Morris JC, Goate A; NIA-LOAD family study group; NCRAD, Cruchaga C. Analysis of neurodegenerative Mendelian genes in clinically diagnosed Alzheimer Disease. PLoS Genet. 2017;13(11):e1007045. doi: 0.1371/journal.pgen.1007045. PMCID: PMC5683650
https://journals.plos.org/plosgenetics/article?id=10.1371/journal.pgen.1007045
Raw Data
The Washington Univeristy sequencing data can be found at NIAGADS00060: https://www.niagads.org/datasets/ng00060
Manuscript Full information
Sims R, van der Lee SJ, Naj AC, Bellenguez C, …., Cruchaga C, .., Lambert JC, Seshadri S, Williams J, Schellenberg GD, Etal. Rare coding variants in PLCG2, ABI3, and TREM2 implicate microglial-mediated innate immunity in Alzheimer’s disease. Nat Genet. 2017; 49(9):1373-1384. PMCID: PMC5669039
https://www.nature.com/articles/ng.3916
Raw Data
Washington University GWAS data: NIAGADS00085; https://www.niagads.org/datasets/ng00085
Summary Statistics
All full summary statistics can be found at NIAGADS00075 https://www.niagads.org/datasets/ng00075
Manuscript Full information
Huang KL, Marcora E, Pimenova AA, DiNarzo AF, Kapoor M, Jin SC, Harari O, Bertelsen S, Fairfax BP, Czajkowski J, Chouraki V, Grenier-Boley B, Bellenguez C, Deming Y, McKenzie A, Raj T, Renton AE, Budde J, Smith A, Fitzpatrick A, Bis JC, DeStefano A, Adams HHH, Ikram MA, VanDerLee S, Del-Aguila JL, Fernandez MV, Ibanez L, The international Genomics of Alzheimer’s Project, The Alzheimer’s Disease Neuroimaging Initiative, Sims, R, Escott-Price V, Mayeux R, Haines JL, Farrer LA, Pericak-Vance MA, Lambert JC, van Duijn C, Launer L, Seshadri S, Williams J, Amouyel P, Schellenberg GD, Zhang B, Borecki I, Kauwe JSK, Cruchaga C, Hao K, Goate AM. A common haplotype lowers PU.1 expression in myeloid cells and delays onset of Alzheimer’s disease. Nat Neuroscience 2017. 20(8):1052-1061. PMCID: PMC5759334
https://www.nature.com/articles/nn.4587
Summary Statistics
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Manuscript Full information
Deming Y, Li Z, Kapoor M, Harari O, Del-Aguila JL, Black K, Carrell D, Cai Y, Fernandez MV, Budde J, Ma S, Saef B, Howells B, Huang KL, Bertelsen S, Fagan AM, Holtzman DM, Morris JC, Kim S, Saykin AJ, De Jager PL, Albert M, Moghekar A, O’Brien R, Riemenschneider M, Petersen RC, Blennow K, Zetterberg H, Minthon L, Van Deerlin VM, Lee VM, Shaw LM, Trojanowski JQ, Schellenberg G, Haines JL, Mayeux R, Pericak-Vance MA, Farrer LA, Peskind ER, Li G, Di Narzo AF; Alzheimer’s Disease Neuroimaging Initiative (ADNI).; Alzheimer Disease Genetic Consortium (ADGC)., Kauwe JS, Goate AM, Cruchaga C. Genome-wide association study identifies four novel loci associated with Alzheimer’s endophenotypes and disease modifiers. Acta Neuropathol. 2017; 133(5):839-856. PMCID: PMC5613285
https://link.springer.com/article/10.1007%2Fs00401-017-1685-y
Raw Data
Washington University GWAS data: NIAGADS00030; https://www.niagads.org/datasets/ng00030
Summary Statistics
All full summary statistics can be found here, in NIAGADS0055: https://www.niagads.org/datasets/ng00055, and explore in our Online Neurodegenerative Trait Integrative Multi-Omics Explorer (Ontime)
Manuscript Full information
Deming Y, Black K, Carrell D, Cai Y, Del-Aguila JL, Fernandez MV, Budde J, Ma S, Saef B, Howells B, Bertelsen S, Huang KL, Sutphen CL, Tarawneh R, Fagan AM, Holtzman DM, MorrisJC, Goate AM, Dougherty JD, Cruchaga C. Chitinase-3-like 1 protein (CHI3L1) locus Influences cerebrospinal fluid levels of YKL-40. BMC Neurol 2016; 16(1):217. PMCID: PMC5105244.
https://bmcneurol.biomedcentral.com/articles/10.1186/s12883-016-0742-9
Raw Data
Washington University GWAS data: NIAGADS00030; https://www.niagads.org/datasets/ng00030
Summary Statistics
All full summary statistics can be found here, and explore in our Online Neurodegenerative Trait Integrative Multi-Omics Explorer (Ontime)
Manuscript Full information
Fernández MV, Black K, Carrell D, Saef B, Budde J, Deming Y, Howells B, Del-Aguila JL, Ma S, Bi C, Norton J, Chasse R, Morris J, Goate A, Cruchaga C; NIA-LOAD family study group, NCRAD. SORL1 variants across Alzheimer’s disease European American cohorts. Eur J Hum Genet 2016; 24(12):1828-1830. PMCID: PMC5117924
https://www.nature.com/articles/ejhg2016122
Raw Data
Washington University GWAS data: NIAGADS00051; https://www.niagads.org/datasets/ng00051
Manuscript Full information
Deming Y, Xia J, Cai Y, Lord J, Holmans P, Bertelsen S, Holtzman D, Morris JC, Bales K, Pickering EH, Kauwe J, Goate A, Cruchaga C; Alzheimer’s Disease Neuroimaging Initiative (ADNI). A potential endophenotype for Alzheimer’s disease: cerebrospinal fluid clusterin. Neurobiol Aging 2016; 37:208. PMCID: PMC5118651
https://linkinghub.elsevier.com/retrieve/pii/S0197-4580(15)00466-2
Raw Data
Washington University GWAS data: NIAGADS00050; https://www.niagads.org/datasets/ng00050
Summary Statistics
All full summary statistics can be found here, the NIAGADS0050, and explore in our Online Neurodegenerative Trait Integrative Multi-Omics Explorer (Ontime)
Manuscript Full information
Kauwe JS, Bailey MH, Ridge PG, Perry R, Wadsworth ME, Hoyt KL, Staley LA, Karch CM, Harari O, Cruchaga C, Ainscough BJ, Bales K, Pickering EH, Bertelsen S; the Alzheimer’s Disease Neuroimaging Initiative, Fagan AM, Holtzman DM, Morris JC, Goate AM. Genome-Wide Association Study of CSF Levels of 59 Alzheimer’s Disease Candidate Proteins: Significant Associations with Proteins Involved in Amyloid Processing and Inflammation. PloS Genet 2014; 10(10):e1004758. PMCID: PMC4207667.
https://journals.plos.org/plosgenetics/article?id=10.1371/journal.pgen.1004758
Summary Statistics
All full summary statistics can be found here, and explore in our Online Neurodegenerative Trait Integrative Multi-Omics Explorer (Ontime)
Manuscript Full information
Deming Y, Xia J, Cai Y, Lord J, Del-Aguila JL, Fernandez MV, Carrell D, Black K, Budde J, Ma S, Saef B, Howells B, Bertelsen S, Bailey M, Ridge PG, Alzheimer’s Disease Neuroimaging Initiative (ADNI), Holtzman D, Morris JC, Bales K, Pickering EH, Lee JM, Heitsch L, Kauwe J, Goate A, Piccio L, Cruchaga C. Genetic studies of plasma analytes identify novel potential biomarkers for several complex traits. Sci Rep. 2016; 6: 18092. PMCID: PMC4698720
https://www.nature.com/articles/srep18092
Summary Statistics
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