Publications

1.           Associations among plasma, MRI, and amyloid PET biomarkers of Alzheimer’s disease and related dementias and the impact of health-related comorbidities in a community-dwelling cohort.

Rudolph MD, Sutphen CL, Register TC, Whitlow CT, Solingapuram Sai KK, Hughes TM, Bateman JR, Dage JL, Russ KA, Mielke MM, Craft S, Lockhart SN.

Alzheimers Dement. 2024 May 15. doi: 10.1002/alz.13835. Online ahead of print.

PMID: 38747525

2.           Large-scale Deep Proteomic Analysis in Alzheimer’s Disease Brain Regions Across Race and Ethnicity.

Seifar F, Fox EJ, Shantaraman A, Liu Y, Dammer EB, Modeste E, Duong DM, Yin L, Trautwig AN, Guo Q, Xu K, Ping L, Reddy JS, Allen M, Quicksall Z, Heath L, Scanlan J, Wang E, Wang M, Linden AV, Poehlman W, Chen X, Baheti S, Ho C, Nguyen T, Yepez G, Mitchell AO, Oatman SR, Wang X, Carrasquillo MM, Runnels A, Beach T, Serrano GE, Dickson DW, Lee EB, Golde TE, Prokop S, Barnes LL, Zhang B, Haroutunian V, Gearing M, Lah JJ, Jager P, Bennett DA, Greenwood A, Ertekin-Taner N, Levey AI, Wingo A, Wingo T, Seyfried NT.

bioRxiv [Preprint]. 2024 Apr 26:2024.04.22.590547. doi: 10.1101/2024.04.22.590547.

PMID: 38712030 Free PMC article. Preprint.

3.           Bridging the Gap: Multi-Omics Profiling of Brain Tissue in Alzheimer’s Disease and Older Controls in Multi-Ethnic Populations.

Reddy JS, Heath L, Vander Linden A, Allen M, de Paiva Lopes K, Seifar F, Wang E, Ma Y, Poehlman WL, Quicksall ZS, Runnels A, Wang Y, Duong DM, Yin L, Xu K, Modeste ES, Shantaraman A, Dammer EB, Ping L, Oatman SR, Scanlan J, Ho C, Carrasquillo MM, Atik M, Yepez G, Mitchell AO, Nguyen TT, Chen X, Marquez DX, Reddy H, Xiao H, Seshadri S, Mayeux R, Prokop S, Lee EB, Serrano GE, Beach TG, Teich AF, Haroutunian V, Fox EJ, Gearing M, Wingo A, Wingo T, Lah JJ, Levey AI, Dickson DW, Barnes LL, De Jager P, Zhang B, Bennett D, Seyfried NT, Greenwood AK, Ertekin-Taner N.

bioRxiv [Preprint]. 2024 Apr 20:2024.04.16.589592. doi: 10.1101/2024.04.16.589592.

PMID: 38659743 Free PMC article. Preprint.

4.           Rare genetic variation in fibronectin 1 (FN1) protects against APOEε4 in Alzheimer’s disease.

Bhattarai P, Gunasekaran TI, Belloy ME, Reyes-Dumeyer D, Jülich D, Tayran H, Yilmaz E, Flaherty D, Turgutalp B, Sukumar G, Alba C, McGrath EM, Hupalo DN, Bacikova D, Le Guen Y, Lantigua R, Medrano M, Rivera D, Recio P, Nuriel T, Ertekin-Taner N, Teich AF, Dickson DW, Holley S, Greicius M, Dalgard CL, Zody M, Mayeux R, Kizil C, Vardarajan BN.

Acta Neuropathol. 2024 Apr 10;147(1):70. doi: 10.1007/s00401-024-02721-1.

PMID: 38598053 Free PMC article.

5.           The Rise of Hypothesis-Driven Artificial Intelligence in Oncology.

Xianyu Z, Correia C, Ung CY, Zhu S, Billadeau DD, Li H.

Cancers (Basel). 2024 Feb 18;16(4):822. doi: 10.3390/cancers16040822.

PMID: 38398213 Free PMC article. Review.

6.           Deciphering the tissue-specific functional effect of Alzheimer risk SNPs with deep genome annotation.

Pugalenthi PV, He B, Xie L, Nho K, Saykin AJ, Yan J.

Res Sq [Preprint]. 2024 Feb 8:rs.3.rs-3871665. doi: 10.21203/rs.3.rs-3871665/v1.

PMID: 38405816 Free PMC article. Preprint.

7.           QOT: Efficient Computation of Sample Level Distance Matrix from Single-Cell Omics Data through Quantized Optimal Transport.

Wang Z, Zhan Q, Yang S, Mu S, Chen J, Garai S, Orzechowski P, Wagenaar J, Shen L.

bioRxiv [Preprint]. 2024 Feb 6:2024.02.06.578032. doi: 10.1101/2024.02.06.578032.

PMID: 38370767 Free PMC article. Preprint.

8.           Edge time series components of functional connectivity and cognitive function in Alzheimer’s disease.

Chumin EJ, Cutts SA, Risacher SL, Apostolova LG, Farlow MR, McDonald BC, Wu YC, Betzel R, Saykin AJ, Sporns O.

Brain Imaging Behav. 2024 Feb;18(1):243-255. doi: 10.1007/s11682-023-00822-1. Epub 2023 Nov 27.

PMID: 38008852 Free PMC article.

9.           Transcriptional risk scores in Alzheimer’s disease: From pathology to cognition.

Pyun JM, Park YH, Wang J, Bennett DA, Bice PJ, Kim JP, Kim S, Saykin AJ, Nho K.

Alzheimers Dement. 2024 Jan;20(1):243-252. doi: 10.1002/alz.13406. Epub 2023 Aug 10.

PMID: 37563770 Free PMC article.

10.        Aβ Amyloid Scaffolds the Accumulation of Matrisome and Additional Proteins in Alzheimer’s Disease.

Levites Y, Dammer EB, Ran Y, Tsering W, Duong D, Abreha M, Gadhavi J, Lolo K, Trejo-Lopez J, Phillips JL, Iturbe A, Erqiuzi A, Moore BD, Ryu D, Natu A, Dillon KD, Torrellas J, Moran C, Ladd TB, Afroz KF, Islam T, Jagirdar J, Funk CC, Robinson M, Borchelt DR, Ertekin-Taner N, Kelly JW, Heppner FL, Johnson EC, McFarland K, Levey AL, Prokop S, Seyfried NT, Golde TE.

bioRxiv [Preprint]. 2023 Dec 7:2023.11.29.568318. doi: 10.1101/2023.11.29.568318.

PMID: 38076912 Free PMC article. Preprint.

11.        BrainAGE Estimation: Influence of Field Strength, Voxel Size, Race, and Ethnicity.

Dempsey DA, Deardorff R, Wu YC, Yu M, Apostolova LG, Brosch J, Clark DG, Farlow MR, Gao S, Wang S, Saykin AJ, Risacher SL; Alzheimer’s Disease Neuroimaging Initiative.

medRxiv [Preprint]. 2023 Dec 5:2023.12.05.23299222. doi: 10.1101/2023.12.05.23299222.

PMID: 38106123 Free PMC article. Preprint.

12.        Cross species systems biology discovers glial DDR2, STOM, and KANK2 as therapeutic targets in progressive supranuclear palsy.

Min Y, Wang X, İş Ö, Patel TA, Gao J, Reddy JS, Quicksall ZS, Nguyen T, Lin S, Tutor-New FQ, Chalk JL, Mitchell AO, Crook JE, Nelson PT, Van Eldik LJ, Golde TE, Carrasquillo MM, Dickson DW, Zhang K, Allen M, Ertekin-Taner N.

Nat Commun. 2023 Nov 2;14(1):6801. doi: 10.1038/s41467-023-42626-3.

PMID: 37919278 Free PMC article.

13.        miR-129-5p as a biomarker for pathology and cognitive decline in Alzheimer’s disease.

Han SW, Pyun JM, Bice PJ, Bennett DA, Saykin AJ, Kim S, Park YH, Nho K.

Res Sq [Preprint]. 2023 Nov 1:rs.3.rs-3501125. doi: 10.21203/rs.3.rs-3501125/v1.

PMID: 37961387 Free PMC article. Updated. Preprint.

14.        Genome-Wide Association Analysis across Endophenotypes in Alzheimer’s Disease: Main Effects and Disease Stage-Specific Interactions.

Rosewood TJ, Nho K, Risacher SL, Gao S, Shen L, Foroud T, Saykin AJ, On Behalf Of The Alzheimer’s Disease Neuroimaging Initiative.

Genes (Basel). 2023 Oct 27;14(11):2010. doi: 10.3390/genes14112010.

PMID: 38002954 Free PMC article.

15.        Association of Plasma Biomarkers of Alzheimer Disease With Cognition and Medical Comorbidities in a Biracial Cohort.

Ramanan VK, Graff-Radford J, Syrjanen J, Shir D, Algeciras-Schimnich A, Lucas J, Martens YA, Carrasquillo MM, Day GS, Ertekin-Taner N, Lachner C, Willis FB, Knopman DS, Jack CR Jr, Petersen RC, Vemuri P, Graff-Radford N, Mielke MM.

Neurology. 2023 Oct 3;101(14):e1402-e1411. doi: 10.1212/WNL.0000000000207675. Epub 2023 Aug 14.

PMID: 37580163

16.        Retrospective Evaluation of Neuropathologic Proxies of the Minimal Atrophy Subtype Compared With Corticolimbic Alzheimer Disease Subtypes.

Boon BDC, Labuzan SA, Peng Z, Matchett BJ, Kouri N, Hinkle KM, Lachner C, Ross OA, Ertekin-Taner N, Carter RE, Ferman TJ, Duara R, Dickson DW, Graff-Radford NR, Murray ME.

Neurology. 2023 Oct 3;101(14):e1412-e1423. doi: 10.1212/WNL.0000000000207685. Epub 2023 Aug 14.

PMID: 37580158 Free PMC article.

17.        Preference matrix guided sparse canonical correlation analysis for mining brain imaging genetic associations in Alzheimer’s disease.

Sha J, Bao J, Liu K, Yang S, Wen Z, Wen J, Cui Y, Tong B, Moore JH, Saykin AJ, Davatzikos C, Long Q, Shen L; Alzheimer’s Disease Neuroimaging Initiative.

Methods. 2023 Oct;218:27-38. doi: 10.1016/j.ymeth.2023.07.007. Epub 2023 Jul 27.

PMID: 37507059

18.        Amyloid and tau pathology are associated with cerebral blood flow in a mixed sample of nondemented older adults with and without vascular risk factors for Alzheimer’s disease.

Swinford CG, Risacher SL, Vosmeier A, Deardorff R, Chumin EJ, Dzemidzic M, Wu YC, Gao S, McDonald BC, Yoder KK, Unverzagt FW, Wang S, Farlow MR, Brosch JR, Clark DG, Apostolova LG, Sims J, Wang DJ, Saykin AJ.

Neurobiol Aging. 2023 Oct;130:103-113. doi: 10.1016/j.neurobiolaging.2023.06.014. Epub 2023 Jun 28.

PMID: 37499587

19.        APOE ε4 influences within and between network functional connectivity in posterior cortical atrophy and logopenic progressive aphasia.

Singh NA, Martin PR, Graff-Radford J, Machulda MM, Carrasquillo MM, Ertekin-Taner N, Josephs KA, Whitwell JL.

Alzheimers Dement. 2023 Sep;19(9):3858-3866. doi: 10.1002/alz.13059. Epub 2023 Mar 31.

PMID: 36999481 Free PMC article.

20.        APOE deficiency impacts neural differentiation and cholesterol biosynthesis in human iPSC-derived cerebral organoids.

Zhao J, Ikezu TC, Lu W, Macyczko JR, Li Y, Lewis-Tuffin LJ, Martens YA, Ren Y, Zhu Y, Asmann YW, Ertekin-Taner N, Kanekiyo T, Bu G.

Stem Cell Res Ther. 2023 Aug 21;14(1):214. doi: 10.1186/s13287-023-03444-y.

PMID: 37605285 Free PMC article.

21.        Comparative brain metabolomics reveals shared and distinct metabolic alterations in Alzheimer’s disease and progressive supranuclear palsy.

Batra R, Krumsiek J, Wang X, Allen M, Blach C, Kastenmüller G, Arnold M, Ertekin-Taner N, Kaddurah-Daouk RF; Alzheimer’s Disease Metabolomics Consortium (ADMC).

medRxiv [Preprint]. 2023 Jul 27:2023.07.25.23293055. doi: 10.1101/2023.07.25.23293055.

PMID: 37546878 Free PMC article. Preprint.

22.        Nerve growth factor receptor (Ngfr) induces neurogenic plasticity by suppressing reactive astroglial Lcn2/Slc22a17 signaling in Alzheimer’s disease.

Siddiqui T, Cosacak MI, Popova S, Bhattarai P, Yilmaz E, Lee AJ, Min Y, Wang X, Allen M, İş Ö, Atasavum ZT, Rodriguez-Muela N, Vardarajan BN, Flaherty D, Teich AF, Santa-Maria I, Freudenberg U, Werner C, Tosto G, Mayeux R, Ertekin-Taner N, Kizil C.

NPJ Regen Med. 2023 Jul 10;8(1):33. doi: 10.1038/s41536-023-00311-5.

PMID: 37429840 Free PMC article.

23.        Multi-ancestry genome-wide meta-analysis of 56,241 individuals identifies LRRC4C, LHX5-AS1 and nominates ancestry-specific loci PTPRK , GRB14 , and KIAA0825 as novel risk loci for Alzheimer’s disease: the Alzheimer’s Disease Genetics Consortium.

Rajabli F, Benchek P, Tosto G, Kushch N, Sha J, Bazemore K, Zhu C, Lee WP, Haut J, Hamilton-Nelson KL, Wheeler NR, Zhao Y, Farrell JJ, Grunin MA, Leung YY, Kuksa PP, Li D, Lucio da Fonseca E, Mez JB, Palmer EL, Pillai J, Sherva RM, Song YE, Zhang X, Iqbal T, Pathak O, Valladares O, Kuzma AB, Abner E, Adams PM, Aguirre A, Albert MS, Albin RL, Allen M, Alvarez L, Apostolova LG, Arnold SE, Asthana S, Atwood CS, Ayres G, Baldwin CT, Barber RC, Barnes LL, Barral S, Beach TG, Becker JT, Beecham GW, Beekly D, Benitez BA, Bennett D, Bertelson J, Bird TD, Blacker D, Boeve BF, Bowen JD, Boxer A, Brewer J, Burke JR, Burns JM, Buxbaum JD, Cairns NJ, Cantwell LB, Cao C, Carlson CS, Carlsson CM, Carney RM, Carrasquillo MM, Chasse S, Chesselet MF, Chin NA, Chui HC, Chung J, Craft S, Crane PK, Cribbs DH, Crocco EA, Cruchaga C, Cuccaro ML, Cullum M, Darby E, Davis B, De Jager PL, DeCarli C, DeToledo J, Dick M, Dickson DW, Dombroski BA, Doody RS, Duara R, Ertekin-Taner N, Evans DA, Faber KM, Fairchild TJ, Fallon KB, Fardo DW, Farlow MR, Fernandez-Hernandez V, Ferris S, Foroud TM, Frosch MP, Fulton-Howard B, Galasko DR, Gamboa A, Gearing M, Geschwind DH, Ghetti B, Gilbert JR, Goate AM, Grabowski TJ, Graff-Radford NR, Green RC, Growdon JH, Hakonarson H, Hall J, Hamilton RL, Harari O, Hardy J, Harrell LE, Head E, Henderson VW, Hernandez M, Hohman T, Honig LS, Huebinger RM, Huentelman MJ, Hulette CM, Hyman BT, Hynan LS, Ibanez L, Jarvik GP, Jayadev S, Jin LW, Johnson K, Johnson L, Kamboh MI, Karydas AM, Katz MJ, Kauwe JS, Kaye JA, Keene CD, Khaleeq A, Kim R, Knebl J, Kowall NW, Kramer JH, Kukull WA, LaFerla FM, Lah JJ, Larson EB, Lerner A, Leverenz JB, Levey AI, Lieberman AP, Lipton RB, Logue M, Lopez OL, Lunetta KL, Lyketsos CG, Mains D, Margaret FE, Marson DC, Martin ERR, Martiniuk F, Mash DC, Masliah E, Massman P, Masurkar A, McCormick WC, McCurry SM, McDavid AN, McDonough S, McKee AC, Mesulam M, Miller BL, Miller CA, Miller JW, Montine TJ, Monuki ES, Morris JC, Mukherjee S, Myers AJ, Nguyen T, O’Bryant S, Olichney JM, Ory M, Palmer R, Parisi JE, Paulson HL, Pavlik V, Paydarfar D, Perez V, Peskind E, Petersen RC, Pierce A, Polk M, Poon WW, Potter H, Qu L, Quiceno M, Quinn JF, Raj A, Raskind M, Reiman EM, Reisberg B, Reisch JS, Ringman JM, Roberson ED, Rodriguear M, Rogaeva E, Rosen HJ, Rosenberg RN, Royall DR, Sager MA, Sano M, Saykin AJ, Schneider JA, Schneider LS, Seeley WW, Slifer SH, Small S, Smith AG, Smith JP, Sonnen JA, Spina S, St George-Hyslop P, Stern RA, Stevens AB, Strittmatter SM, Sultzer D, Swerdlow RH, Tanzi RE, Tilson JL, Trojanowski JQ, Troncoso JC, Tsuang DW, Van Deerlin VM, van Eldik LJ, Vance JM, Vardarajan BN, Vassar R, Vinters HV, Vonsattel JP, Weintraub S, Welsh-Bohmer KA, Whitehead PL, Wijsman EM, Wilhelmsen KC, Williams B, Williamson J, Wilms H, Wingo TS, Wisniewski T, Woltjer RL, Woon M, Wright CB, Wu CK, Younkin SG, Yu CE, Yu L, Zhu X, Kunkle BW, Bush WS, Wang LS, Farrer LA, Haines JL, Mayeux R, Pericak-Vance MA, Schellenberg GD, Jun GR, Reitz C, Naj AC.

medRxiv [Preprint]. 2023 Jul 8:2023.07.06.23292311. doi: 10.1101/2023.07.06.23292311.

PMID: 37461624 Free PMC article. Preprint.

24.        Image harmonization: A review of statistical and deep learning methods for removing batch effects and evaluation metrics for effective harmonization.

Hu F, Chen AA, Horng H, Bashyam V, Davatzikos C, Alexander-Bloch A, Li M, Shou H, Satterthwaite TD, Yu M, Shinohara RT.

Neuroimage. 2023 Jul 1;274:120125. doi: 10.1016/j.neuroimage.2023.120125. Epub 2023 Apr 20.

PMID: 37084926 Free PMC article. Review.

25.        The SERPINA5 coding variant E228Q does not contribute to clinicopathologic characteristics in Alzheimer’s disease: A cross-sectional study.

Matchett BJ, Lincoln SJ, Baker M, Tamvaka N, Labuzan SA, Hicks Sirmans TN, Moloney CM, Helminger J, Hinkle KM, Cabrera-Rodriguez J, Wickland DP, Johnson PW, Heckman MG, Reddy JS, Younkin SG, Carrasquillo MM, Duara R, Graff-Radford NR, Pottier C, Ertekin-Taner N, Ross OA, Rademakers R, Dickson DW, Murray ME.

Medicine (Baltimore). 2023 Jun 16;102(24):e34017. doi: 10.1097/MD.0000000000034017.

PMID: 37327267 Free PMC article.

26.        Predictive network analysis identifies JMJD6 and other potential key drivers in Alzheimer’s disease.

Merchant JP, Zhu K, Henrion MYR, Zaidi SSA, Lau B, Moein S, Alamprese ML, Pearse RV 2nd, Bennett DA, Ertekin-Taner N, Young-Pearse TL, Chang R.

Commun Biol. 2023 May 15;6(1):503. doi: 10.1038/s42003-023-04791-5.

PMID: 37188718 Free PMC article.

27.        Aberrant GAP43 Gene Expression Is Alzheimer Disease Pathology-Specific.

Pyun JM, Park YH, Wang J, Bice PJ, Bennett DA, Kim S, Saykin AJ, Nho K.

Ann Neurol. 2023 May;93(5):1047-1048. doi: 10.1002/ana.26637. Epub 2023 Mar 21.

PMID: 36897291 Free PMC article. No abstract available.

28.        Clinicopathological associations of hemispheric dominance in primary progressive apraxia of speech.

Robinson CG, Duffy JR, Clark HA, Utianski RL, Machulda MM, Botha H, Singh NA, Pham NTT, Ertekin-Taner N, Dickson DW, Lowe VJ, Whitwell JL, Josephs KA.

Eur J Neurol. 2023 May;30(5):1209-1219. doi: 10.1111/ene.15764. Epub 2023 Mar 15.

PMID: 36869612 Free PMC article.

29.        White matter integrity is associated with cognition and amyloid burden in older adult Koreans along the Alzheimer’s disease continuum.

Hirschfeld LR, Deardorff R, Chumin EJ, Wu YC, McDonald BC, Cao S, Risacher SL, Yi D, Byun MS, Lee JY, Kim YK, Kang KM, Sohn CH, Nho K, Saykin AJ, Lee DY; KBASE Research Group.

medRxiv [Preprint]. 2023 Apr 6:2023.04.05.23288147. doi: 10.1101/2023.04.05.23288147.

PMID: 37066317 Free PMC article. Updated. Preprint.

30.        Novel CYP1B1-RMDN2 Alzheimer’s disease locus identified by genome-wide association analysis of cerebral tau deposition on PET.

Nho K, Risacher SL, Apostolova L, Bice PJ, Brosch J, Deardorff R, Faber K, Farlow MR, Foroud T, Gao S, Rosewood T, Kim JP, Nudelman K, Yu M, Aisen P, Sperling R, Hooli B, Shcherbinin S, Svaldi D, Jack CR, Jagust WJ, Landau S, Vasanthakumar A, Waring JF, Doré V, Laws SM, Masters CL, Porter T, Rowe CC, Villemagne VL, Dumitrescu L, Hohman TJ, Libby JB, Mormino E, Buckley RF, Johnson K, Yang HS, Petersen RC, Ramanan VK, Vemuri P, Cohen AD, Fan KH, Kamboh MI, Lopez OL, Bennett DA, Ali M, Benzinger T, Cruchaga C, Hobbs D, De Jager PL, Fujita M, Jadhav V, Lamb BT, Tsai AP, Castanho I, Mill J, Weiner MW; Alzheimer’s Disease Neuroimaging Initiative (ADNI); Alzheimer’s Disease Neuroimaging Initiative – Department of Defense; Anti-Amyloid Treatment in Asymptomatic Alzheimer’s Study (A4 Study); Australian Imaging, Biomarker & Lifestyle Study (AIBL); Saykin AJ.

medRxiv [Preprint]. 2023 Mar 22:2023.02.27.23286048. doi: 10.1101/2023.02.27.23286048.

PMID: 36993271 Free PMC article. Preprint.