My Bibliography

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Trivedi MR, Joshi AM, Shah J, Readhead BP, Wilson MA, Su Y, Reiman EM, Wu T, Wang Q. Interpretable deep learning framework for understanding molecular changes in human brains with Alzheimer's disease: implications for microglia activation and sex differences. NPJ Aging. 2025 Jul 16;11(1):66. doi: 10.1038/s41514-025-00258-5. PubMed PMID: 40670382; PubMed Central PMCID: PMC12267417.

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Readhead BP, Mastroeni DF, Wang Q, Sierra MA, de Ávila C, Jimoh TO, Haure-Mirande JV, Atanasoff KE, Nolz J, Suazo C, Barton NJ, Orszulak AR, Chigas SM, Tran K, Mirza A, Ryon K, Proszynski J, Najjar D, Dudley JT, Liu STH, Gandy S, Ehrlich ME, Alsop E, Antone J, Reiman R, Funk C, Best RL, Jhatro M, Kamath K, Shon J, Kowalik TF, Bennett DA, Liang WS, Serrano GE, Beach TG, Van Keuren-Jensen K, Mason CE, Chan Y, Lim ET, Tortorella D, Reiman EM. Alzheimer's disease-associated CD83(+) microglia are linked with increased immunoglobulin G4 and human cytomegalovirus in the gut, vagal nerve, and brain. Alzheimers Dement. 2025 Jan;21(1):e14401. doi: 10.1002/alz.14401. Epub 2024 Dec 19. PubMed PMID: 39698934; PubMed Central PMCID: PMC11772737.

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Sundstrom J, Vanderleeden E, Barton NJ, Redick SD, Dawes P, Murray LF, Olson MN, Tran K, Chigas SM, Orszulak AR, Church GM, Readhead B, Oh HS, Harlan DM, Knipe DM, Wang JP, Chan Y, Lim ET. Herpes Simplex Virus 1 Infection of Human Brain Organoids and Pancreatic Stem Cell-Islets Drives Organoid-Specific Transcripts Associated with Alzheimer's Disease and Autoimmune Diseases. Cells. 2024 Nov 29;13(23). doi: 10.3390/cells13231978. PubMed PMID: 39682726; PubMed Central PMCID: PMC11640215.

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Readhead B, Klang E, Gisladottir U, Vandromme M, Li L, Quiroz YT, Arboleda-Velasquez JF, Dudley JT, Tatonetti NP, Glicksberg BS, Reiman EM. Heparin treatment is associated with a delayed diagnosis of Alzheimer's dementia in electronic health records from two large United States health systems. Mol Psychiatry. 2025 Apr;30(4):1461-1465. doi: 10.1038/s41380-024-02757-5. Epub 2024 Oct 8. PubMed PMID: 39379683; PubMed Central PMCID: PMC11919696.

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Wang Q, Antone J, Alsop E, Reiman R, Funk C, Bendl J, Dudley JT, Liang WS, Karr TL, Roussos P, Bennett DA, De Jager PL, Serrano GE, Beach TG, Van Keuren-Jensen K, Mastroeni D, Reiman EM, Readhead BP. Single cell transcriptomes and multiscale networks from persons with and without Alzheimer's disease. Nat Commun. 2024 Jul 10;15(1):5815. doi: 10.1038/s41467-024-49790-0. PubMed PMID: 38987616; PubMed Central PMCID: PMC11237088.

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de Ávila C, Suazo C, Nolz J, Nicholas Cochran J, Wang Q, Velazquez R, Dammer E, Readhead B, Mastroeni D. Reduced PIN1 expression in neocortical and limbic brain regions in female Alzheimer's patients correlates with cognitive and neuropathological phenotypes. Neurobiol Aging. 2024 Sep;141:160-170. doi: 10.1016/j.neurobiolaging.2024.06.007. Epub 2024 Jun 29. PubMed PMID: 38964013.

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Tierney BT, Kim J, Overbey EG, Ryon KA, Foox J, Sierra MA, Bhattacharya C, Damle N, Najjar D, Park J, Garcia Medina JS, Houerbi N, Meydan C, Wain Hirschberg J, Qiu J, Kleinman AS, Al-Ghalith GA, MacKay M, Afshin EE, Dhir R, Borg J, Gatt C, Brereton N, Readhead BP, Beyaz S, Venkateswaran KJ, Wiseman K, Moreno J, Boddicker AM, Zhao J, Lajoie BR, Scott RT, Altomare A, Kruglyak S, Levy S, Church GM, Mason CE. Longitudinal multi-omics analysis of host microbiome architecture and immune responses during short-term spaceflight. Nat Microbiol. 2024 Jul;9(7):1661-1675. doi: 10.1038/s41564-024-01635-8. Epub 2024 Jun 11. PubMed PMID: 38862604; PubMed Central PMCID: PMC11222149.

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Orszulak A, Chigas S, Tran K, Dawes P, Olson M, Murray L, Barton N, Aylward A, Wang Q, Oh H. Transcriptomics‐based investigation of herpes simplex virus 1 infections and acyclovir treatment in human cerebral organoids. Alzheimer's & Dementia. 2023; 19:e082321.

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Song L, Rauf F, Hou C-W, Qiu J, Murugan V, Chung Y, Lai H, Adam D, Magee DM, Trivino Soto G, Peterson M, Anderson KS, Rice SG, Readhead B, Park JG, LaBaer J. Quantitative assessment of multiple pathogen exposure and immune dynamics at scale. Microbiol Spectr. 2024 Jan 11;12(1):e0239923. doi: 10.1128/spectrum.02399-23. Epub 2023 Dec 8. PubMed PMID: 38063388; PubMed Central PMCID: PMC10783028.

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Perez Garcia G, Bicak M, Buros J, Haure-Mirande JV, Perez GM, Otero-Pagan A, Gama Sosa MA, De Gasperi R, Sano M, Gage FH, Barlow C, Dudley JT, Glicksberg BS, Wang Y, Readhead B, Ehrlich ME, Elder GA, Gandy S. Beneficial effects of physical exercise and an orally active mGluR2/3 antagonist pro-drug on neurogenesis and behavior in an Alzheimer's amyloidosis model. Front Dement. 2023;2:1198006. doi: 10.3389/frdem.2023.1198006. eCollection 2023. PubMed PMID: 39081972; PubMed Central PMCID: PMC11285632.

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Smullen M, Olson MN, Reichert JM, Dawes P, Murray LF, Baer CE, Wang Q, Readhead B, Church GM, Lim ET, Chan Y. Reliable multiplex generation of pooled induced pluripotent stem cells. Cell Rep Methods. 2023 Sep 25;3(9):100570. doi: 10.1016/j.crmeth.2023.100570. Epub 2023 Aug 31. PubMed PMID: 37751688; PubMed Central PMCID: PMC10545906.

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de Ávila C, Suazo C, Nolz J, Cochran JN, Wang Q, Velazquez R, Dammer E, Readhead B, Mastroeni D. Reduced PIN1 gene expression in neocortical and limbic brain regions in female Alzheimer's patients correlates with cognitive and neuropathological phenotypes. bioRxiv. 2023 Aug 16;. doi: 10.1101/2023.08.14.553279. PubMed PMID: 37645898; PubMed Central PMCID: PMC10462057.

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Chudakova DA, Trubetskoy D, Baida G, Bhalla P, Readhead B, Budunova I. REDD1 (regulated in development and DNA damage 1) modulates the glucocorticoid receptor function in keratinocytes. Exp Dermatol. 2023 Oct;32(10):1725-1733. doi: 10.1111/exd.14887. Epub 2023 Jul 23. PubMed PMID: 37483165.

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Smullen M, Olson MN, Murray LF, Suresh M, Yan G, Dawes P, Barton NJ, Mason JN, Zhang Y, Fernandez-Fontaine AA, Church GM, Mastroeni D, Wang Q, Lim ET, Chan Y, Readhead B. Modeling of mitochondrial genetic polymorphisms reveals induction of heteroplasmy by pleiotropic disease locus 10398A>G. Sci Rep. 2023 Jun 27;13(1):10405. doi: 10.1038/s41598-023-37541-y. PubMed PMID: 37369829; PubMed Central PMCID: PMC10300032.

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Perez-Garcia G, Bicak M, Haure-Mirande JV, Perez GM, Otero-Pagan A, Gama Sosa MA, De Gasperi R, Sano M, Barlow C, Gage FH, Readhead B, Ehrlich ME, Gandy S, Elder GA. BCI-838, an orally active mGluR2/3 receptor antagonist pro-drug, rescues learning behavior deficits in the PS19 MAPT(P301S) mouse model of tauopathy. Neurosci Lett. 2023 Feb 16;797:137080. doi: 10.1016/j.neulet.2023.137080. Epub 2023 Jan 16. PubMed PMID: 36657633; PubMed Central PMCID: PMC9974759.

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PAD 20/20 Work Group on Community‐Based Detection of Cognitive Decline and Dementia, Au R, Ferrell P, Beeri M, Boden‐Albala B, Frank L, Jimenez‐Maggiora G, Khachaturian A, Kirkendall E, Kivipelto M. Improving community health‐care systems’ early detection of cognitive decline and dementia. Alzheimer's & Dementia. 2022; 18(11):2375-2381.

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Ahangari F, Becker C, Foster DG, Chioccioli M, Nelson M, Beke K, Wang X, Justet A, Adams T, Readhead B, Meador C, Correll K, Lili LN, Roybal HM, Rose KA, Ding S, Barnthaler T, Briones N, DeIuliis G, Schupp JC, Li Q, Omote N, Aschner Y, Sharma L, Kopf KW, Magnusson B, Hicks R, Backmark A, Dela Cruz CS, Rosas I, Cousens LP, Dudley JT, Kaminski N, Downey GP. Saracatinib, a Selective Src Kinase Inhibitor, Blocks Fibrotic Responses in Preclinical Models of Pulmonary Fibrosis. Am J Respir Crit Care Med. 2022 Dec 15;206(12):1463-1479. doi: 10.1164/rccm.202010-3832OC. PubMed PMID: 35998281; PubMed Central PMCID: PMC9757097.

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Wang Q, Chen K, Su Y, Reiman EM, Dudley JT, Readhead B. Deep learning-based brain transcriptomic signatures associated with the neuropathological and clinical severity of Alzheimer's disease. Brain Commun. 2022 Feb;4(1):fcab293. doi: 10.1093/braincomms/fcab293. eCollection 2022 Feb. PubMed PMID: 34993477; PubMed Central PMCID: PMC8728025.

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Bhattacharya D, Becker C, Readhead B, Goossens N, Novik J, Fiel MI, Cousens LP, Magnusson B, Backmark A, Hicks R, Dudley JT, Friedman SL. Repositioning of a novel GABA-B receptor agonist, AZD3355 (Lesogaberan), for the treatment of non-alcoholic steatohepatitis. Sci Rep. 2021 Oct 21;11(1):20827. doi: 10.1038/s41598-021-99008-2. PubMed PMID: 34675338; PubMed Central PMCID: PMC8531016.

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Baloni P, Funk CC, Readhead B, Price ND. Systems modeling of metabolic dysregulation in neurodegenerative diseases. Curr Opin Pharmacol. 2021 Oct;60:59-65. doi: 10.1016/j.coph.2021.06.012. Epub 2021 Aug 2. Review. PubMed PMID: 34352486; PubMed Central PMCID: PMC8511060.

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Wainberg M, Luquez T, Koelle DM, Readhead B, Johnston C, Darvas M, Funk CC. The viral hypothesis: how herpesviruses may contribute to Alzheimer's disease. Mol Psychiatry. 2021 Oct;26(10):5476-5480. doi: 10.1038/s41380-021-01138-6. Epub 2021 May 10. Review. PubMed PMID: 33972690; PubMed Central PMCID: PMC8758477.

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Ahangari F, Becker C, Foster D, Chioccioli M, Nelson M, Beke K, Meador C, Wang X, Corell K, Roybal H. Saracatinib Is a Potential Novel Therapeutic for Pulmonary Fibrosis. In: B20. THERAPEUTICS" 2020" IN LUNG DISEASE American Thoracic Society; 2020. A2784-A2784p.

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Amadori L, Calcagno C, Chong P, Shamailova R, Faries C, Readhead B, Dudley J, Fayad Z, Bjorkegren J, Giannarelli C. Network-driven Drug Repositioning Unveils a New Anti-atherosclerotic Effect of an Old Compound. Arteriosclerosis, Thrombosis, and Vascular Biology. 2020; 40(Suppl_1):A131-A131.

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Wang Q, Chen Y, Readhead B, Chen K, Su Y, Reiman EM, Dudley JT. Longitudinal data in peripheral blood confirm that PM20D1 is a quantitative trait locus (QTL) for Alzheimer's disease and implicate its dynamic role in disease progression. Clin Epigenetics. 2020 Dec 9;12(1):189. doi: 10.1186/s13148-020-00984-5. PubMed PMID: 33298155; PubMed Central PMCID: PMC7724832.

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Zouboulis CC, Readhead B, Dudley JT. An additional drug repurposing study for hidradenitis suppurativa/acne inversa. Br J Dermatol. 2021 Apr;184(4):748-750. doi: 10.1111/bjd.19627. Epub 2020 Nov 29. PubMed PMID: 33095911.

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Readhead B, Haure-Mirande JV, Mastroeni D, Audrain M, Fanutza T, Kim SH, Blitzer RD, Gandy S, Dudley JT, Ehrlich ME. miR155 regulation of behavior, neuropathology, and cortical transcriptomics in Alzheimer's disease. Acta Neuropathol. 2020 Sep;140(3):295-315. doi: 10.1007/s00401-020-02185-z. Epub 2020 Jul 14. PubMed PMID: 32666270; PubMed Central PMCID: PMC8414561.

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Lesovaya EA, Savinkova AV, Morozova OV, Lylova ES, Zhidkova EM, Kulikov EP, Kirsanov KI, Klopot A, Baida G, Yakubovskaya MG, Gordon LI, Readhead B, Dudley JT, Budunova I. A Novel Approach to Safer Glucocorticoid Receptor-Targeted Anti-lymphoma Therapy via REDD1 (Regulated in Development and DNA Damage 1) Inhibition. Mol Cancer Ther. 2020 Sep;19(9):1898-1908. doi: 10.1158/1535-7163.MCT-19-1111. Epub 2020 Jun 16. PubMed PMID: 32546661; PubMed Central PMCID: PMC7875139.

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Smith MR, Yevoo P, Sadahiro M, Readhead B, Kidd B, Dudley JT, Morishita H. Systematic Analysis of Environmental Chemicals That Dysregulate Critical Period Plasticity-Related Gene Expression Reveals Common Pathways That Mimic Immune Response to Pathogen. Neural Plast. 2020;2020:1673897. doi: 10.1155/2020/1673897. eCollection 2020. PubMed PMID: 32454811; PubMed Central PMCID: PMC7222500.

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Itzhaki RF, Golde TE, Heneka MT, Readhead B. Do infections have a role in the pathogenesis of Alzheimer disease?. Nat Rev Neurol. 2020 Apr;16(4):193-197. doi: 10.1038/s41582-020-0323-9. Epub 2020 Mar 9. Review. PubMed PMID: 32152461.

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Zouboulis CC, Nogueira da Costa A, Makrantonaki E, Hou XX, Almansouri D, Dudley JT, Edwards H, Readhead B, Balthasar O, Jemec GBE, Bonitsis NG, Nikolakis G, Trebing D, Zouboulis KC, Hossini AM. Alterations in innate immunity and epithelial cell differentiation are the molecular pillars of hidradenitis suppurativa. J Eur Acad Dermatol Venereol. 2020 Apr;34(4):846-861. doi: 10.1111/jdv.16147. Epub 2020 Jan 30. PubMed PMID: 31838778.

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Baida G, Agarwal S, Readhead B, Dudley JT, Budunova I. Sexual dimorphism in atrophic effects of topical glucocorticoids is driven by differential regulation of atrophogene REDD1 in male and female skin. Oncotarget. 2020 Jan 28;11(4):409-418. doi: 10.18632/oncotarget.27445. eCollection 2020 Jan 28. PubMed PMID: 32064044; PubMed Central PMCID: PMC6996908.

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Agarwal S, Mirzoeva S, Readhead B, Lesovaya E, Dudley J, Budunova I. 727 Use of PI3K/mTOR/Akt inhibitors as skin protectors to spare skin from glucocorticoid-induced atrophy. Journal of Investigative Dermatology. 2019; 139(5):S125.

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Mirzoeva S, Agarwal S, Baida G, Lesovaya E, Readhead B, Dudley J, Budunova I. 310 PI3-Kinase inhibitors represent a novel class of drug repurposing candidates to prevent glucocorticoid-induced skin atrophy. Journal of Investigative Dermatology. 2019; 139(9):S267.

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Enriquez D, Elyaderani A, Antone J, Geiger P, Adkins J, Serrano G, Mastroeni D, Beach T, Readhead B, Dudley J. P4‐495: SINGLE NUCLEI AND SINGLE WHOLE CELL SEQUENCING OF ALZHEIMER'S DISEASE. Alzheimer's & Dementia. 2019; 15:P1503-P1503.

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Readhead B, Haure-Mirande J, Ehrlich M, Gandy S, Dudley J. Further evidence of increased human Herpesvirus in Alzheimer's disease. BioRxiv. 2019; :858050.

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Readhead B, Haure-Mirande JV, Ehrlich ME, Gandy S, Dudley JT. Clarifying the Potential Role of Microbes in Alzheimer's Disease. Neuron. 2019 Dec 18;104(6):1036-1037. doi: 10.1016/j.neuron.2019.11.008. PubMed PMID: 31855627; PubMed Central PMCID: PMC8380054.

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Glicksberg BS, Amadori L, Akers NK, Sukhavasi K, Franzén O, Li L, Belbin GM, Ayers KL, Shameer K, Badgeley MA, Johnson KW, Readhead B, Darrow BJ, Kenny EE, Betsholtz C, Ermel R, Skogsberg J, Ruusalepp A, Schadt EE, Dudley JT, Ren H, Kovacic JC, Giannarelli C, Li SD, Björkegren JLM, Chen R. Correction to: Integrative analysis of loss-of-function variants in clinical and genomic data reveals novel genes associated with cardiovascular traits. BMC Med Genomics. 2019 Nov 5;12(1):154. doi: 10.1186/s12920-019-0573-9. PubMed PMID: 31684948; PubMed Central PMCID: PMC6829820.

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Zhang W, Voloudakis G, Rajagopal VM, Readhead B, Dudley JT, Schadt EE, Björkegren JLM, Kim Y, Fullard JF, Hoffman GE, Roussos P. Integrative transcriptome imputation reveals tissue-specific and shared biological mechanisms mediating susceptibility to complex traits. Nat Commun. 2019 Aug 23;10(1):3834. doi: 10.1038/s41467-019-11874-7. PubMed PMID: 31444360; PubMed Central PMCID: PMC6707297.

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Glicksberg BS, Amadori L, Akers NK, Sukhavasi K, Franzén O, Li L, Belbin GM, Ayers KL, Shameer K, Badgeley MA, Johnson KW, Readhead B, Darrow BJ, Kenny EE, Betsholtz C, Ermel R, Skogsberg J, Ruusalepp A, Schadt EE, Dudley JT, Ren H, Kovacic JC, Giannarelli C, Li SD, Björkegren JLM, Chen R. Integrative analysis of loss-of-function variants in clinical and genomic data reveals novel genes associated with cardiovascular traits. BMC Med Genomics. 2019 Jul 25;12(Suppl 6):108. doi: 10.1186/s12920-019-0542-3. PubMed PMID: 31345219; PubMed Central PMCID: PMC6657044.

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Xu K, Kosoy R, Shameer K, Kumar S, Liu L, Readhead B, Belbin GM, Lee HC, Chen R, Dudley JT. Genome-wide analysis indicates association between heterozygote advantage and healthy aging in humans. BMC Genet. 2019 Jul 2;20(1):52. doi: 10.1186/s12863-019-0758-4. PubMed PMID: 31266448; PubMed Central PMCID: PMC6604157.

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Lili LN, Klopot A, Readhead B, Baida G, Dudley JT, Budunova I. Transcriptomic Network Interactions in Human Skin Treated with Topical Glucocorticoid Clobetasol Propionate. J Invest Dermatol. 2019 Nov;139(11):2281-2291. doi: 10.1016/j.jid.2019.04.021. Epub 2019 Jun 25. PubMed PMID: 31247200; PubMed Central PMCID: PMC6814545.

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Frades I, Readhead B, Amadori L, Koplev S, Talukdar HA, Crane HM, Crane PK, Kovacic JC, Dudley JT, Giannarelli C, Björkegren JLM, Peter I. Systems Pharmacology Identifies an Arterial Wall Regulatory Gene Network Mediating Coronary Artery Disease Side Effects of Antiretroviral Therapy. Circ Genom Precis Med. 2019 Jun;12(6):e002390. doi: 10.1161/CIRCGEN.118.002390. Epub 2019 May 6. PubMed PMID: 31059280; PubMed Central PMCID: PMC6601350.

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Haure-Mirande JV, Wang M, Audrain M, Fanutza T, Kim SH, Heja S, Readhead B, Dudley JT, Blitzer RD, Schadt EE, Zhang B, Gandy S, Ehrlich ME. Correction: Integrative approach to sporadic Alzheimer's disease: deficiency of TYROBP in cerebral Aβ amyloidosis mouse normalizes clinical phenotype and complement subnetwork molecular pathology without reducing Aβ burden. Mol Psychiatry. 2019 Mar;24(3):472. doi: 10.1038/s41380-018-0301-4. PubMed PMID: 30464330; PubMed Central PMCID: PMC7608234.

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Agarwal S, Mirzoeva S, Readhead B, Dudley JT, Budunova I. PI3K inhibitors protect against glucocorticoid-induced skin atrophy. EBioMedicine. 2019 Mar;41:526-537. doi: 10.1016/j.ebiom.2019.01.055. Epub 2019 Feb 5. PubMed PMID: 30737086; PubMed Central PMCID: PMC6441871.

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Lili L, Readhead B, Baida G, Budunova I, Duddley J. 1078 The gluciocorticoid receptor is a master regulator of transcription in human skin. Journal of Investigative Dermatology. 2018; 138(5):S183.

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Shameer K, Johnson K, Readhead B, Glicksberg B, McCallum C, Revikumar A, Hirsch J, Bock K, Chelico J, Hajizadeh N. Rapid Therapeutic Recommendations in the Context of a Global Public Health Crisis using Translational Bioinformatics Approaches: A proof-of-concept study using Nipah Virus Infection. bioRxiv. 2018; :333021.

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Shameer K, Johnson K, Glicksberg B, Hodos R, Readhead B, Tomlinson M, Dudley J. Prioritizing small molecule as candidates for drug repositioning using machine learning. bioRxiv. 2018; :331975.

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Yadav K, Shameer K, Stockert J, Elaiho C, Readhead B, Yadav S, Dudley J, Tewari A. Abstract B023: Identification and biochemical validation of piperlongumine as a potent therapeutic against neuroendocrine prostate cancer. American Association for Cancer Research; 2018. 0008-5472.

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Yadav K, Shameer K, Stockert J, Elaiho C, Readhead B, Yadav S, Dudley J, Tewari A. Identification and biochemical validation of piperlongumine as a potent therapeutic against neuroendocrine prostate cancer. CANCER RESEARCH. 2018; 78(16):90-91.

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Johnson K, Narula J, Glicksberg B, Shameer K, Chaudhry F, Yahi A, Readhead B, Khan N, Amadori L, Becker C. Translational Systems Genetics, Electronic Medical Record Analysis, and Molecular Imaging Reveal That the Antidepressant Trazodone Reduces Atherosclerosis as Well as Statins: Drug Discovery by Repurposing of Proven Safe Drugs. Circulation. 2018; 138(Suppl_1):A10647-A10647.