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Shinya Tasaki

Title
InstitutionRush University, Rush Medical College
DepartmentNeurological Sciences
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    Collapse Biography 
    Collapse awards and honors
    2007Research assistant fellowship, Medical Genome Science Program
    2008 - 2009Research assistant fellowship, Global Center of Excellence (G-CoE), Elucidation of Language Structure and Semantics behind Genome and Life Systems
    2014Senior Director's Award (CLK inhibitor), Takeda
    2014Director's Award (TRINTELLIX-antidepressant), Takeda
    2015Director's Award (RSLV132), Takeda

    Collapse Overview 
    Collapse overview
    Shinya Tasaki is a computational biologist at the Rush Alzheimer’s Disease Center and an assistant professor at Rush University Medical Center. His current research activities focus on building healthcare solutions for aging and Alzheimer’s disease by unifying different types of biomedical information. Before joining Rush, he worked in the pharmaceutical industry and experienced a broad range of drug discovery processes, such as target identification, portfolio prioritization, translational and personalized medicine. Data-driven hypotheses feed into collaborations with wet lab biologists and clinicians, and together we verify and refine the predictions to contribute to better healthcare programs.


    Collapse Bibliographic 
    Collapse selected publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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    1. Buchman AS, Yu L, Klein HU, Zammit AR, Oveisgharan S, Grodstein F, Tasaki S, Levey AI, Seyfried NT, Bennett DA. Proteome-wide discovery of cortical proteins that may provide motor resilience to offset the negative effects of pathologies in older adults. J Gerontol A Biol Sci Med Sci. 2022 May 04. PMID: 35512265.
      View in: PubMed
    2. Tasaki S, Xu J, Avey DR, Johnson L, Petyuk VA, Dawe RJ, Bennett DA, Wang Y, Gaiteri C. Inferring protein expression changes from mRNA in Alzheimer's dementia using deep neural networks. Nat Commun. 2022 02 03; 13(1):655. PMID: 35115553.
      View in: PubMed
    3. Ng B, Casazza W, Kim NH, Wang C, Farhadi F, Tasaki S, Bennett DA, De Jager PL, Gaiteri C, Mostafavi S. Cascading epigenomic analysis for identifying disease genes from the regulatory landscape of GWAS variants. PLoS Genet. 2021 11; 17(11):e1009918. PMID: 34807913.
      View in: PubMed
    4. Lagomarsino VN, Pearse RV, Liu L, Hsieh YC, Fernandez MA, Vinton EA, Paull D, Felsky D, Tasaki S, Gaiteri C, Vardarajan B, Lee H, Muratore CR, Benoit CR, Chou V, Fancher SB, He A, Merchant JP, Duong DM, Martinez H, Zhou M, Bah F, Vicent MA, Stricker JMS, Xu J, Dammer EB, Levey AI, Chibnik LB, Menon V, Seyfried NT, De Jager PL, Noggle S, Selkoe DJ, Bennett DA, Young-Pearse TL. Stem cell-derived neurons reflect features of protein networks, neuropathology, and cognitive outcome of their aged human donors. Neuron. 2021 11 03; 109(21):3402-3420.e9. PMID: 34473944.
      View in: PubMed
    5. Buchman AS, Yu L, Oveisgharan S, Petyuk VA, Tasaki S, Gaiteri C, Wilson RS, Grodstein F, Schneider JA, Klein HU, De Jager PL, Bennett DA. Cortical proteins may provide motor resilience in older adults. Sci Rep. 2021 05 28; 11(1):11311. PMID: 34050212.
      View in: PubMed
    6. Yu L, Tasaki S, Schneider JA, Arfanakis K, Duong DM, Wingo AP, Wingo TS, Kearns N, Thatcher GRJ, Seyfried NT, Levey AI, De Jager PL, Bennett DA. Cortical Proteins Associated With Cognitive Resilience in Community-Dwelling Older Persons. JAMA Psychiatry. 2020 11 01; 77(11):1172-1180. PMID: 32609320.
      View in: PubMed
    7. Tasaki S, Gaiteri C, Mostafavi S, Wang Y. Deep learning decodes the principles of differential gene expression. Nat Mach Intell. 2020 Jul; 2(7):376-386. PMID: 32671330.
      View in: PubMed
    8. Inamo J, Suzuki K, Takeshita M, Kassai Y, Takiguchi M, Kurisu R, Okuzono Y, Tasaki S, Yoshimura A, Takeuchi T. Identification of novel genes associated with dysregulation of B cells in patients with primary Sjögren's syndrome. Arthritis Res Ther. 2020 06 22; 22(1):153. PMID: 32571405.
      View in: PubMed
    9. Kaneshwaran K, Olah M, Tasaki S, Yu L, Bradshaw EM, Schneider JA, Buchman AS, Bennett DA, De Jager PL, Lim ASP. Sleep fragmentation, microglial aging, and cognitive impairment in adults with and without Alzheimer's dementia. Sci Adv. 2019 12; 5(12):eaax7331. PMID: 31844665.
      View in: PubMed
    10. Tasaki S, Gaiteri C, Petyuk VA, Blizinsky KD, De Jager PL, Buchman AS, Bennett DA. Genetic risk for Alzheimer's dementia predicts motor deficits through multi-omic systems in older adults. Transl Psychiatry. 2019 10 03; 9(1):241. PMID: 31582723.
      View in: PubMed
    11. Ng B, Casazza W, Patrick E, Tasaki S, Novakovsky G, Felsky D, Ma Y, Bennett DA, Gaiteri C, De Jager PL, Mostafavi S. Using Transcriptomic Hidden Variables to Infer Context-Specific Genotype Effects in the Brain. Am J Hum Genet. 2019 09 05; 105(3):562-572. PMID: 31447098.
      View in: PubMed
    12. Buchman AS, Yu L, Petyuk VA, Gaiteri C, Tasaki S, Blizinsky KD, Schneider JA, De Jager PL, Bennett DA. Cognition may link cortical IGFBP5 levels with motor function in older adults. PLoS One. 2019; 14(8):e0220968. PMID: 31404102.
      View in: PubMed
    13. Gaiteri C, Dawe R, Mostafavi S, Blizinsky KD, Tasaki S, Komashko V, Yu L, Wang Y, Schneider JA, Arfanakis K, De Jager PL, Bennett DA. Gene expression and DNA methylation are extensively coordinated with MRI-based brain microstructural characteristics. Brain Imaging Behav. 2019 Aug; 13(4):963-972. PMID: 29934819.
      View in: PubMed
    14. Arakawa Y, Yokoyama K, Tasaki S, Kato J, Nakashima K, Takeyama M, Nakatani A, Suzuki M. Transgenic mice overexpressing miR-137 in the brain show schizophrenia-associated behavioral deficits and transcriptome profiles. PLoS One. 2019; 14(7):e0220389. PMID: 31361772.
      View in: PubMed
    15. Yu L, Petyuk VA, Tasaki S, Boyle PA, Gaiteri C, Schneider JA, De Jager PL, Bennett DA. Association of Cortical ß-Amyloid Protein in the Absence of Insoluble Deposits With Alzheimer Disease. JAMA Neurol. 2019 07 01; 76(7):818-826. PMID: 31009033.
      View in: PubMed
    16. Tasaki S, Gaiteri C, Mostafavi S, De Jager PL, Bennett DA. The Molecular and Neuropathological Consequences of Genetic Risk for Alzheimer's Dementia. Front Neurosci. 2018; 12:699. PMID: 30349450.
      View in: PubMed
    17. Lim ASP, Gaiteri C, Yu L, Sohail S, Swardfager W, Tasaki S, Schneider JA, Paquet C, Stuss DT, Masellis M, Black SE, Hugon J, Buchman AS, Barnes LL, Bennett DA, De Jager PL. Seasonal plasticity of cognition and related biological measures in adults with and without Alzheimer disease: Analysis of multiple cohorts. PLoS Med. 2018 09; 15(9):e1002647. PMID: 30180184.
      View in: PubMed
    18. Tasaki S, Gaiteri C, Mostafavi S, Yu L, Wang Y, De Jager PL, Bennett DA. Multi-omic Directed Networks Describe Features of Gene Regulation in Aged Brains and Expand the Set of Genes Driving Cognitive Decline. Front Genet. 2018; 9:294. PMID: 30140277.
      View in: PubMed
    19. Tasaki S, Suzuki K, Kassai Y, Takeshita M, Murota A, Kondo Y, Ando T, Nakayama Y, Okuzono Y, Takiguchi M, Kurisu R, Miyazaki T, Yoshimoto K, Yasuoka H, Yamaoka K, Morita R, Yoshimura A, Toyoshiba H, Takeuchi T. Multi-omics monitoring of drug response in rheumatoid arthritis in pursuit of molecular remission. Nat Commun. 2018 07 16; 9(1):2755. PMID: 30013029.
      View in: PubMed
    20. Mostafavi S, Gaiteri C, Sullivan SE, White CC, Tasaki S, Xu J, Taga M, Klein HU, Patrick E, Komashko V, McCabe C, Smith R, Bradshaw EM, Root DE, Regev A, Yu L, Chibnik LB, Schneider JA, Young-Pearse TL, Bennett DA, De Jager PL. A molecular network of the aging human brain provides insights into the pathology and cognitive decline of Alzheimer's disease. Nat Neurosci. 2018 06; 21(6):811-819. PMID: 29802388.
      View in: PubMed
    21. Tasaki S, Suzuki K, Nishikawa A, Kassai Y, Takiguchi M, Kurisu R, Okuzono Y, Miyazaki T, Takeshita M, Yoshimoto K, Yasuoka H, Yamaoka K, Ikeura K, Tsunoda K, Morita R, Yoshimura A, Toyoshiba H, Takeuchi T. Multiomic disease signatures converge to cytotoxic CD8 T cells in primary Sjögren's syndrome. Ann Rheum Dis. 2017 Aug; 76(8):1458-1466. PMID: 28522454.
      View in: PubMed
    22. Funnell T, Tasaki S, Oloumi A, Araki S, Kong E, Yap D, Nakayama Y, Hughes CS, Cheng SG, Tozaki H, Iwatani M, Sasaki S, Ohashi T, Miyazaki T, Morishita N, Morishita D, Ogasawara-Shimizu M, Ohori M, Nakao S, Karashima M, Sano M, Murai A, Nomura T, Uchiyama N, Kawamoto T, Hara R, Nakanishi O, Shumansky K, Rosner J, Wan A, McKinney S, Morin GB, Nakanishi A, Shah S, Toyoshiba H, Aparicio S. CLK-dependent exon recognition and conjoined gene formation revealed with a novel small molecule inhibitor. Nat Commun. 2017 02 23; 8(1):7. PMID: 28232751.
      View in: PubMed
    23. Tasaki S, Sauerwine B, Hoff B, Toyoshiba H, Gaiteri C, Chaibub Neto E. Bayesian network reconstruction using systems genetics data: comparison of MCMC methods. Genetics. 2015 Apr; 199(4):973-89. PMID: 25631319.
      View in: PubMed
    24. Kozuka-Hata H, Tasaki S, Oyama M. Phosphoproteomics-based systems analysis of signal transduction networks. Front Physiol. 2011; 2:113. PMID: 22291655.
      View in: PubMed
    25. Kurotaki N, Tasaki S, Mishima H, Ono S, Imamura A, Kikuchi T, Nishida N, Tokunaga K, Yoshiura K, Ozawa H. Identification of novel schizophrenia loci by homozygosity mapping using DNA microarray analysis. PLoS One. 2011; 6(5):e20589. PMID: 21655227.
      View in: PubMed
    26. Tasaki S, Nagasaki M, Kozuka-Hata H, Semba K, Gotoh N, Hattori S, Inoue J, Yamamoto T, Miyano S, Sugano S, Oyama M. Phosphoproteomics-based modeling defines the regulatory mechanism underlying aberrant EGFR signaling. PLoS One. 2010 Nov 10; 5(11):e13926. PMID: 21085658.
      View in: PubMed
    27. Ono S, Imamura A, Tasaki S, Kurotaki N, Ozawa H, Yoshiura K, Okazaki Y. Failure to confirm CNVs as of aetiological significance in twin pairs discordant for schizophrenia. Twin Res Hum Genet. 2010 Oct; 13(5):455-60. PMID: 20874467.
      View in: PubMed
    28. Oyama M, Kozuka-Hata H, Tasaki S, Semba K, Hattori S, Sugano S, Inoue J, Yamamoto T. Temporal perturbation of tyrosine phosphoproteome dynamics reveals the system-wide regulatory networks. Mol Cell Proteomics. 2009 Feb; 8(2):226-31. PMID: 18815124.
      View in: PubMed
    29. Tasaki S, Nagasaki M, Oyama M, Hata H, Ueno K, Yoshida R, Higuchi T, Sugano S, Miyano S. Modeling and estimation of dynamic EGFR pathway by data assimilation approach using time series proteomic data. Genome Inform. 2006; 17(2):226-38. PMID: 17503395.
      View in: PubMed
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