Publications

Selected publications (#equal contribution, *corresponding author):

  1. Nicholas Sweeney#, Tae Yeon Kim#, Cody T. Morrison, Liangping Li, Diana Acosta, Jiawen Liang, Nithin V. Datla, Julie A. Fitzgerald, Haoran Huang, Xianglan Liu, Gregory Huang Tan, Min Wu, Kate Karelina, Chelsea E. Bray, Zachary M. Weil, Douglas W. Scharre, Geidy E. Serrano, Takashi Saito, Takaomi C. Saido, Thomas G. Beach, Olga N. Kokiko‑Cochran, Jonathan P. Godbout, Gail V. W. Johnson, Hongjun Fu*. Neuronal BAG3 attenuates tau hyperphosphorylation, synaptic dysfunction, and cognitive deficits induced by traumatic brain injury via the regulation of autophagy-lysosome pathway. Acta Neuropathol 148, 52 (2024). https://doi.org/10.1007/s00401-024-02810-1.
  2. Li Y, Ma A, Wang Y, Guo Q, Wang C, Fu H, Liu B, Ma Q. Enhancer-driven gene regulatory networks inference from single-cell RNA-seq and ATAC-seq data.
    Brief Bioinform. 2024 Jul 25;25(5):bbae369. doi: 10.1093/bib/bbae369.PMID: 39082647.
  3. Mackey-Alfonso SE, Butler MJ, Taylor AM, Williams-Medina AR, Muscat SM, Fu H, Barrientos RM. Short-term high fat diet impairs memory, exacerbates the neuroimmune response, and evokes synaptic degradation via a complement-dependent mechanism in a mouse model of Alzheimer’s disease. Brain Behav Immun. 2024 Jul 21:S0889-1591(24)00496-3. doi: 10.1016/j.bbi.2024.07.021. PMID: 39043341.
  4. Cankun Wang, Diana Acosta, Megan McNutt, Jiang Bian, Anjun Ma, Hongjun Fu*, Qin Ma*. A Single-cell and Spatial RNA-seq Database for Alzheimer’s Disease (ssREAD). Nature Communications. 15, 4710 (2024). https://doi.org/10.1038/s41467-024-49133-z.
  5. Chen S#, Chang Y#, Li L, Acosta D, Li Y, Guo Q, Wang C, Turkes E, Morrison C, Julian D, Hester ME, Scharre DW, Santiskulvong C, Song SX, Plummer JT, Serrano GE, Beach TG, Duff KE, Ma Q*, Fu H*. Spatially resolved transcriptomics reveals genes associated with the vulnerability of middle temporal gyrus in Alzheimer’s disease. Acta Neuropathol Commun. 2022 Dec 21;10(1):188. doi: 10.1186/s40478-022-01494-6. PubMed PMID: 36544231; PubMed Central PMCID: PMC9773466.
  6. Chang Y, He F, Wang J, Chen S, Li J, Liu J, Yu Y, Su L, Ma A, Allen C, Lin Y, Sun S, Liu B, Javier Otero J, Chung D, Fu H, Li Z, Xu D, Ma Q. Define and visualize pathological architectures of human tissues from spatially resolved transcriptomics using deep learning. Comput Struct Biotechnol J. 2022;20:4600-4617. doi: 10.1016/j.csbj.2022.08.029. eCollection 2022. PubMed PMID: 36090815; PubMed Central PMCID: PMC9440291.
  7. Kenigsbuch M, Bost P, Halevi S, Chang Y, Chen S, Ma Q, Hajbi R, Schwikowski B, Bodenmiller B, Fu H, Schwartz M, Amit I. A shared disease-associated oligodendrocyte signature among multiple CNS pathologies. Nat Neurosci. 2022 Jul;25(7):876-886. doi: 10.1038/s41593-022-01104-7. Epub 2022 Jun 27. PubMed PMID: 35760863; PubMed Central PMCID: PMC9724210.
  8. Chen S, Acosta D, Li L, Liang J, Chang Y, Wang C, Fitzgerald J, Morrison C, Goulbourne CN, Nakano Y, Villegas NCH, Venkataraman L, Brown C, Serrano GE, Bell E, Wemlinger T, Wu M, Kokiko-Cochran ON, Popovich P, Flowers XE, Honig LS, Vonsattel JP, Scharre DW, Beach TG, Ma Q, Kuret J, Kõks S, Urano F, Duff KE, Fu H*. Wolframin is a novel regulator of tau pathology and neurodegeneration. Acta Neuropathol. 2022 May;143(5):547-569. doi: 10.1007/s00401-022-02417-4. Epub 2022 Apr 7. PubMed PMID: 35389045.
  9. Venkataraman L, Fair SR, McElroy CA, Hester ME*, Fu H*. Modeling neurodegenerative diseases with cerebral organoids and other three-dimensional culture systems: focus on Alzheimer’s disease. Stem Cell Rev Rep. 2022 Feb;18(2):696-717. doi: 10.1007/s12015-020-10068-9. Epub 2020 Nov 12. Review. PubMed PMID: 33180261; PubMed Central PMCID: PMC7658915.
  10. Mak S, Li W, Fu H, Luo J, Cui W, Hu S, Pang Y, Carlier PR, Tsim KW, Pi R, Han Y. Promising tacrine/huperzine A-based dimeric acetylcholinesterase inhibitors for neurodegenerative disorders: From relieving symptoms to modifying diseases through multitarget. J Neurochem. 2021 Sep;158(6):1381-1393. doi: 10.1111/jnc.15379. Epub 2021 Jul 5. Review. PubMed PMID: 33930191; PubMed Central PMCID: PMC8458250.
  11. Wang C, Xiang Y, Fu H*, Ma Q*. Use of scREAD to explore and analyze single-cell and single-nucleus RNA-seq data for Alzheimer’s disease. STAR Protoc. 2021 Jun 18;2(2):100513. doi: 10.1016/j.xpro.2021.100513. eCollection 2021 Jun 18. PubMed PMID: 34013209; PubMed Central PMCID: PMC8113978.
  12. Wang J, Ma A, Chang Y, Gong J, Jiang Y, Qi R, Wang C, Fu H, Ma Q, Xu D. scGNN is a novel graph neural network framework for single-cell RNA-Seq analyses. Nat Commun. 2021 Mar 25;12(1):1882. doi: 10.1038/s41467-021-22197-x. PubMed PMID: 33767197; PubMed Central PMCID: PMC7994447.
  13. Li L, Liang J, Fu H*. An update on the association between traumatic brain injury and Alzheimer’s disease: Focus on Tau pathology and synaptic dysfunction. Neurosci Biobehav Rev. 2021 Jan;120:372-386. doi: 10.1016/j.neubiorev.2020.10.020. Epub 2020 Nov 7. Review. PubMed PMID: 33171143; PubMed Central PMCID: PMC9725170.
  14. Jiang J, Wang C, Qi R, Fu H*, Ma Q*. scREAD: A Single-Cell RNA-Seq Database for Alzheimer’s Disease. iScience. 2020 Nov 20;23(11):101769. doi: 10.1016/j.isci.2020.101769. eCollection 2020 Nov 20. PubMed PMID: 33241205; PubMed Central PMCID: PMC7674513.
  15. Li L, Venkataraman L, Chen S, Fu H*. Function of WFS1 and WFS2 in the Central Nervous System: Implications for Wolfram Syndrome and Alzheimer’s disease. Neurosci Biobehav Rev. 2020 Nov;118:775-783. doi: 10.1016/j.neubiorev.2020.09.011. Epub 2020 Sep 17. Review. PubMed PMID: 32949681; PubMed Central PMCID: PMC7744320.
  16. Fung CW, Guo J, Fu H, Figueroa HY, Konofagou EE, Duff KE. Atrophy associated with tau pathology precedes overt cell death in a mouse model of progressive tauopathy. Sci Adv. 2020 Oct;6(42). doi: 10.1126/sciadv.abc8098. Print 2020 Oct. PubMed PMID: 33067235; PubMed Central PMCID: PMC7567584.
  17. Fu H*, Liu B, Li L, Lemere CA*. Microglia Do Not Take Up Soluble Amyloid-beta Peptides, But Partially Degrade Them by Secreting Insulin-degrading Enzyme. Neuroscience. 2020 Sep 1;443:30-43. doi: 10.1016/j.neuroscience.2020.07.020. Epub 2020 Jul 19. PubMed PMID: 32697980; PubMed Central PMCID: PMC7484427.
  18. Fu H*, Possenti A, Freer R, Nakano Y, Hernandez Villegas NC, Tang M, Cauhy PVM, Lassus BA, Chen S, Fowler SL, Figueroa HY, Huey ED, Johnson GVW, Vendruscolo M, Duff KE*. A tau homeostasis signature is linked with the cellular and regional vulnerability of excitatory neurons to tau pathology. Nat Neurosci. 2019 Jan;22(1):47-56. doi: 10.1038/s41593-018-0298-7. Epub 2018 Dec 17. PubMed PMID: 30559469; PubMed Central PMCID: PMC6330709.
  19. Fu H, Hardy J, Duff KE. Selective vulnerability in neurodegenerative diseases. Nat Neurosci. 2018 Oct;21(10):1350-1358. doi: 10.1038/s41593-018-0221-2. Epub 2018 Sep 24. Review. PubMed PMID: 30250262; PubMed Central PMCID: PMC6360529.
  20. Vo MN, Terrey M, Lee JW, Roy B, Moresco JJ, Sun L, Fu H, Liu Q, Weber TG, Yates JR 3rd, Fredrick K, Schimmel P, Ackerman SL. ANKRD16 prevents neuron loss caused by an editing-defective tRNA synthetase. Nature. 2018 May;557(7706):510-515. doi: 10.1038/s41586-018-0137-8. Epub 2018 May 16. PubMed PMID: 29769718; PubMed Central PMCID: PMC5973781.
  21. Fu H#, Rodriguez GA#, Herman M, Emrani S, Nahmani E, Barrett G, Figueroa HY, Goldberg E, Hussaini SA#*, Duff KE*. Tau Pathology Induces Excitatory Neuron Loss, Grid Cell Dysfunction, and Spatial Memory Deficits Reminiscent of Early Alzheimer’s Disease. Neuron. 2017 Feb 8;93(3):533-541.e5. doi: 10.1016/j.neuron.2016.12.023. Epub 2017 Jan 19. PubMed PMID: 28111080; PubMed Central PMCID: PMC5363269.
  22. Wu JW, Hussaini SA, Bastille IM, Rodriguez GA, Mrejeru A, Rilett K, Sanders DW, Cook C, Fu H, Boonen RA, Herman M, Nahmani E, Emrani S, Figueroa YH, Diamond MI, Clelland CL, Wray S, Duff KE. Neuronal activity enhances tau propagation and tau pathology in vivo. Nat Neurosci. 2016 Aug;19(8):1085-92. doi: 10.1038/nn.4328. Epub 2016 Jun 20. PubMed PMID: 27322420; PubMed Central PMCID: PMC4961585.
  23. Fu H, Hussaini SA, Wegmann S, Profaci C, Daniels JD, Herman M, Emrani S, Figueroa HY, Hyman BT, Davies P, Duff KE. 3D Visualization of the Temporal and Spatial Spread of Tau Pathology Reveals Extensive Sites of Tau Accumulation Associated with Neuronal Loss and Recognition Memory Deficit in Aged Tau Transgenic Mice. PLoS One. 2016;11(7):e0159463. doi: 10.1371/journal.pone.0159463. eCollection 2016. PubMed PMID: 27466814; PubMed Central PMCID: PMC4965059.
  24. Tosto G, Fu H#, Vardarajan BN, Lee JH, Cheng R, Reyes-Dumeyer D, Lantigua R, Medrano M, Jimenez-Velazquez IZ, Elkind MS, Wright CB, Sacco RL, Pericak-Vance M, Farrer L, Rogaeva E, St George-Hyslop P, Reitz C, Mayeux R. F-box/LRR-repeat protein 7 is genetically associated with Alzheimer’s disease. Ann Clin Transl Neurol. 2015 Aug;2(8):810-20. doi: 10.1002/acn3.223. Epub 2015 Jun 18. PubMed PMID: 26339675; PubMed Central PMCID: PMC4554442.

Complete List of Published Work in MyBibliography: http://www.ncbi.nlm.nih.gov/sites/myncbi/1rc7FqbU0uyQb/bibliography/50304969/public/?sort=date&direction=descending.

Google Scholar:  https://scholar.google.com/citations?user=x7VoNG0AAAAJ&hl=en