% alzhub.org topic: single-cell
% Source: https://alzhub.org/topic/single-cell
% 274 entries, in the order the page lists them. Built from alzhub.org's own records.
% 0 entries have no readable author in the source record and carry no author field.

@article{taofeek2026-32f5acbd,
  author  = {Taofeek, O. O. and Adigun, S. A. and Oladipo, E. K. and Mushebenge, A. G. and Khairallah, A. and Akinduti, P. and Sulaimon, L. A.},
  title   = {{Integrative systems biology identifies shared neuroimmune co-expression programmes across pulmonary tuberculosis and Alzheimer's disease}},
  journal = {Research Square},
  year    = {2026},
  doi     = {10.21203/rs.3.rs-11528962/v1},
  url     = {https://doi.org/10.21203/rs.3.rs-11528962/v1}
}

@article{fang2026-7e17688f,
  author  = {Fang, J. I. and Lehmann, L. and Prater, K. E. and Barker-Haliski, M.},
  title   = {{Pregnancy History and Loss of Normal PSEN2 Function Impact Female Late-Life Cognitive Processing, Inhibitory Signaling, and Gliosis}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.10.28.762624},
  url     = {https://doi.org/10.64898/2026.10.28.762624}
}

@article{stotzem2026-fb708898,
  author  = {Stotzem, N. and Chang, S. and Cai, N. and Casale, F. P.},
  title   = {{Joint localization and testing reveals spatial context of differential expression}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.10.28.758685},
  url     = {https://doi.org/10.64898/2026.10.28.758685}
}

@article{lyu2026-d9d173bc,
  author  = {Lyu, J.},
  title   = {{PIN1-p53 bifurcation dictates opposite cell fate decisions in Alzheimer’s disease and glioblastoma via distinct energy landscape topologies}},
  journal = {Research Square},
  year    = {2026},
  doi     = {10.21203/rs.3.rs-11415613/v1},
  url     = {https://doi.org/10.21203/rs.3.rs-11415613/v1}
}

@article{lu2026-20c913a6,
  author  = {Lu, S. and Enduru, N. and Citu, C. and Tung, C. and Zhao, Z.},
  title   = {{Single-Nucleus Profiling Reveals Neuronal Metabolic Collapse During the Transition to Alzheimer’s Disease Dementia}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.10.26.761376},
  url     = {https://doi.org/10.64898/2026.10.26.761376}
}

@article{wong2026-d98194dd,
  author  = {Wong, K. K.},
  title   = {{CEP-IP with CMRF in SEA-AD Microglia: A Mitochondrial Co-expression Module Linked to Cognition}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.10.22.761284},
  url     = {https://doi.org/10.64898/2026.10.22.761284}
}

@article{armah2026-0dd7e989,
  author  = {Armah, F. and Abor, E. and Sam, P. and Sarpong, E. and Ghartey-Kwansah, G.},
  title   = {{CausalDiffChem: Causal Network Restoration for Therapeutic Prioritization and Repurposing Across Diseases}},
  journal = {Research Square},
  year    = {2026},
  doi     = {10.21203/rs.3.rs-11272130/v1},
  url     = {https://doi.org/10.21203/rs.3.rs-11272130/v1}
}

@article{perry2026-2e952610,
  author  = {Perry, A. S. and Adegboye, H. A. and Bledsoe, X. and Archer, D. and Tiwari, A. and Lin, P. and Farber-Eger, E. and Perera, B. L. A. and others},
  title   = {{Proteogenomics captures a midlife biological state of Alzheimer’s disease susceptibility}},
  journal = {medRxiv},
  year    = {2026},
  doi     = {10.64898/2026.10.22.26366029},
  url     = {https://doi.org/10.64898/2026.10.22.26366029}
}

@article{cui2026-a5be5a37,
  author  = {Cui, X. and Beadell, A. V. and Tasaki, S. and Capuano, A. W. and Zhang, Z. and Gao, L. and Chiu, B. C. and He, C. and others},
  title   = {{Ultra-sensitive Mapping of Cell-free DNA-derived Methylomes Reveals Brain-specific Epigenetic Alterations Implicated in Alzheimer’s Disease}},
  journal = {medRxiv},
  year    = {2026},
  doi     = {10.64898/2026.10.24.26366278},
  url     = {https://doi.org/10.64898/2026.10.24.26366278}
}

@article{panchal2026-4e5198c5,
  author  = {Panchal, K. and Majumdar, S.},
  title   = {{Non-canonical proteoforms of the human fusiform gyrus in Alzheimer’s disease}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.10.20.760462},
  url     = {https://doi.org/10.64898/2026.10.20.760462}
}

@article{rantanen2026-b5739013,
  author  = {Rantanen, L. M. and Robinson, H. and Dutra Voigt, D. and Diaz, X. and Lampinen, R. and Mykkänen, S. and Kalapudas, J. and Koivisto, A. M. and others},
  title   = {{Alzheimer’s Disease-Associated Proteomic Changes in Olfactory Stem Cells Show Pathway-Level Transcriptomic Overlap}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.10.19.760270},
  url     = {https://doi.org/10.64898/2026.10.19.760270}
}

@article{you2026-647daca9,
  author  = {You, L. and Durbin, J. L. and Meng, G. and Stallaert, W. and Li, G. and Uttam, S. and Feng, H. and Glausier, JR. and others},
  title   = {{Overcoming segmentation bottlenecks in brain tissue for spatial proteomic inference at population scale}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.10.22.761199},
  url     = {https://doi.org/10.64898/2026.10.22.761199}
}

@article{vilkaite2026-1d27cabc,
  author  = {Vilkaite, G. and Volcov, E. and An, L. and Xiao, Y. and Hristovska, I. and Rosat Consiglio, C. and Pichet-Binette, A. and Mattsson-Carlgren, N. and others},
  title   = {{A coordinated and reproducible multicellular response to AD pathology}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.10.19.759610},
  url     = {https://doi.org/10.64898/2026.10.19.759610}
}

@article{serratto2026-39562558,
  author  = {Serratto, G. M. and Barriga, G. G. and Rosebrock, D. and Simon, M. and Kuhn, R. and von der Kammer, H. and Gruber-Schoffnegger, D.},
  title   = {{A brain immune phenotype independent of Alzheimer’s Disease associates with amyloid susceptibility and systemic inflammation}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.10.21.760450},
  url     = {https://doi.org/10.64898/2026.10.21.760450}
}

@article{tu2026-39d431f5,
  author  = {Tu, A. and Liu, S.},
  title   = {{Function-oriented microglial transcriptional scores in Alzheimer’s disease: resolving terminal functions beyond activation states}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.10.14.759278},
  url     = {https://doi.org/10.64898/2026.10.14.759278}
}

@article{he2026-24cbdbd1,
  author  = {He, D. and Liu, R. and Tian, Z. and Xiong, Z. and Zhang, K. and Zheng, X. and Luo, Z. and Li, X. and others},
  title   = {{Multi-omics framework prioritizes RNA Methylation Modification Genes in Alzheimer's Disease and Functional Validation of ZFP36 in Regulating Neuroinflammation}},
  journal = {Research Square},
  year    = {2026},
  doi     = {10.21203/rs.3.rs-10955695/v1},
  url     = {https://doi.org/10.21203/rs.3.rs-10955695/v1}
}

@article{shi2026-06f6a958,
  author  = {Shi, C. H. and Zhu, B. and Pina-Crespo, J. and Chen, W. N. and Vo, G. V. and Huang, H. and Yip, K. Y. and Huang, T. Y.},
  title   = {{Spatial proximity to AD pathology defines cell-type and genotype-specific characteristics in human AD hippocampus}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.10.15.759523},
  url     = {https://doi.org/10.64898/2026.10.15.759523}
}

@article{li2026-28ef8cc8,
  author  = {Li, Y. and Yu, X. and Peng, C.},
  title   = {{An interpretable whole-blood transcriptomic model for Parkinson’s disease identification and molecular profiling}},
  journal = {medRxiv},
  year    = {2026},
  doi     = {10.64898/2026.10.19.26365876},
  url     = {https://doi.org/10.64898/2026.10.19.26365876}
}

@article{roussos2026-76641766,
  author  = {Roussos, P. and Dong, P. and Cao, X. and Kinrot, S. and Casey, C. and Hong, A. and Alvia, M. and Shao, Z. and others},
  title   = {{Coordinated cellular responses track cognitive outcomes in Alzheimer’s disease}},
  journal = {Research Square},
  year    = {2026},
  doi     = {10.21203/rs.3.rs-11296978/v1},
  url     = {https://doi.org/10.21203/rs.3.rs-11296978/v1}
}

@article{riaz2026-1fe6b0f9,
  author  = {Riaz, H. A. and Soman, S. K. and Devlin, J. F. and Kumar, G. and Lee, Y. and Morrow, E. M.},
  title   = {{Longitudinal single-cell transcriptional profiling identifies dynamic neurodegenerative mechanisms in Christianson Syndrome rat}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.10.14.756427},
  url     = {https://doi.org/10.64898/2026.10.14.756427}
}

@article{mollica2026-c402a472,
  author  = {Mollica, A. and Leccisotti, I. and Moretti, M. C. and Bonfitto, I. and Laurello, R. and Carapellese, M. and De Giorgi, A. and Altamura, M. and others},
  title   = {{Proteomic Signatures of Vulnerability Across Late-Life Depression, Frailty, and Neurodegeneration}},
  journal = {Preprints.org},
  year    = {2026},
  doi     = {10.20944/preprints202610.1843.v1},
  url     = {https://doi.org/10.20944/preprints202610.1843.v1}
}

@article{cox2026-d503604f,
  author  = {Cox, J. E. and Poljanska, E. and Ray, S. and Forsgren, M. and Ko, S. and Swiergiel, P. and Wright, Z. and Thomas, M. A. and others},
  title   = {{Female microglia show heightened responses to aging and amyloid pathology in mice and humans}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.10.13.758897},
  url     = {https://doi.org/10.64898/2026.10.13.758897}
}

@article{shen2026-ca8d722a,
  author  = {Shen, J. and Shen, Y. and Yu, G. and Pang, L. and Xiao, C.},
  title   = {{Structured Metabolic Genetic Axes Reveal Distinct Lipid and Ketone-Body Programs in Alzheimer’s and Parkinson’s Disease}},
  journal = {Research Square},
  year    = {2026},
  doi     = {10.21203/rs.3.rs-11247856/v1},
  url     = {https://doi.org/10.21203/rs.3.rs-11247856/v1}
}

@article{kong2026-36e22c46,
  author  = {Kong, Y. and Zhai, T. and Zhao, H.},
  title   = {{Spatiotemporal transcriptomic dynamic across the auditory pathway from young to old age in 5xFAD Alzheimer disease mice}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.10.17.759861},
  url     = {https://doi.org/10.64898/2026.10.17.759861}
}

@article{gu2026-a2981bee,
  author  = {Gu, Z. and Dong, Y. and Shang, S. and Liu, A. and Wang, J. and Chi, X. and Xie, A. and Li, M.},
  title   = {{Systematic identification of perioperative neurocognitive disorder related biomarkers in Alzheimer’s disease and development of machine learning-based diagnostic models}},
  journal = {Research Square},
  year    = {2026},
  doi     = {10.21203/rs.3.rs-8965858/v1},
  url     = {https://doi.org/10.21203/rs.3.rs-8965858/v1}
}

@article{palmer2026-2d6dd70a,
  author  = {Palmer, Z. and Koirala, S. and Talukdar, N. and Zhang, X. and Garver, H. and Mahlmeister, M. and Huang, L. and Joseph, D. and others},
  title   = {{In Vivo Transcriptomics-Based Framework for Systematic Indication Expansion}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.10.12.758524},
  url     = {https://doi.org/10.64898/2026.10.12.758524}
}

@article{jajin2026-f5a97635,
  author  = {Jajin, E. A. and Zempel, H.},
  title   = {{Integrative Multiomics Analysis Reveals a Coordinated Molecular Signature of Neuroresilience in human MAPT-knockout hiPSC-derived Neurons with relevance for Alzheimer’s and Neurodegenerative Disease}},
  journal = {Research Square},
  year    = {2026},
  doi     = {10.21203/rs.3.rs-11112521/v1},
  url     = {https://doi.org/10.21203/rs.3.rs-11112521/v1}
}

@article{hemmati2026-4e8ac976,
  author  = {Hemmati, S. and Wang, E. and Wang, M. and Xie, B. and Salton, S. and Haroutunian, V. and Bennett, D. and Xu, P. and others},
  title   = {{The effects of Arf4 gene knockdown on Alzheimer's amyloid β deposition: Possible role in cognitive resilience}},
  journal = {Research Square},
  year    = {2026},
  doi     = {10.21203/rs.3.rs-11040037/v1},
  url     = {https://doi.org/10.21203/rs.3.rs-11040037/v1}
}

@article{dominicus2026-a6b33c77,
  author  = {Dominicus, C. and Peretti, D. and Rodschinka, G. and Ogden, S. and Steer, J. and Salazar, M. L. and Miraki Feriz, A. and Feng, C. and others},
  title   = {{Transcriptomic and phenotypic characterization of Alzheimer’s disease risk genes in neurons and astrocytes highlights shared and cell type specific cellular mechanisms}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.10.13.758778},
  url     = {https://doi.org/10.64898/2026.10.13.758778}
}

@article{so2026-fa0c5786,
  author  = {So, I. and Bouzigues, A. and Ferry-Bolder, E. and Cullen, E. and Russell, L. L. and Foster, P. H. and Farley, S. and Convery, R. and others},
  title   = {{Normative transcriptomic clues to thalamic developmental vulnerability in C9orf7 2-FTLD}},
  journal = {medRxiv},
  year    = {2026},
  doi     = {10.64898/2026.10.09.26365172},
  url     = {https://doi.org/10.64898/2026.10.09.26365172}
}

@article{williams2026-682e61e2,
  author  = {Williams, G.},
  title   = {{Disease-Specific Perturbational Convergence Between Genetic-Risk and Disease-State Transcriptomic Signatures in Alzheimer's Disease}},
  journal = {Research Square},
  year    = {2026},
  doi     = {10.21203/rs.3.rs-11315638/v1},
  url     = {https://doi.org/10.21203/rs.3.rs-11315638/v1}
}

@article{hoang2026-cc41296c,
  author  = {Hoang, D. T. and Thompson, R. C. and Lund, A. N. and Kritzer, E. and Buxbaum-Grice, A. S. and John, D. and Nadkarni, G. N. and Golestani, N. and others},
  title   = {{Surrogate variables and the risk of overfitting in neuropsychiatric gene expression analyses}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.10.05.756826},
  url     = {https://doi.org/10.64898/2026.10.05.756826}
}

@article{roy2026-2cee5949,
  author  = {Roy, B. and Roy, P. K.},
  title   = {{Subtype-Selective Neuronal Vulnerability and Compensatory Neuroglial Remodeling in Human Cortical Dementia}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.10.03.756274},
  url     = {https://doi.org/10.64898/2026.10.03.756274}
}

@article{zhang2026-7247d7cc,
  author  = {Zhang, A. and Shen, W. and Yan, S. and Chen, J. and Liu, X. and Zou, J. and Li, S. and Hu, S. and others},
  title   = {{Cross-Tissue Inflammatory Convergence Supports a Putative Muscle–Brain Axis in Alzheimer’s Disease}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.10.07.751107},
  url     = {https://doi.org/10.64898/2026.10.07.751107}
}

@article{kowash2026-ca79f1b2,
  author  = {Kowash, Z. and Lim, J. and Annalora, A. J. and Wang, H. and Cui, J. Y.},
  title   = {{Triple-Omics Analysis Unveiled the Neuroprotective Mechanisms of Akkermansia muciniphila in an Environmental Exposure-Linked Mouse Model of Alzheimer’s Disease}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.09.30.755812},
  url     = {https://doi.org/10.64898/2026.09.30.755812}
}

@article{shin2026-5dc5d3f9,
  author  = {Shin, J. and Yoo, J. and Cho, Y. and Gupta, A. and Mao, P. H. and Thakkar, K. and Eddy, T. A. and Jung, K. J. and others},
  title   = {{Circular Data Analysis for Spatial Omics}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.09.29.755467},
  url     = {https://doi.org/10.64898/2026.09.29.755467}
}

@article{anand2026-d39ea5ab,
  author  = {Anand, A. and Natarajan, E.},
  title   = {{Cross-Dataset Reanalysis of Mouse Alzheimer Disease Single-Cell RNA-Sequencing Data Reveals a Reproducible Innate Immune Activation Signature}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.09.30.755581},
  url     = {https://doi.org/10.64898/2026.09.30.755581}
}

@article{saloner2026-b2999acb,
  author  = {Saloner, R. and Cornelis, L. and Downer, J. and Dietz, C. and Chan, B. and Hughes, M. and Olzinski, M. and Cobigo, Y. and others},
  title   = {{Large-scale cerebrospinal fluid proteomics identifies diagnostic biomarker candidates across the clinico-pathological continuum of frontotemporal lobar degeneration}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.09.29.755483},
  url     = {https://doi.org/10.64898/2026.09.29.755483}
}

@article{goyal2026-f0e1911c,
  author  = {Goyal, G. and Palanisamy, P. and Paul, A. and Paul, S.},
  title   = {{DNA polymerase kappa supports repair-associated DNA synthesis and neuronal genome resilience}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.10.01.756094},
  url     = {https://doi.org/10.64898/2026.10.01.756094}
}

@article{georgiades2026-22f78c0d,
  author  = {Georgiades, T. and Griffiths, J. and Gibbs, F. and Chandra, E. and Papageorgopoulou, M. and Liang, D. and Whitwell, H. J. and Matthews, P. M. and others},
  title   = {{Stage-specific proteomic signatures of synaptopathy in Alzheimer’s disease}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.10.02.755976},
  url     = {https://doi.org/10.64898/2026.10.02.755976}
}

@article{brown2026-33c99656,
  author  = {Brown, B. R. P. and Li, X. and Grasty, M. R. and Miranker, A. D. and Gürsoy, G.},
  title   = {{Integrating CSF and EV Proteomes Enhances Biomarker Discovery by Capturing Shared Variation Across Compartments}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.09.30.754912},
  url     = {https://doi.org/10.64898/2026.09.30.754912}
}

@article{tawfik2026-32c37f58,
  author  = {Tawfik, M.},
  title   = {{Glial Transcriptomic Convergence in Alzheimer’s and Parkinson’s Disease with Independent Retinal and Aqueous-Humor Evidence}},
  journal = {Preprints.org},
  year    = {2026},
  doi     = {10.20944/preprints202609.2706.v1},
  url     = {https://doi.org/10.20944/preprints202609.2706.v1}
}

@article{razavi2026-ae7b701b,
  author  = {Razavi, A. and Tucker, N. R. and Ghosh, A. J. and Faraone, S. V. and Glatt, S. J. and Hess, J. L.},
  title   = {{Predicting Rates of Cognitive Decline in Older Adults with Brain- and Cardiac-Imputed Transcripts}},
  journal = {medRxiv},
  year    = {2026},
  doi     = {10.64898/2026.09.29.26364189},
  url     = {https://doi.org/10.64898/2026.09.29.26364189}
}

@article{babtie2026-bc258973,
  author  = {Babtie, A. C. and Blake, G. E. T. and {Youth-GEMs Consortium} and Clifton, N. E. and Hawes, T. and Barroso, I. and Mill, J.},
  title   = {{A single-nuclei multiomics resource across four brain regions prioritises human neural cell types influencing brain-related traits}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.09.24.754059},
  url     = {https://doi.org/10.64898/2026.09.24.754059}
}

@article{abbas2026-0316398d,
  author  = {Abbas, M. and Villareal, J. A. B. and Zhang, Y. and Ebrahimi, E. and Deaton, L. and Holliday, L. S. and Chen, L. and Prokop, S. and others},
  title   = {{DNA Methylation Concordance Between Fresh-Frozen and Formalin-Fixed Paraffin-Embedded Human Brain Tissue in Neurodegenerative Diseases}},
  journal = {Preprints.org},
  year    = {2026},
  doi     = {10.20944/preprints202609.2166.v1},
  url     = {https://doi.org/10.20944/preprints202609.2166.v1}
}

@article{shi2026-27bcc85b,
  author  = {Shi, J.},
  title   = {{LSD-pipeline: Causal Inference of miRNA Network Effects in Alzheimer's Disease}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.09.17.747423},
  url     = {https://doi.org/10.64898/2026.09.17.747423}
}

@article{karaahmet2026-ff0d1134,
  author  = {Karaahmet, B. and Lama, T. and Wang, A. and Cao, W. and Menon, V. and Klein, H. and Bennett, D. A. and De Jager, P. L. and others},
  title   = {{High-Dimensional Multi-Omic Mapping of Post-Mortem Human Brain Using Iterative Indirect Immunofluorescence Imaging on Xenium-Processed Tissues}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.09.16.751033},
  url     = {https://doi.org/10.64898/2026.09.16.751033}
}

@article{ivleva2026-322c5c1f,
  author  = {Ivleva, E. and Kriukov, E. and Arboleda-Velasquez, J. F. and Baranov, P.},
  title   = {{A lifespan single-cell atlas of the human developing hippocampus benchmarks familial Alzheimer’s disease brain organoids}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.09.18.752796},
  url     = {https://doi.org/10.64898/2026.09.18.752796}
}

@article{zhu2026-4d9ec103,
  author  = {Zhu, C. and Zhao, Z. and Song, B. and Chen, Y. and Xiao, Y. and Zhang, Z. and Ye, Y. and Xu, N. and others},
  title   = {{Loss of TDP-43 function drives cryptic circular RNAs in neurodegenerative diseases}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.09.17.752169},
  url     = {https://doi.org/10.64898/2026.09.17.752169}
}

@article{dattilo2026-13f2bc93,
  author  = {Dattilo, D. and Pellegrini, F. and Barattucci, S. and Brown, A. and Vargas, J. N. S. and Gatt, A. and Morrie, R. and Miller, G. and others},
  title   = {{TDP-43 dysfunction induces cryptic circular RNAs in ALS/FTD}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.09.17.752342},
  url     = {https://doi.org/10.64898/2026.09.17.752342}
}

@article{reed2026-9f5b4c53,
  author  = {Reed, X. and Acri, D. J. and Beilina, A. and Ding, J. and Saez-Atienzar, S. and Kaileh, M. and Bromberek, S. and Hu, F. and others},
  title   = {{Integration of cell-specific gene expression and chromatin accessibility facilitates localization of neurodegenerative risk in microglia}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.09.15.751821},
  url     = {https://doi.org/10.64898/2026.09.15.751821}
}

@article{suissa2026-2f103e54,
  author  = {Suissa, M. V. and Koutures, A. and Harker, S. and Vaughan, B. and Kfir, J. and Bhat, A. and Shihabi, R. and Dewal, M. B. and others},
  title   = {{Autonomous AI-Driven Nanoscale Spatial Mapping Reveals Novel Targets and Ternary Architectures in 5xFAD Alzheimer's Disease Model}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.09.09.750448},
  url     = {https://doi.org/10.64898/2026.09.09.750448}
}

@article{gergian2026-bd7ce9bb,
  author  = {Gergian, C. and Urbanaviciute, P. and Wells, P. M. and Transfeld, J. L. and Askarova, A. and Yaa, R. M. and Wu, Y. and Ziegler, K. C. and others},
  title   = {{Cell type-specific histone acetylation landscape in Alzheimer’s disease reveals a putative role of MITF in microglia}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.09.09.750356},
  url     = {https://doi.org/10.64898/2026.09.09.750356}
}

@article{trujillo2026-8f94bb08,
  author  = {Trujillo, A. and Sohn, M. and Macias, M. and Grochowska, M. and Joyce, J. and Ber, I. L. and Huh, D. and Schulmann, A. and others},
  title   = {{Selective vulnerability and resilience of thalamic neuronal populations in Frontotemporal Dementia}},
  journal = {Research Square},
  year    = {2026},
  doi     = {10.21203/rs.3.rs-10670822/v1},
  url     = {https://doi.org/10.21203/rs.3.rs-10670822/v1}
}

@article{li2026-0086bc7b,
  author  = {Li, Q. and Li, H. and Huang, S. and Xu, J. and Zhou, L. and Ren, Z. and Wang, Z. and Yang, Z. and others},
  title   = {{Multi-Omics Analysis Reveals Molecular Responses of Alkaloid Content Variations in Lycoris radiata Across Different Locations}},
  journal = {Research Square},
  year    = {2026},
  doi     = {10.21203/rs.3.rs-10358926/v1},
  url     = {https://doi.org/10.21203/rs.3.rs-10358926/v1}
}

@article{kim2026-9f5c4bb5,
  author  = {Kim, Y. and Heo, W. and Park, S. J. and Cho, Y. E.},
  title   = {{A reproducibility-audit framework for generalizable versus dataset- specific molecular transition boundaries in Alzheimer’s disease}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.08.24.746808},
  url     = {https://doi.org/10.64898/2026.08.24.746808}
}

@article{duche2026-0146b3bc,
  author  = {Duche, A. and Chandnra, D. V. and Han, D. and Sumbria, R. K. and Rahman, M.},
  title   = {{Hepatic and Brain Spatial Gene Expression Changes in Intragastric Alcohol Fed APP/PS1 Alzheimer's Disease Mouse Model}},
  journal = {Research Square},
  year    = {2026},
  doi     = {10.21203/rs.3.rs-10760512/v1},
  url     = {https://doi.org/10.21203/rs.3.rs-10760512/v1}
}

@article{tejwani2026-42546695,
  author  = {Tejwani, Leon and Heffner, Catherine M and Balak, Christopher and Skuja, Lukas L and Tatarakis, David and Rana, Anil and Yu, Seungyoon B and Fitzgerald, Gabriel A and others},
  title   = {{Progranulin deficiency-induced lysosomal dysfunction drives maladaptive myeloid cell states through the MITF/TFE transcription factors}},
  journal = {Immunity},
  year    = {2026},
  doi     = {10.1016/j.immuni.2026.07.009},
  pmid    = {42546695},
  url     = {https://doi.org/10.1016/j.immuni.2026.07.009}
}

@article{abdelsalam2026-dfc076bf,
  author  = {Abdelsalam, N. A. and Elsadany, M. and Badr, E.},
  title   = {{Common Dysregulated Pathways and Genes in Alzheimer’s, Parkinson’s, and Huntington’s Diseases: A Computational Analysis to Nominate Candidate Gene Targets for Drug Repurposing}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.07.22.739294},
  url     = {https://doi.org/10.64898/2026.07.22.739294}
}

@article{lehrer2026-830ed5a8,
  author  = {Lehrer, S.},
  title   = {{Alzheimer's Disease as the Result of Aberrant Reactivation of Embryonic Brain Pathways Silenced Decades Earlier}},
  journal = {Research Square},
  year    = {2026},
  doi     = {10.21203/rs.3.rs-10436661/v1},
  url     = {https://doi.org/10.21203/rs.3.rs-10436661/v1}
}

@article{mei2026-b38d440a,
  author  = {Mei, X. and Cui, W. and Zhao, Z. and Wang, M. and Lin, Y. and Xu, J. and Qiu, C. and Wu, T.},
  title   = {{Integrated Proteomic and Phosphoproteomic Profiling Reveals Distinct Disease- and Age-Related Molecular Alterations in the Retina and Hippocampus of APP/PS1/MAPT Mice}},
  journal = {Research Square},
  year    = {2026},
  doi     = {10.21203/rs.3.rs-10181171/v1},
  url     = {https://doi.org/10.21203/rs.3.rs-10181171/v1}
}

@article{c2026-e330dfe2,
  author  = {Ç, Özkurt},
  title   = {{Single-cell gene networks nominate IKZF1 as an Alzheimer’s microglial regulator}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.07.14.738463},
  url     = {https://doi.org/10.64898/2026.07.14.738463}
}

@article{zheng2026-65c03da7,
  author  = {Zheng, C. and Zhai, T. and Zhang, F. and Shen, L.},
  title   = {{Integrative single-nucleus multi-omics profiling identifies candidate regulators and signaling axes in Alzheimer’s disease lipid-processing microglia}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.07.10.737805},
  url     = {https://doi.org/10.64898/2026.07.10.737805}
}

@article{jiang2026-5ac0488b,
  author  = {Jiang, T. and Xu, X. and Yu, Y. and Zhu, C. and Ma, C. and Tang, Y. and Min, L. and Tan, M. and others},
  title   = {{HnRNPAB -targeted antisense oligonucleotides ameliorate tau pathology and cognitive deficits by modulating Alzheimer’s disease-associated alternative splicing}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.07.02.736008},
  url     = {https://doi.org/10.64898/2026.07.02.736008}
}

@article{fuchs2026-87ec3a14,
  author  = {Fuchs, U. and Schröder, S. and Pena, T. and Krüger, D. M. and Burkhardt, S. and Schütz, A. and Hempel, N. and Gisa, V. and others},
  title   = {{Loss of the lncRNA SOX1-OT promotes p53-dependent cell-cycle arrest in astrocytes}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.07.03.736275},
  url     = {https://doi.org/10.64898/2026.07.03.736275}
}

@article{lu2026-42243549,
  author  = {Lu, Ashley and Chen, Wei-Ting and Dalby, Maria and Garcia, Diego Sainz and Vanheusden, Marisa and de Vries, Luuk E and van Lieshout, Veerle and Martirosyan, Araks and others},
  title   = {{Human microglial transitions at the Aβ-tau inflection point associate with divergent pathways to dementia and resilience}},
  journal = {Nature medicine},
  year    = {2026},
  doi     = {10.1038/s41591-026-04393-8},
  pmid    = {42243549},
  url     = {https://doi.org/10.1038/s41591-026-04393-8}
}

@article{sun2026-ff0edc6e,
  author  = {Sun, C. and Thomas, R. and Stringer, C. and Galani, K. and Ho, L. and Sun, N. and Renfro, A. and Wright, S. and others},
  title   = {{Epigenetically constrained astrocyte states underlie prefrontal cortex vulnerability in Down syndrome–associated Alzheimer’s disease}},
  journal = {bioRxiv},
  year    = {2026},
  doi     = {10.64898/2026.04.17.719050},
  url     = {https://doi.org/10.64898/2026.04.17.719050}
}

@article{liu2026-41865123,
  author  = {Liu, Ping and Sun, Tingfang and Yang, Jie and Li, Hongrui and Min, Wanwan and Zhou, Xingyu and Xiong, Ruihan and Wu, Jing and others},
  title   = {{Comprehensive single-cell transcriptomic atlas of microglia in Alzheimer's disease mouse models}},
  journal = {Molecular psychiatry},
  year    = {2026},
  doi     = {10.1038/s41380-026-03529-z},
  pmid    = {41865123},
  url     = {https://doi.org/10.1038/s41380-026-03529-z}
}

@article{leitner2026-e4a188be,
  author  = {Leitner, D. and Kanshin, E. and Balcomb, K. and Askenazi, M. and Suazo, J. and Marta-Ariza, M. and schneider, J. and Ueberheide, B. and others},
  title   = {{The Amyloid Plaque Proteomes of Alzheimer’s Disease and Mild Cognitive Impairment}},
  journal = {Research Square},
  year    = {2026},
  doi     = {10.21203/rs.3.rs-9012095/v1},
  url     = {https://doi.org/10.21203/rs.3.rs-9012095/v1}
}

@article{disouky2026-41741649,
  author  = {Disouky, Ahmed and Sanborn, Mark A and Sabitha, K R and Mostafa, Mostafa M and Ayala, Ivan Alejandro and Bennett, David A and Lu, Yisha and Zhou, Yi and others},
  title   = {{Human hippocampal neurogenesis in adulthood, ageing and Alzheimer's disease}},
  journal = {Nature},
  year    = {2026},
  doi     = {10.1038/s41586-026-10169-4},
  pmid    = {41741649},
  url     = {https://doi.org/10.1038/s41586-026-10169-4}
}

@article{hou2026-41650025,
  author  = {Hou, Xiao-He and Zhang, Wei and Kang, Kairan and Jin, Yifei and Ren, Peng and Wang, Linbo and Li, Zeyu and Li, Yuzhu and others},
  title   = {{Proteomics reveals three molecular subtypes of Alzheimer's disease with distinct progression patterns}},
  journal = {Alzheimer's \& dementia : the journal of the Alzheimer's Association},
  year    = {2026},
  doi     = {10.1002/alz.71106},
  pmid    = {41650025},
  url     = {https://doi.org/10.1002/alz.71106}
}

@article{garg2025-41456076,
  author  = {Garg, Anjali and Vo, Sheeny and De Souza, Iara D and Brant, Ayslan Castro and Brase, Logan and Aladyeva, Ekaterina and Albanus, Ricardo D 'o and Nallapu, Aasritha and others},
  title   = {{Exploring cellular heterogeneity: single-cell and spatial transcriptomics of Alzheimer's disease brains and iPSC-derived microglia}},
  journal = {Alzheimer's research \& therapy},
  year    = {2025},
  doi     = {10.1186/s13195-025-01944-y},
  pmid    = {41456076},
  url     = {https://doi.org/10.1186/s13195-025-01944-y}
}

@article{diniz2026-41342072,
  author  = {Diniz, Breno Satler and Zhao, Shangshu and Drouard, Gabin and Vuoksimaa, Eero and Ollikainen, Miina and Lenze, Eric J and Xu, Ming and Fortinsky, Richard H and others},
  title   = {{Biological Aging Acceleration in Major Depressive Disorder: A Multi-Omics Analysis}},
  journal = {Aging cell},
  year    = {2026},
  doi     = {10.1111/acel.70310},
  pmid    = {41342072},
  url     = {https://doi.org/10.1111/acel.70310}
}

@article{wu2025-41457042,
  author  = {Wu, Yiyang and Travaglini, Kyle J and Gabitto, Mariano and Keene, C Dirk and Dunn, Amy R and Kaczorowski, Catherine C and De Jager, Philip L and Menon, Vilas and others},
  title   = {{Single-cell landscape of sex-specific drivers of Alzheimer's disease}},
  journal = {Alzheimer's \& dementia : the journal of the Alzheimer's Association},
  year    = {2025},
  doi     = {10.1002/alz.71041},
  pmid    = {41457042},
  url     = {https://doi.org/10.1002/alz.71041}
}

@article{tsai2025-41307999,
  author  = {Tsai, Andy P and Henze, Douglas E and Lopez, Eduardo Ramirez and Haberberger, James and Dong, Chuanpeng and Lu, Nannan and Atkins, Micaiah and Costa, Emma K and others},
  title   = {{Spatial and single-cell transcriptomics reveal the reorganization of cerebellar microglia with aging}},
  journal = {Cell reports},
  year    = {2025},
  doi     = {10.1016/j.celrep.2025.116624},
  pmid    = {41307999},
  url     = {https://doi.org/10.1016/j.celrep.2025.116624}
}

@article{sun2025-41332529,
  author  = {Sun, Xuehan and Hudson, Hannah R and Orr, Timothy C and Koutarapu, Srinivas and Rosenbloom, Alyssa and Ingalls, Matthew and Braubach, Oliver and Keene, C Dirk and others},
  title   = {{Spatial Multi-Omics Workflow and Analytical Guidelines for Alzheimer's Neuropathology}},
  journal = {bioRxiv : the preprint server for biology},
  year    = {2025},
  doi     = {10.1101/2025.11.16.688710},
  pmid    = {41332529},
  url     = {https://doi.org/10.1101/2025.11.16.688710}
}

@article{shi2025-41223260,
  author  = {Shi, Zechuan and Das, Sudeshna and Morabito, Samuel and Stocksdale, Jennifer and Miyoshi, Emily and Srinivasan, Shushrruth Sai and Emerson, Nora and Shahin, Arshi and others},
  title   = {{Single-nucleus multi-omics identifies shared and distinct pathways in Pick's and Alzheimer's disease}},
  journal = {Science advances},
  year    = {2025},
  doi     = {10.1126/sciadv.ads7973},
  pmid    = {41223260},
  url     = {https://doi.org/10.1126/sciadv.ads7973}
}

@article{wang2025-40728933,
  author  = {Wang, Mengying and Sun, Liyang and Xu, Xin and Dai, Ruoqi and Tan, Qilong and Zhu, Yun and Xu, Andi and Zheng, Weifang and others},
  title   = {{Whole-genome Sequence Analysis Revealed Novel Subjective Cognitive Decline-associated Genes in 10,763 Chinese}},
  journal = {Genomics, proteomics \& bioinformatics},
  year    = {2025},
  doi     = {10.1093/gpbjnl/qzaf063},
  pmid    = {40728933},
  url     = {https://doi.org/10.1093/gpbjnl/qzaf063}
}

@article{li2025-41068782,
  author  = {Li, Zuguang and Zhang, Juan and Liu, Zhiqiang and Yu, Lu and Yang, Chunqing and Zhang, Luoman and Xiang, Zhigao and Hu, Feng and others},
  title   = {{Brain somatic mutations in Alzheimer's disease: linking genetic mosaicism to neurodegeneration}},
  journal = {Molecular neurodegeneration},
  year    = {2025},
  doi     = {10.1186/s13024-025-00895-0},
  pmid    = {41068782},
  url     = {https://doi.org/10.1186/s13024-025-00895-0}
}

@article{castanho2025-41035073,
  author  = {Castanho, Isabel and Yeganeh, Pourya Naderi and Boix, Carles A and Morgan, Sarah L and Mathys, Hansruedi and Prokopenko, Dmitry and White, Bartholomew and Soto, Larisa M and others},
  title   = {{Molecular hallmarks of excitatory and inhibitory neuronal resilience to Alzheimer's disease}},
  journal = {Molecular neurodegeneration},
  year    = {2025},
  doi     = {10.1186/s13024-025-00892-3},
  pmid    = {41035073},
  url     = {https://doi.org/10.1186/s13024-025-00892-3}
}

@article{wang2025-41256571,
  author  = {Wang, Wenliang and Berube, Peter and Yang, Bing and Castanon, Rosa and Bartlett, Anna and Komandur, Kaushik and Nery, Joseph R and Barragan, Cesar and others},
  title   = {{Brain Region-Specific Epigenomic Reorganization and Altered Cell States in Alzheimer's Disease}},
  journal = {bioRxiv : the preprint server for biology},
  year    = {2025},
  doi     = {10.1101/2025.09.29.678849},
  pmid    = {41256571},
  url     = {https://doi.org/10.1101/2025.09.29.678849}
}

@article{zhu2025-0e640888,
  author  = {Zhu, X. and Haure-Mirande, J. and Bicak, M. and Dong, P. and Kruglikov, I. and Al-subaie, A. and Fossati, V. and Noggle, S. and others},
  title   = {{miR155 triplicated in Down syndrome regulates hippocampal GABAergic neurogenesis in Alzheimer’s disease}},
  journal = {bioRxiv},
  year    = {2025},
  doi     = {10.1101/2025.09.28.679053},
  url     = {https://doi.org/10.1101/2025.09.28.679053}
}

@article{bilgic2025-41015942,
  author  = {Bilgic, Merve and Obata, Rinka and Panfil, Vlada-Iuliana and Zhu, Ziying and Saeki, Mai and Gotoh, Yukiko and Kishi, Yusuke},
  title   = {{Age-Associated Transcriptomic and Epigenetic Alterations in Mouse Hippocampus}},
  journal = {Aging cell},
  year    = {2025},
  doi     = {10.1111/acel.70233},
  pmid    = {41015942},
  url     = {https://doi.org/10.1111/acel.70233}
}

@article{he2025-40803604,
  author  = {He, Zihua and Liu, Shengyi and Shi, Wenyan and Yang, Yi and Wang, Jierui and Wang, Jiaqi and Yin, Jianqiong and Shen, Sisi and others},
  title   = {{Single-cell transcriptome analysis reveals dysregulation of microglial iron homeostasis in temporal lobe epilepsy}},
  journal = {Brain research},
  year    = {2025},
  doi     = {10.1016/j.brainres.2025.149885},
  pmid    = {40803604},
  url     = {https://doi.org/10.1016/j.brainres.2025.149885}
}

@article{liu2025-40752494,
  author  = {Liu, Zunpeng and Zhang, Shanshan and James, Benjamin T and Galani, Kyriaki and Mangan, Riley J and Fass, Stuart Benjamin and Liang, Chuqian and Wagle, Manoj M and others},
  title   = {{Single-cell multiregion epigenomic rewiring in Alzheimer's disease progression and cognitive resilience}},
  journal = {Cell},
  year    = {2025},
  doi     = {10.1016/j.cell.2025.06.031},
  pmid    = {40752494},
  url     = {https://doi.org/10.1016/j.cell.2025.06.031}
}

@article{reid2025-40730185,
  author  = {Reid, Madigan M and Menon, Shreya and Liu, Hao and Zhou, Haoyue and Hu, Zhirui and Frerich, Simon and Ding, Bella and Oveisgharan, Shahram and others},
  title   = {{Human brain vascular multi-omics elucidates disease-risk associations}},
  journal = {Neuron},
  year    = {2025},
  doi     = {10.1016/j.neuron.2025.07.001},
  pmid    = {40730185},
  url     = {https://doi.org/10.1016/j.neuron.2025.07.001}
}

@article{li2025-40695276,
  author  = {Li, Yaqiao and Serras, Carlota Pereda and Blumenfeld, Jessica and Xie, Min and Hao, Yanxia and Deng, Elise and Chun, You Young and Holtzman, Julia and others},
  title   = {{Cell-type-directed network-correcting combination therapy for Alzheimer's disease}},
  journal = {Cell},
  year    = {2025},
  doi     = {10.1016/j.cell.2025.06.035},
  pmid    = {40695276},
  url     = {https://doi.org/10.1016/j.cell.2025.06.035}
}

@article{johnson2025-40518825,
  author  = {Johnson, Ian P and Peterson, Tia M and Gudsnuk, Kathryn and Keene, C Dirk and Bird, Thomas D and Jayadev, Suman and Valdmanis, Paul N and Course, Meredith M},
  title   = {{Presence of Alzheimer's disease variants in circular RNA of PSEN1 and PSEN2}},
  journal = {Journal of Alzheimer's disease : JAD},
  year    = {2025},
  doi     = {10.1177/13872877251350112},
  pmid    = {40518825},
  url     = {https://doi.org/10.1177/13872877251350112}
}

@article{darocha2025-40506544,
  author  = {da Rocha, Joana F and Lance, Michelle L and Luo, Renhao and Schlachter, Pius and Moreira, Luis and Iqbal, Mohamed Ariff and Kuhn, Paula and Gardner, Robert S and others},
  title   = {{Protective exercise responses in the dentate gyrus of Alzheimer's disease mouse model revealed with single-nucleus RNA-sequencing}},
  journal = {Nature neuroscience},
  year    = {2025},
  doi     = {10.1038/s41593-025-01971-w},
  pmid    = {40506544},
  url     = {https://doi.org/10.1038/s41593-025-01971-w}
}

@article{park2025-40381615,
  author  = {Park, Ye-Jin and Lu, Tzu-Chiao and Jackson, Tyler and Goodman, Lindsey D and Ran, Lindsey and Chen, Jiaye and Liang, Chung-Yi and Harrison, Erin and others},
  title   = {{Distinct systemic impacts of Aβ42 and Tau revealed by whole-organism snRNA-seq}},
  journal = {Neuron},
  year    = {2025},
  doi     = {10.1016/j.neuron.2025.04.017},
  pmid    = {40381615},
  url     = {https://doi.org/10.1016/j.neuron.2025.04.017}
}

@article{wang2025-40168986,
  author  = {Wang, Pan and Han, Lei and Wang, Lifang and Tao, Quyuan and Guo, Zhen and Luo, Ting and He, Youzhe and Xu, Zhi and others},
  title   = {{Molecular pathways and diagnosis in spatially resolved Alzheimer's hippocampal atlas}},
  journal = {Neuron},
  year    = {2025},
  doi     = {10.1016/j.neuron.2025.03.002},
  pmid    = {40168986},
  url     = {https://doi.org/10.1016/j.neuron.2025.03.002}
}

@article{reineke2025-81e24ed0,
  author  = {Reineke, L. C. and Zhu, P. J. and Dalwadi, U. and Dooling, S. W. and Liu, Y. and Wang, I. and Young-Baird, S. and Okoh, J. and others},
  title   = {{Harnessing the Evolution of Proteostasis Networks to Reverse Cognitive Dysfunction}},
  journal = {bioRxiv},
  year    = {2025},
  doi     = {10.1101/2025.02.28.640897},
  url     = {https://doi.org/10.1101/2025.02.28.640897}
}

@article{dunn2025-39622643,
  author  = {Dunn, Jessica and Moore, Cedric and Kim, Nam-Shik and Gao, Tianshun and Cheng, Zhiqiang and Jin, Peng and Ming, Guo-Li and Qian, Jiang and others},
  title   = {{Transcription Factor-Wide Association Studies to Identify Functional SNPs in Alzheimer's Disease}},
  journal = {The Journal of neuroscience : the official journal of the Society for Neuroscience},
  year    = {2025},
  doi     = {10.1523/jneurosci.1800-24.2024},
  pmid    = {39622643},
  url     = {https://doi.org/10.1523/jneurosci.1800-24.2024}
}

@article{valdes2025-39754192,
  author  = {Valdes, Phoebe and Caldwell, Andrew B and Liu, Qing and Fitzgerald, Michael Q and Ramachandran, Srinivasan and Karch, Celeste M and Galasko, Douglas R and others},
  title   = {{Integrative multiomics reveals common endotypes across PSEN1, PSEN2, and APP mutations in familial Alzheimer's disease}},
  journal = {Alzheimer's research \& therapy},
  year    = {2025},
  doi     = {10.1186/s13195-024-01659-6},
  pmid    = {39754192},
  url     = {https://doi.org/10.1186/s13195-024-01659-6}
}

@article{weymouth2025-39455499,
  author  = {Weymouth, Luke and Smith, Adam R and Lunnon, Katie},
  title   = {{DNA Methylation in Alzheimer's Disease}},
  journal = {Current topics in behavioral neurosciences},
  year    = {2025},
  doi     = {10.1007/7854_2024_530},
  pmid    = {39455499},
  url     = {https://doi.org/10.1007/7854_2024_530}
}

@article{tong2024-39760516,
  author  = {Tong, Huige and Guo, Xiaolong and Jacques, Macsue and Luo, Qi and Eynon, Nir and Teschendorff, Andrew E},
  title   = {{Cell-type specific epigenetic clocks to quantify biological age at cell-type resolution}},
  journal = {Aging},
  year    = {2024},
  doi     = {10.18632/aging.206184},
  pmid    = {39760516},
  url     = {https://doi.org/10.18632/aging.206184}
}

@article{liu2024-39658200,
  author  = {Liu, Christine S and Park, Chris and Ngo, Tony and Saikumar, Janani and Palmer, Carter R and Shahnaee, Anis and Romanow, William J and Chun, Jerold},
  title   = {{RNA Isoform Diversity in Human Neurodegenerative Diseases}},
  journal = {eNeuro},
  year    = {2024},
  doi     = {10.1523/eneuro.0296-24.2024},
  pmid    = {39658200},
  url     = {https://doi.org/10.1523/eneuro.0296-24.2024}
}

@article{shwab2024-39764045,
  author  = {Shwab, E Keats and Man, Zhaohui and Gingerich, Daniel C and Gamache, Julia and Garrett, Melanie E and Serrano, Geidy E and Beach, Thomas G and Crawford, Gregory E and others},
  title   = {{Comparative mapping of single-cell transcriptomic landscapes in neurodegenerative diseases}},
  journal = {Alzheimer's \& dementia : the journal of the Alzheimer's Association},
  year    = {2024},
  doi     = {10.1101/2024.12.13.628436},
  pmid    = {39764045},
  url     = {https://doi.org/10.1101/2024.12.13.628436}
}

@article{miyoshi2024-39578645,
  author  = {Miyoshi, Emily and Morabito, Samuel and Henningfield, Caden M and Das, Sudeshna and Rahimzadeh, Negin and Shabestari, Sepideh Kiani and Michael, Neethu and Emerson, Nora and others},
  title   = {{Spatial and single-nucleus transcriptomic analysis of genetic and sporadic forms of Alzheimer's disease}},
  journal = {Nature genetics},
  year    = {2024},
  doi     = {10.1038/s41588-024-01961-x},
  pmid    = {39578645},
  url     = {https://doi.org/10.1038/s41588-024-01961-x}
}

@article{karaahmet2024-39605680,
  author  = {Karaahmet, Berke and Zhang, Ya and Duquesne, Laurine and Sigalov, Alina and Yung, Christina and Kroshilina, Alexandra and Bennett, David A and Taga, Mariko and others},
  title   = {{Spatial Transcriptomic Analysis Identifies a SERPINA3-Expressing Astrocytic State Associated with the Human Neuritic Plaque Microenvironment}},
  journal = {bioRxiv : the preprint server for biology},
  year    = {2024},
  doi     = {10.1101/2024.11.13.623438},
  pmid    = {39605680},
  url     = {https://doi.org/10.1101/2024.11.13.623438}
}

@article{seifar2024-39535480,
  author  = {Seifar, Fatemeh and Fox, Edward J and Shantaraman, Anantharaman and Liu, Yue and Dammer, Eric B and Modeste, Erica and Duong, Duc M and Yin, Luming and others},
  title   = {{Large-scale deep proteomic analysis in Alzheimer's disease brain regions across race and ethnicity}},
  journal = {Alzheimer's \& dementia : the journal of the Alzheimer's Association},
  year    = {2024},
  doi     = {10.1002/alz.14360},
  pmid    = {39535480},
  url     = {https://doi.org/10.1002/alz.14360}
}

@article{serranopozo2024-39528672,
  author  = {Serrano-Pozo, A. and Li, H. and Li, Z. and Muñoz-Castro, C. and Jaisa-Aad, M. and Healey, M. A. and Welikovitch, L. A. and Jayakumar, R. and others},
  title   = {{Astrocyte transcriptomic changes along the spatiotemporal progression of Alzheimer's disease}},
  journal = {Nature neuroscience},
  year    = {2024},
  doi     = {10.1038/s41593-024-01791-4},
  pmid    = {39528672},
  url     = {https://doi.org/10.1038/s41593-024-01791-4}
}

@article{he2024-39574856,
  author  = {He, Chenfeng and Li, Athan Z and Arachchilage, Kalpana Hanthanan and Gupta, Chirag and Huang, Xiang and Zhao, Xinyu and {PsychAD Consortium} and Girdhar, Kiran and others},
  title   = {{Phenotype Scoring of Population Scale Single-Cell Data Dissects Alzheimer's Disease Complexity}},
  journal = {medRxiv : the preprint server for health sciences},
  year    = {2024},
  doi     = {10.1101/2024.11.01.24316586},
  pmid    = {39574856},
  url     = {https://doi.org/10.1101/2024.11.01.24316586}
}

@article{zhu2024-39475571,
  author  = {Zhu, Biqing and Park, Jae-Min and Coffey, Sarah R and Russo, Anthony and Hsu, I-Uen and Wang, Jiawei and Su, Chang and Chang, Rui and others},
  title   = {{Single-cell transcriptomic and proteomic analysis of Parkinson's disease brains}},
  journal = {Science translational medicine},
  year    = {2024},
  doi     = {10.1126/scitranslmed.abo1997},
  pmid    = {39475571},
  url     = {https://doi.org/10.1126/scitranslmed.abo1997}
}

@article{lu2025-39153159,
  author  = {Lu, Mengru and Li, Jiaxin and Huang, Qi and Mao, Daniel and Yang, Grace and Lan, Yating and Zeng, Jingyi and Pan, Mika and others},
  title   = {{Single-Nucleus Landscape of Glial Cells and Neurons in Alzheimer's Disease}},
  journal = {Molecular neurobiology},
  year    = {2025},
  doi     = {10.1007/s12035-024-04428-6},
  pmid    = {39153159},
  url     = {https://doi.org/10.1007/s12035-024-04428-6}
}

@article{cheng2024-39184089,
  author  = {Cheng, Feixiong and Feng, Yayan and Flanagan, Margaret and Bonakdarpour, Borna and Jamshidi, Pouya and Castellani, Rudolph and Mao, Qinwen and Chu, Xiaona and others},
  title   = {{Single-nucleus multiome analysis of human cerebellum in Alzheimer's disease-related dementia}},
  journal = {Research square},
  year    = {2024},
  doi     = {10.21203/rs.3.rs-4871032/v1},
  pmid    = {39184089},
  url     = {https://doi.org/10.21203/rs.3.rs-4871032/v1}
}

@article{wang2024-38987616,
  author  = {Wang, Qi and Antone, Jerry and Alsop, Eric and Reiman, Rebecca and Funk, Cory and Bendl, Jaroslav and Dudley, Joel T and Liang, Winnie S and others},
  title   = {{Single cell transcriptomes and multiscale networks from persons with and without Alzheimer's disease}},
  journal = {Nature communications},
  year    = {2024},
  doi     = {10.1038/s41467-024-49790-0},
  pmid    = {38987616},
  url     = {https://doi.org/10.1038/s41467-024-49790-0}
}

@article{rivier2024-38978587,
  author  = {Rivier, Cyprien and Szejko, Natalia and Renedo, Daniela and Clocchiatti-Tuozzo, Santiago and Huo, Shufan and de Havenon, Adam and Zhao, Hongyu and Gill, Thomas and others},
  title   = {{Bidirectional relationship between epigenetic age and brain health events}},
  journal = {Nature communications},
  year    = {2024},
  doi     = {10.21203/rs.3.rs-4378855/v1},
  pmid    = {38978587},
  url     = {https://doi.org/10.21203/rs.3.rs-4378855/v1}
}

@article{barrett2024-38915346,
  author  = {Barrett, Emma and Ivey, Gabrielle and Cunningham, Adam and Coffman, Gary and Pemberton, Tyera and Lee, Chan and Patra, Prabir and Day, James B and others},
  title   = {{Reduced GLP-1R availability in the caudate nucleus with Alzheimer's disease}},
  journal = {Frontiers in aging neuroscience},
  year    = {2024},
  doi     = {10.3389/fnagi.2024.1350239},
  pmid    = {38915346},
  url     = {https://doi.org/10.3389/fnagi.2024.1350239}
}

@article{wang2024-38844475,
  author  = {Wang, Cankun and Acosta, Diana and McNutt, Megan and Bian, Jiang and Ma, Anjun and Fu, Hongjun and Ma, Qin},
  title   = {{A single-cell and spatial RNA-seq database for Alzheimer's disease (ssREAD)}},
  journal = {Nature communications},
  year    = {2024},
  doi     = {10.1038/s41467-024-49133-z},
  pmid    = {38844475},
  url     = {https://doi.org/10.1038/s41467-024-49133-z}
}

@article{lee2024-38741048,
  author  = {Lee, Che Yu and Riffle, Dylan and Xiong, Yifeng and Momtaz, Nadia and Lei, Yutong and Pariser, Joseph M and Sikdar, Diptanshu and Hwang, Ahyeon and others},
  title   = {{Characterizing dysregulations via cell-cell communications in Alzheimer's brains using single-cell transcriptomes}},
  journal = {BMC neuroscience},
  year    = {2024},
  doi     = {10.1186/s12868-024-00867-y},
  pmid    = {38741048},
  url     = {https://doi.org/10.1186/s12868-024-00867-y}
}

@article{martinezfeduchi2024-38726308,
  author  = {Martinez-Feduchi, Paula and Jin, Peng and Yao, Bing},
  title   = {{Epigenetic modifications of DNA and RNA in Alzheimer's disease}},
  journal = {Frontiers in molecular neuroscience},
  year    = {2024},
  doi     = {10.3389/fnmol.2024.1398026},
  pmid    = {38726308},
  url     = {https://doi.org/10.3389/fnmol.2024.1398026}
}

@article{fujita2024-38514782,
  author  = {Fujita, M. and Gao, Z. and Zeng, L. and McCabe, C. and White, C. C. and Ng, B. and Green, G. S. and Rozenblatt-Rosen, O. and others},
  title   = {{Cell subtype-specific effects of genetic variation in the Alzheimer's disease brain}},
  journal = {Nature genetics},
  year    = {2024},
  doi     = {10.1038/s41588-024-01685-y},
  pmid    = {38514782},
  url     = {https://doi.org/10.1038/s41588-024-01685-y}
}

@article{lopezlee2024-38402606,
  author  = {Lopez-Lee, C. and Torres, E. R. S. and Carling, G. and Gan, L.},
  title   = {{Mechanisms of sex differences in Alzheimer's disease}},
  journal = {Neuron},
  year    = {2024},
  doi     = {10.1016/j.neuron.2024.01.024},
  pmid    = {38402606},
  url     = {https://doi.org/10.1016/j.neuron.2024.01.024}
}

@article{deng2024-37930842,
  author  = {Deng, Yushan and Lu, Yubao and Li, Mengrou and Shen, Jiayi and Qin, Siying and Zhang, Wei and Zhang, Qiang and Shen, Zhaoyang and others},
  title   = {{SCAN: Spatiotemporal Cloud Atlas for Neural cells}},
  journal = {Nucleic acids research},
  year    = {2024},
  doi     = {10.1093/nar/gkad895},
  pmid    = {37930842},
  url     = {https://doi.org/10.1093/nar/gkad895}
}

@article{cai2024-38168620,
  author  = {Cai, Manqi and Zhou, Jingtian and McKennan, Chris and Wang, Jiebiao},
  title   = {{scMD facilitates cell type deconvolution using single-cell DNA methylation references}},
  journal = {Communications biology},
  year    = {2024},
  doi     = {10.1038/s42003-023-05690-5},
  pmid    = {38168620},
  url     = {https://doi.org/10.1038/s42003-023-05690-5}
}

@article{sadlon2024-38230736,
  author  = {Sadlon, A and Takousis, P and Evangelou, E and Prokopenko, I and Alexopoulos, P and Udeh-Momoh, C-M and Price, G and Middleton, L and others},
  title   = {{Association of Blood MicroRNA Expression and Polymorphisms with Cognitive and Biomarker Changes in Older Adults}},
  journal = {The journal of prevention of Alzheimer's disease},
  year    = {2024},
  doi     = {10.14283/jpad.2023.99},
  pmid    = {38230736},
  url     = {https://doi.org/10.14283/jpad.2023.99}
}

@article{han2024-38217599,
  author  = {Han, Yuru and Huang, Congying and Pan, Yuhui and Gu, Xuefeng},
  title   = {{Single Cell Sequencing Technology and Its Application in Alzheimer's Disease}},
  journal = {Journal of Alzheimer's disease : JAD},
  year    = {2024},
  doi     = {10.3233/jad-230861},
  pmid    = {38217599},
  url     = {https://doi.org/10.3233/jad-230861}
}

@article{yu2023-37925638,
  author  = {Yu, Min and Nie, Yage and Yang, Jiawen and Yang, Shilun and Li, Rui and Rao, Varsha and Hu, Xiaoyan and Fang, Cheng and others},
  title   = {{Integrative multi-omic profiling of adult mouse brain endothelial cells and potential implications in Alzheimer's disease}},
  journal = {Cell reports},
  year    = {2023},
  doi     = {10.1016/j.celrep.2023.113392},
  pmid    = {37925638},
  url     = {https://doi.org/10.1016/j.celrep.2023.113392}
}

@article{kwon2023-39329069,
  author  = {Kwon, Sang Ho and Parthiban, Sowmya and Tippani, Madhavi and Divecha, Heena R and Eagles, Nicholas J and Lobana, Jashandeep S and Williams, Stephen R and Mak, Michelle and others},
  title   = {{Influence of Alzheimer's disease related neuropathology on local microenvironment gene expression in the human inferior temporal cortex}},
  journal = {GEN biotechnology},
  year    = {2023},
  doi     = {10.1089/genbio.2023.0019},
  pmid    = {39329069},
  url     = {https://doi.org/10.1089/genbio.2023.0019}
}

@article{li2023-37824643,
  author  = {Li, Y. E. and Preissl, S. and Miller, M. and Johnson, N. D. and Wang, Z. and Jiao, H. and Zhu, C. and others},
  title   = {{A comparative atlas of single-cell chromatin accessibility in the human brain}},
  journal = {Science (New York, N.Y.)},
  year    = {2023},
  doi     = {10.1126/science.adf7044},
  pmid    = {37824643},
  url     = {https://doi.org/10.1126/science.adf7044}
}

@article{zhou2023-38177758,
  author  = {Zhou, X. and Dong, K. and Zhang, S.},
  title   = {{Integrating spatial transcriptomics data across different conditions, technologies and developmental stages}},
  journal = {Nature computational science},
  year    = {2023},
  doi     = {10.1038/s43588-023-00528-w},
  pmid    = {38177758},
  url     = {https://doi.org/10.1038/s43588-023-00528-w}
}

@article{fan2023-37735671,
  author  = {Fan, Li-Yuan and Yang, Jing and Liu, Ruo-Yu and Kong, Ying and Guo, Guang-Yu and Xu, Yu-Ming},
  title   = {{Integrating single-nucleus sequence profiling to reveal the transcriptional dynamics of Alzheimer's disease, Parkinson's disease, and multiple sclerosis}},
  journal = {Journal of translational medicine},
  year    = {2023},
  doi     = {10.1186/s12967-023-04516-6},
  pmid    = {37735671},
  url     = {https://doi.org/10.1186/s12967-023-04516-6}
}

@article{li2023-37714849,
  author  = {Li, Junhao and Jaiswal, Manoj K and Chien, Jo-Fan and Kozlenkov, Alexey and Jung, Jinyoung and Zhou, Ping and Gardashli, Mahammad and Pregent, Luc J and others},
  title   = {{Divergent single cell transcriptome and epigenome alterations in ALS and FTD patients with C9orf72 mutation}},
  journal = {Nature communications},
  year    = {2023},
  doi     = {10.1038/s41467-023-41033-y},
  pmid    = {37714849},
  url     = {https://doi.org/10.1038/s41467-023-41033-y}
}

@article{coleman2023-37684260,
  author  = {Coleman, Claire and Wang, Minghui and Wang, Erming and Micallef, Courtney and Shao, Zhiping and Vicari, James M and Li, Yuxin and Yu, Kaiwen and others},
  title   = {{Multi-omic atlas of the parahippocampal gyrus in Alzheimer's disease}},
  journal = {Scientific data},
  year    = {2023},
  doi     = {10.1038/s41597-023-02507-2},
  pmid    = {37684260},
  url     = {https://doi.org/10.1038/s41597-023-02507-2}
}

@article{gazestani2023-37774681,
  author  = {Gazestani, V. and Kamath, T. and Nadaf, N. M. and Dougalis, A. and Burris, S. J. and Rooney, B. and Junkkari, A. and Vanderburg, C. and others},
  title   = {{Early Alzheimer's disease pathology in human cortex involves transient cell states}},
  journal = {Cell},
  year    = {2023},
  doi     = {10.1016/j.cell.2023.08.005},
  pmid    = {37774681},
  url     = {https://doi.org/10.1016/j.cell.2023.08.005}
}

@article{xiong2023-37774680,
  author  = {Xiong, X. and James, B. T. and Boix, C. A. and Park, Y. P. and Galani, K. and Victor, M. B. and Sun, N. and Hou, L. and others},
  title   = {{Epigenomic dissection of Alzheimer's disease pinpoints causal variants and reveals epigenome erosion}},
  journal = {Cell},
  year    = {2023},
  doi     = {10.1016/j.cell.2023.08.040},
  pmid    = {37774680},
  url     = {https://doi.org/10.1016/j.cell.2023.08.040}
}

@article{walker2023-37467317,
  author  = {Walker, Keenan A and Chen, Jingsha and Shi, Liu and Yang, Yunju and Fornage, Myriam and Zhou, Linda and Schlosser, Pascal and Surapaneni, Aditya and others},
  title   = {{Proteomics analysis of plasma from middle-aged adults identifies protein markers of dementia risk in later life}},
  journal = {Science translational medicine},
  year    = {2023},
  doi     = {10.1126/scitranslmed.adf5681},
  pmid    = {37467317},
  url     = {https://doi.org/10.1126/scitranslmed.adf5681}
}

@article{sanna2023-37308288,
  author  = {Sanna, Pietro Paolo and Cabrelle, Chiara and Kawamura, Tomoya and Mercatelli, Daniele and O'Connor, Nathan and Roberts, Amanda J and Repunte-Canonigo, Vez and Giorgi, Federico M},
  title   = {{A History of Repeated Alcohol Intoxication Promotes Cognitive Impairment and Gene Expression Signatures of Disease Progression in the 3xTg Mouse Model of Alzheimer's Disease}},
  journal = {eNeuro},
  year    = {2023},
  doi     = {10.1523/eneuro.0456-22.2023},
  pmid    = {37308288},
  url     = {https://doi.org/10.1523/eneuro.0456-22.2023}
}

@article{alvarado2023-37577689,
  author  = {Alvarado, Chelsea X and Weller, Cory A and Johnson, Nicholas and Leonard, Hampton L and Singleton, Andrew B and Reed, Xylena and Blauewendraat, Cornelis and Nalls, Mike},
  title   = {{Human brain single nucleus cell type enrichments in neurodegenerative diseases}},
  journal = {medRxiv : the preprint server for health sciences},
  year    = {2023},
  doi     = {10.1101/2023.06.30.23292084},
  pmid    = {37577689},
  url     = {https://doi.org/10.1101/2023.06.30.23292084}
}

@article{morabito2023-37426759,
  author  = {Morabito, S. and Reese, F. and Rahimzadeh, N. and Miyoshi, E. and Swarup, V.},
  title   = {{hdWGCNA identifies co-expression networks in high-dimensional transcriptomics data}},
  journal = {Cell reports methods},
  year    = {2023},
  doi     = {10.1016/j.crmeth.2023.100498},
  pmid    = {37426759},
  url     = {https://doi.org/10.1016/j.crmeth.2023.100498}
}

@article{kuchroo2023-37147305,
  author  = {Kuchroo, Manik and DiStasio, Marcello and Song, Eric and Calapkulu, Eda and Zhang, Le and Ige, Maryam and Sheth, Amar H and Majdoubi, Abdelilah and others},
  title   = {{Single-cell analysis reveals inflammatory interactions driving macular degeneration}},
  journal = {Nature communications},
  year    = {2023},
  doi     = {10.1038/s41467-023-37025-7},
  pmid    = {37147305},
  url     = {https://doi.org/10.1038/s41467-023-37025-7}
}

@article{qian2023-37189441,
  author  = {Qian, Zhenwei and Qin, Jinglin and Lai, Yiwen and Zhang, Chen and Zhang, Xiannian},
  title   = {{Large-Scale Integration of Single-Cell RNA-Seq Data Reveals Astrocyte Diversity and Transcriptomic Modules across Six Central Nervous System Disorders}},
  journal = {Biomolecules},
  year    = {2023},
  doi     = {10.3390/biom13040692},
  pmid    = {37189441},
  url     = {https://doi.org/10.3390/biom13040692}
}

@article{yang2023-37082508,
  author  = {Yang, Mu and Matan-Lithwick, Stuart and Wang, Yanling and De Jager, Philip L and Bennett, David A and Felsky, Daniel},
  title   = {{Multi-omic integration via similarity network fusion to detect molecular subtypes of ageing}},
  journal = {Brain communications},
  year    = {2023},
  doi     = {10.1093/braincomms/fcad110},
  pmid    = {37082508},
  url     = {https://doi.org/10.1093/braincomms/fcad110}
}

@article{praschberger2023-36948206,
  author  = {Praschberger, Roman and Kuenen, Sabine and Schoovaerts, Nils and Kaempf, Natalie and Singh, Jeevanjot and Janssens, Jasper and Swerts, Jef and Nachman, Eliana and others},
  title   = {{Neuronal identity defines α-synuclein and tau toxicity}},
  journal = {Neuron},
  year    = {2023},
  doi     = {10.1016/j.neuron.2023.02.033},
  pmid    = {36948206},
  url     = {https://doi.org/10.1016/j.neuron.2023.02.033}
}

@article{deklein2023-36823318,
  author  = {de Klein, Niek and Tsai, Ellen A. and Vochteloo, Martijn and Baird, Denis A. and Huang, Yunfeng and Chen, Chia‐Yen and van Dam, Sipko and Oelen, Roy and others},
  title   = {{Brain expression quantitative trait locus and network analyses reveal downstream effects and putative drivers for brain-related diseases}},
  journal = {Nature Genetics},
  year    = {2023},
  doi     = {10.1038/s41588-023-01300-6},
  pmid    = {36823318},
  url     = {https://doi.org/10.1038/s41588-023-01300-6}
}

@article{fan2023-36910261,
  author  = {Fan, Li-Yuan and Yang, Jing and Li, Ming-Li and Liu, Ruo-Yu and Kong, Ying and Duan, Su-Ying and Guo, Guang-Yu and Yang, Jing-Hua and others},
  title   = {{Single-nucleus transcriptional profiling uncovers the reprogrammed metabolism of astrocytes in Alzheimer's disease}},
  journal = {Frontiers in molecular neuroscience},
  year    = {2023},
  doi     = {10.3389/fnmol.2023.1136398},
  pmid    = {36910261},
  url     = {https://doi.org/10.3389/fnmol.2023.1136398}
}

@article{course2023-35949106,
  author  = {Course, Meredith M and Gudsnuk, Kathryn and Keene, C Dirk and Bird, Thomas D and Jayadev, Suman and Valdmanis, Paul N},
  title   = {{Aberrant splicing of PSEN2, but not PSEN1, in individuals with sporadic Alzheimer's disease}},
  journal = {Brain : a journal of neurology},
  year    = {2023},
  doi     = {10.1093/brain/awac294},
  pmid    = {35949106},
  url     = {https://doi.org/10.1093/brain/awac294}
}

@article{zeng2023-36732642,
  author  = {Zeng, H. and Huang, J. and Zhou, H. and Meilandt, W. J. and Dejanovic, B. and Zhou, Y. and Bohlen, C. J. and Lee, S. H. and others},
  title   = {{Integrative in situ mapping of single-cell transcriptional states and tissue histopathology in a mouse model of Alzheimer's disease}},
  journal = {Nature neuroscience},
  year    = {2023},
  doi     = {10.1038/s41593-022-01251-x},
  pmid    = {36732642},
  url     = {https://doi.org/10.1038/s41593-022-01251-x}
}

@article{anderson2023-36950385,
  author  = {Anderson, Ashlyn G and Rogers, Brianne B and Loupe, Jacob M and Rodriguez-Nunez, Ivan and Roberts, Sydney C and White, Lauren M and Brazell, J Nicholas and Bunney, William E and others},
  title   = {{Single nucleus multiomics identifies ZEB1 and MAFB as candidate regulators of Alzheimer's disease-specific cis-regulatory elements}},
  journal = {Cell genomics},
  year    = {2023},
  doi     = {10.1016/j.xgen.2023.100263},
  pmid    = {36950385},
  url     = {https://doi.org/10.1016/j.xgen.2023.100263}
}

@article{niu2023-36646931,
  author  = {Niu, Muchun and Cao, Wenjian and Wang, Yongcheng and Zhu, Qiangyuan and Luo, Jiayi and Wang, Baiping and Zheng, Hui and Weitz, David A and others},
  title   = {{Droplet-based transcriptome profiling of individual synapses}},
  journal = {Nature biotechnology},
  year    = {2023},
  doi     = {10.1038/s41587-022-01635-1},
  pmid    = {36646931},
  url     = {https://doi.org/10.1038/s41587-022-01635-1}
}

@article{parolo2023-36604493,
  author  = {Parolo, Silvia and Mariotti, Federica and Bora, Pranami and Carboni, Lucia and Domenici, Enrico},
  title   = {{Single-cell-led drug repurposing for Alzheimer's disease}},
  journal = {Scientific reports},
  year    = {2023},
  doi     = {10.1038/s41598-023-27420-x},
  pmid    = {36604493},
  url     = {https://doi.org/10.1038/s41598-023-27420-x}
}

@article{bhatia2022-36563667,
  author  = {Bhatia, H. S. and Brunner, A. D. and Öztürk, F. and Kapoor, S. and Rong, Z. and Mai, H. and Thielert, M. and Ali, M. and others},
  title   = {{Spatial proteomics in three-dimensional intact specimens}},
  journal = {Cell},
  year    = {2022},
  doi     = {10.1016/j.cell.2022.11.021},
  pmid    = {36563667},
  url     = {https://doi.org/10.1016/j.cell.2022.11.021}
}

@article{felsky2023-36462719,
  author  = {Felsky, Daniel and Santa-Maria, Ismael and Cosacak, Mehmet Ilyas and French, Leon and Schneider, Julie A and Bennett, David A and De Jager, Philip L and Kizil, Caghan and others},
  title   = {{The Caribbean-Hispanic Alzheimer's disease brain transcriptome reveals ancestry-specific disease mechanisms}},
  journal = {Neurobiology of disease},
  year    = {2023},
  doi     = {10.1016/j.nbd.2022.105938},
  pmid    = {36462719},
  url     = {https://doi.org/10.1016/j.nbd.2022.105938}
}

@article{xu2022-36450252,
  author  = {Xu, Jielin and Mao, Chengsheng and Hou, Yuan and Luo, Yuan and Binder, Jessica L and Zhou, Yadi and Bekris, Lynn M and Shin, Jiyoung and others},
  title   = {{Interpretable deep learning translation of GWAS and multi-omics findings to identify pathobiology and drug repurposing in Alzheimer's disease}},
  journal = {Cell reports},
  year    = {2022},
  doi     = {10.1016/j.celrep.2022.111717},
  pmid    = {36450252},
  url     = {https://doi.org/10.1016/j.celrep.2022.111717}
}

@article{lang2022-36447297,
  author  = {Lang, Anna-Lena and Eulalio, Tiffany and Fox, Eddie and Yakabi, Koya and Bukhari, Syed A and Kawas, Claudia H and Corrada, Maria M and Montgomery, Stephen B and others},
  title   = {{Methylation differences in Alzheimer's disease neuropathologic change in the aged human brain}},
  journal = {Acta neuropathologica communications},
  year    = {2022},
  doi     = {10.1186/s40478-022-01470-0},
  pmid    = {36447297},
  url     = {https://doi.org/10.1186/s40478-022-01470-0}
}

@article{upadhya2022-36421693,
  author  = {Upadhya, Suraj and Gingerich, Daniel and Lutz, Michael William and Chiba-Falek, Ornit},
  title   = {{Differential Gene Expression and DNA Methylation in the Risk of Depression in LOAD Patients}},
  journal = {Biomolecules},
  year    = {2022},
  doi     = {10.3390/biom12111679},
  pmid    = {36421693},
  url     = {https://doi.org/10.3390/biom12111679}
}

@article{su2022-36332572,
  author  = {Su, Yijing and Zhou, Yi and Bennett, Mariko L and Li, Shiying and Carceles-Cordon, Marc and Lu, Lu and Huh, Sooyoung and Jimenez-Cyrus, Dennisse and others},
  title   = {{A single-cell transcriptome atlas of glial diversity in the human hippocampus across the postnatal lifespan}},
  journal = {Cell stem cell},
  year    = {2022},
  doi     = {10.1016/j.stem.2022.09.010},
  pmid    = {36332572},
  url     = {https://doi.org/10.1016/j.stem.2022.09.010}
}

@article{biglari2022-36251230,
  author  = {Biglari, Negin and Khalaj-Kondori, Mohammad and Ghasemi, Tayyebeh},
  title   = {{Potential of hsa-miR200a-3p and hsa-miR502-3p as blood-based biomarker for Alzheimer's disease}},
  journal = {Molecular biology reports},
  year    = {2022},
  doi     = {10.1007/s11033-022-07987-w},
  pmid    = {36251230},
  url     = {https://doi.org/10.1007/s11033-022-07987-w}
}

@article{baloni2022-36209301,
  author  = {Baloni, Priyanka and Arnold, Matthias and Buitrago, Luna and Nho, Kwangsik and Moreno, Herman and Huynh, Kevin and Brauner, Barbara and Louie, Gregory and others},
  title   = {{Multi-Omic analyses characterize the ceramide/sphingomyelin pathway as a therapeutic target in Alzheimer's disease}},
  journal = {Communications biology},
  year    = {2022},
  doi     = {10.1038/s42003-022-04011-6},
  pmid    = {36209301},
  url     = {https://doi.org/10.1038/s42003-022-04011-6}
}

@article{perez2022-35299244,
  author  = {Pérez, Raúl Fernández and Alba-Linares, Juan José and Tejedor, Juan Ramón and Fernández, Agustín Fernández and Calero, Miguel and Román-Domínguez, Aurora and Borrás, Consuelo and Viña, José and others},
  title   = {{Blood DNA Methylation Patterns in Older Adults With Evolving Dementia}},
  journal = {The journals of gerontology. Series A, Biological sciences and medical sciences},
  year    = {2022},
  doi     = {10.1093/gerona/glac068},
  pmid    = {35299244},
  url     = {https://doi.org/10.1093/gerona/glac068}
}

@article{pandey2022-36001972,
  author  = {Pandey, S. and Shen, K. and Lee, S. H. and Shen, Y. A. and Wang, Y. and Otero-García, M. and Kotova, N. and Vito, S. T. and others},
  title   = {{Disease-associated oligodendrocyte responses across neurodegenerative diseases}},
  journal = {Cell reports},
  year    = {2022},
  doi     = {10.1016/j.celrep.2022.111189},
  pmid    = {36001972},
  url     = {https://doi.org/10.1016/j.celrep.2022.111189}
}

@article{zhou2022-35794479,
  author  = {Zhou, Y. and Su, Y. and Li, S. and Kennedy, B. C. and Zhang, D. Y. and Bond, A. M. and Sun, Y. and Jacob, F. and others},
  title   = {{Molecular landscapes of human hippocampal immature neurons across lifespan}},
  journal = {Nature},
  year    = {2022},
  doi     = {10.1038/s41586-022-04912-w},
  pmid    = {35794479},
  url     = {https://doi.org/10.1038/s41586-022-04912-w}
}

@article{kenigsbuch2022-35760863,
  author  = {Kenigsbuch, M. and Bost, P. and Halevi, S. and Chang, Y. and Chen, S. and Ma, Q. and Hajbi, R. and Schwikowski, B. and others},
  title   = {{A shared disease-associated oligodendrocyte signature among multiple CNS pathologies}},
  journal = {Nature neuroscience},
  year    = {2022},
  doi     = {10.1038/s41593-022-01104-7},
  pmid    = {35760863},
  url     = {https://doi.org/10.1038/s41593-022-01104-7}
}

@article{consens2022-35754708,
  author  = {Consens, Micaela E and Chen, Yuxiao and Menon, Vilas and Wang, Yanling and Schneider, Julie A and De Jager, Philip L and Bennett, David A and Tripathy, Shreejoy J and others},
  title   = {{Bulk and Single-Nucleus Transcriptomics Highlight Intra-Telencephalic and Somatostatin Neurons in Alzheimer's Disease}},
  journal = {Frontiers in molecular neuroscience},
  year    = {2022},
  doi     = {10.3389/fnmol.2022.903175},
  pmid    = {35754708},
  url     = {https://doi.org/10.3389/fnmol.2022.903175}
}

@article{guevara2022-35603816,
  author  = {Guevara, Elaine E and Hopkins, William D and Hof, Patrick R and Ely, John J and Bradley, Brenda J and Sherwood, Chet C},
  title   = {{Epigenetic ageing of the prefrontal cortex and cerebellum in humans and chimpanzees}},
  journal = {Epigenetics},
  year    = {2022},
  doi     = {10.1080/15592294.2022.2080993},
  pmid    = {35603816},
  url     = {https://doi.org/10.1080/15592294.2022.2080993}
}

@article{brown2022-35654979,
  author  = {Brown, K. M. and Nair, J. K. and Janas, M. M. and Anglero-Rodriguez, Y. I. and Dang, L. T. H. and Peng, H. and Theile, C. S. and Castellanos-Rizaldos, E. and others},
  title   = {{Expanding RNAi therapeutics to extrahepatic tissues with lipophilic conjugates}},
  journal = {Nature biotechnology},
  year    = {2022},
  doi     = {10.1038/s41587-022-01334-x},
  pmid    = {35654979},
  url     = {https://doi.org/10.1038/s41587-022-01334-x}
}

@article{trpchevska2022-35580588,
  author  = {Trpchevska, N. and Freidin, M. B. and Broer, L. and Oosterloo, B. C. and Yao, S. and Zhou, Y. and Vona, B. and Bishop, C. and others},
  title   = {{Genome-wide association meta-analysis identifies 48 risk variants and highlights the role of the stria vascularis in hearing loss}},
  journal = {American journal of human genetics},
  year    = {2022},
  doi     = {10.1016/j.ajhg.2022.04.010},
  pmid    = {35580588},
  url     = {https://doi.org/10.1016/j.ajhg.2022.04.010}
}

@article{miller2022-35444284,
  author  = {Miller, M. B. and Huang, A. Y. and Kim, J. and Zhou, Z. and Kirkham, S. L. and Maury, E. A. and Ziegenfuss, J. S. and Reed, H. C. and others},
  title   = {{Somatic genomic changes in single Alzheimer's disease neurons}},
  journal = {Nature},
  year    = {2022},
  doi     = {10.1038/s41586-022-04640-1},
  pmid    = {35444284},
  url     = {https://doi.org/10.1038/s41586-022-04640-1}
}

@article{sadick2022-35381189,
  author  = {Sadick, J. S. and O'Dea, M. R. and Hasel, P. and Dykstra, T. and Faustin, A. and Liddelow, S. A.},
  title   = {{Astrocytes and oligodendrocytes undergo subtype-specific transcriptional changes in Alzheimer's disease}},
  journal = {Neuron},
  year    = {2022},
  doi     = {10.1016/j.neuron.2022.03.008},
  pmid    = {35381189},
  url     = {https://doi.org/10.1016/j.neuron.2022.03.008}
}

@article{wang2022-35236372,
  author  = {Wang, Minghui and Song, Won-Min and Ming, Chen and Wang, Qian and Zhou, Xianxiao and Xu, Peng and Krek, Azra and Yoon, Yonejung and others},
  title   = {{Guidelines for bioinformatics of single-cell sequencing data analysis in Alzheimer's disease: review, recommendation, implementation and application}},
  journal = {Molecular neurodegeneration},
  year    = {2022},
  doi     = {10.1186/s13024-022-00517-z},
  pmid    = {35236372},
  url     = {https://doi.org/10.1186/s13024-022-00517-z}
}

@article{liu2022-35177290,
  author  = {Liu, S. and Fan, M. and Zheng, Q. and Hao, S. and Yang, L. and Xia, Q. and Qi, C. and Ge, J.},
  title   = {{MicroRNAs in Alzheimer's disease: Potential diagnostic markers and therapeutic targets}},
  journal = {Biomedicine \& pharmacotherapy = Biomedecine \& pharmacotherapie},
  year    = {2022},
  doi     = {10.1016/j.biopha.2022.112681},
  pmid    = {35177290},
  url     = {https://doi.org/10.1016/j.biopha.2022.112681}
}

@article{johnson2022-35115731,
  author  = {Johnson, E. C. B. and Carter, E. K. and Dammer, E. B. and Duong, D. M. and Gerasimov, E. S. and Liu, Y. and Liu, J. and Betarbet, R. and others},
  title   = {{Large-scale deep multi-layer analysis of Alzheimer's disease brain reveals strong proteomic disease-related changes not observed at the RNA level}},
  journal = {Nature neuroscience},
  year    = {2022},
  doi     = {10.1038/s41593-021-00999-y},
  pmid    = {35115731},
  url     = {https://doi.org/10.1038/s41593-021-00999-y}
}

@article{weller2022-36213995,
  author  = {Weller, Andrew E and Ferraro, Thomas N and Doyle, Glenn A and Reiner, Benjamin C and Crist, Richard C and Berrettini, Wade H},
  title   = {{Single Nucleus Transcriptome Data from Alzheimer's Disease Mouse Models Yield New Insight into Pathophysiology}},
  journal = {Journal of Alzheimer's disease : JAD},
  year    = {2022},
  doi     = {10.3233/jad-220391},
  pmid    = {36213995},
  url     = {https://doi.org/10.3233/jad-220391}
}

@article{franjic2022-34798047,
  author  = {Franjic, D. and Skarica, M. and Ma, S. and Arellano, J. I. and Tebbenkamp, A. T. N. and Choi, J. and Xu, C. and Li, Q. and others},
  title   = {{Transcriptomic taxonomy and neurogenic trajectories of adult human, macaque, and pig hippocampal and entorhinal cells}},
  journal = {Neuron},
  year    = {2022},
  doi     = {10.1016/j.neuron.2021.10.036},
  pmid    = {34798047},
  url     = {https://doi.org/10.1016/j.neuron.2021.10.036}
}

@article{sun2022-34764492,
  author  = {Sun, D. and Guan, X. and Moran, A. E. and Wu, L. Y. and Qian, D. Z. and Schedin, P. and Dai, M. S. and Danilov, A. V. and others},
  title   = {{Identifying phenotype-associated subpopulations by integrating bulk and single-cell sequencing data}},
  journal = {Nature biotechnology},
  year    = {2022},
  doi     = {10.1038/s41587-021-01091-3},
  pmid    = {34764492},
  url     = {https://doi.org/10.1038/s41587-021-01091-3}
}

@article{ahmadi2021-34748859,
  author  = {Ahmadi, Amirhossein and Gispert, Juan D and Navarro, Arcadi and Vilor-Tejedor, Natalia and Sadeghi, Iman},
  title   = {{Single-cell Transcriptional Changes in Neurodegenerative Diseases}},
  journal = {Neuroscience},
  year    = {2021},
  doi     = {10.1016/j.neuroscience.2021.10.025},
  pmid    = {34748859},
  url     = {https://doi.org/10.1016/j.neuroscience.2021.10.025}
}

@article{berg2021-34616067,
  author  = {Berg, J. and Sorensen, S. A. and Ting, J. T. and Miller, J. A. and Chartrand, T. and Buchin, A. and Bakken, T. E. and Budzillo, A. and others},
  title   = {{Human neocortical expansion involves glutamatergic neuron diversification}},
  journal = {Nature},
  year    = {2021},
  doi     = {10.1038/s41586-021-03813-8},
  pmid    = {34616067},
  url     = {https://doi.org/10.1038/s41586-021-03813-8}
}

@article{bai2021-34384464,
  author  = {Bai, B. and Vanderwall, D. and Li, Y. and Wang, X. and Poudel, S. and Wang, H. and Dey, K. K. and Chen, P. C. and others},
  title   = {{Proteomic landscape of Alzheimer's Disease: novel insights into pathogenesis and biomarker discovery}},
  journal = {Molecular neurodegeneration},
  year    = {2021},
  doi     = {10.1186/s13024-021-00474-z},
  pmid    = {34384464},
  url     = {https://doi.org/10.1186/s13024-021-00474-z}
}

@article{chen2021-34292312,
  author  = {Chen, Y. and Colonna, M.},
  title   = {{Microglia in Alzheimer's disease at single-cell level. Are there common patterns in humans and mice?}},
  journal = {The Journal of experimental medicine},
  year    = {2021},
  doi     = {10.1084/jem.20202717},
  pmid    = {34292312},
  url     = {https://doi.org/10.1084/jem.20202717}
}

@article{yang2021-34239129,
  author  = {Yang, C. and Farias, F. H. G. and Ibanez, L. and Suhy, A. and Sadler, B. and Fernandez, M. V. and Wang, F. and Bradley, J. L. and others},
  title   = {{Genomic atlas of the proteome from brain, CSF and plasma prioritizes proteins implicated in neurological disorders}},
  journal = {Nature neuroscience},
  year    = {2021},
  doi     = {10.1038/s41593-021-00886-6},
  pmid    = {34239129},
  url     = {https://doi.org/10.1038/s41593-021-00886-6}
}

@article{morabito2021-34239132,
  author  = {Morabito, S. and Miyoshi, E. and Michael, N. and Shahin, S. and Martini, A. C. and Head, E. and Silva, J. and Leavy, K. and others},
  title   = {{Single-nucleus chromatin accessibility and transcriptomic characterization of Alzheimer's disease}},
  journal = {Nature genetics},
  year    = {2021},
  doi     = {10.1038/s41588-021-00894-z},
  pmid    = {34239132},
  url     = {https://doi.org/10.1038/s41588-021-00894-z}
}

@article{young2021-34083789,
  author  = {Young, A. M. H. and Kumasaka, N. and Calvert, F. and Hammond, T. R. and Knights, A. and Panousis, N. and Park, J. S. and Schwartzentruber, J. and others},
  title   = {{A map of transcriptional heterogeneity and regulatory variation in human microglia}},
  journal = {Nature genetics},
  year    = {2021},
  doi     = {10.1038/s41588-021-00875-2},
  pmid    = {34083789},
  url     = {https://doi.org/10.1038/s41588-021-00875-2}
}

@article{mertens2021-33910058,
  author  = {Mertens, J. and Herdy, JR. and Traxler, L. and Schafer, S. T. and Schlachetzki, J. C. M. and Böhnke, L. and Reid, D. A. and Lee, H. and others},
  title   = {{Age-dependent instability of mature neuronal fate in induced neurons from Alzheimer's patients}},
  journal = {Cell stem cell},
  year    = {2021},
  doi     = {10.1016/j.stem.2021.04.004},
  pmid    = {33910058},
  url     = {https://doi.org/10.1016/j.stem.2021.04.004}
}

@article{wang2021-33767197,
  author  = {Wang, J. and Ma, A. and Chang, Y. and Gong, J. and Jiang, Y. and Qi, R. and Wang, C. and Fu, H. and others},
  title   = {{scGNN is a novel graph neural network framework for single-cell RNA-Seq analyses}},
  journal = {Nature communications},
  year    = {2021},
  doi     = {10.1038/s41467-021-22197-x},
  pmid    = {33767197},
  url     = {https://doi.org/10.1038/s41467-021-22197-x}
}

@article{novikova2021-33712570,
  author  = {Novikova, G. and Kapoor, M. and Tcw, J. and Abud, E. M. and Efthymiou, A. G. and Chen, S. X. and Cheng, H. and Fullard, J. F. and others},
  title   = {{Integration of Alzheimer's disease genetics and myeloid genomics identifies disease risk regulatory elements and genes}},
  journal = {Nature communications},
  year    = {2021},
  doi     = {10.1038/s41467-021-21823-y},
  pmid    = {33712570},
  url     = {https://doi.org/10.1038/s41467-021-21823-y}
}

@article{gao2021-33610756,
  author  = {Gao, Huanyao and Tripathi, Utkarsh and Trushin, Sergey and Okromelidze, Lela and Pichurin, Nicholas P and Wei, Lixuan and Zhuang, Yongxian and Wang, Liewei and others},
  title   = {{A genome-wide association study in human lymphoblastoid cells supports safety of mitochondrial complex I inhibitor}},
  journal = {Mitochondrion},
  year    = {2021},
  doi     = {10.1016/j.mito.2021.02.005},
  pmid    = {33610756},
  url     = {https://doi.org/10.1016/j.mito.2021.02.005}
}

@article{byrns2021-33476559,
  author  = {Byrns, China N and Bonini, Nancy M},
  title   = {{An Integrated Multi-omics Approach Identifies Therapeutic Potential for ATP6V1A in Late Onset Alzheimer's Disease}},
  journal = {Neuron},
  year    = {2021},
  doi     = {10.1016/j.neuron.2020.12.015},
  pmid    = {33476559},
  url     = {https://doi.org/10.1016/j.neuron.2020.12.015}
}

@article{leng2021-33432193,
  author  = {Leng, K. and Li, E. and Eser, R. and Piergies, A. and Sit, R. and Tan, M. and Neff, N. and Li, S. H. and others},
  title   = {{Molecular characterization of selectively vulnerable neurons in Alzheimer's disease}},
  journal = {Nature neuroscience},
  year    = {2021},
  doi     = {10.1038/s41593-020-00764-7},
  pmid    = {33432193},
  url     = {https://doi.org/10.1038/s41593-020-00764-7}
}

@article{cheng2021-33450722,
  author  = {Cheng, Zhi and Shang, Yingchun and Xu, Xinxin and Dong, Zhiqiang and Zhang, Yongwang and Du, Zhanqiang and Lu, Xinyi and Zhang, Tao},
  title   = {{Presenilin 1 mutation likely contributes to U1 small nuclear RNA dysregulation and Alzheimer's disease-like symptoms}},
  journal = {Neurobiology of aging},
  year    = {2021},
  doi     = {10.1016/j.neurobiolaging.2020.12.015},
  pmid    = {33450722},
  url     = {https://doi.org/10.1016/j.neurobiolaging.2020.12.015}
}

@article{fransquet2021-34429046,
  author  = {Fransquet, P D and Lacaze, P and Saffery, R and Shah, R C and Vryer, R and Murray, A and Woods, R L and Ryan, J},
  title   = {{Accelerated Epigenetic Aging in Peripheral Blood does not Predict Dementia Risk}},
  journal = {Current Alzheimer research},
  year    = {2021},
  doi     = {10.2174/1567205018666210823100721},
  pmid    = {34429046},
  url     = {https://doi.org/10.2174/1567205018666210823100721}
}

@article{nik2021-33720885,
  author  = {Nik, Seyyed Hani Moussavi and Porter, Tenielle and Newman, Morgan and Bartlett, Benjamin and Khan, Imran and Sabale, Miheer and Eccles, Melissa and Woodfield, Amy and others},
  title   = {{Relevance of a Truncated PRESENILIN 2 Transcript to Alzheimer's Disease and Neurodegeneration}},
  journal = {Journal of Alzheimer's disease : JAD},
  year    = {2021},
  doi     = {10.3233/jad-201133},
  pmid    = {33720885},
  url     = {https://doi.org/10.3233/jad-201133}
}

@article{olah2020-33257666,
  author  = {Olah, M. and Menon, V. and Habib, N. and Taga, M. F. and Ma, Y. and Yung, C. J. and Cimpean, M. and Khairallah, A. and others},
  title   = {{Single cell RNA sequencing of human microglia uncovers a subset associated with Alzheimer's disease}},
  journal = {Nature communications},
  year    = {2020},
  doi     = {10.1038/s41467-020-19737-2},
  pmid    = {33257666},
  url     = {https://doi.org/10.1038/s41467-020-19737-2}
}

@article{jiang2020-33241205,
  author  = {Jiang, Jing and Wang, Cankun and Qi, Ren and Fu, Hongjun and Ma, Qin},
  title   = {{scREAD: A Single-Cell RNA-Seq Database for Alzheimer's Disease}},
  journal = {iScience},
  year    = {2020},
  doi     = {10.1016/j.isci.2020.101769},
  pmid    = {33241205},
  url     = {https://doi.org/10.1016/j.isci.2020.101769}
}

@article{corces2020-33106633,
  author  = {Corces, M. R. and Shcherbina, A. and Kundu, S. and Gloudemans, M. J. and Frésard, L. and Granja, J. M. and Louie, B. H. and Eulalio, T. and others},
  title   = {{Single-cell epigenomic analyses implicate candidate causal variants at inherited risk loci for Alzheimer's and Parkinson's diseases}},
  journal = {Nature genetics},
  year    = {2020},
  doi     = {10.1038/s41588-020-00721-x},
  pmid    = {33106633},
  url     = {https://doi.org/10.1038/s41588-020-00721-x}
}

@article{higginbotham2020-33087358,
  author  = {Higginbotham, L. and Ping, L. and Dammer, E. B. and Duong, D. M. and Zhou, M. and Gearing, M. and Hurst, C. and Glass, J. D. and others},
  title   = {{Integrated proteomics reveals brain-based cerebrospinal fluid biomarkers in asymptomatic and symptomatic Alzheimer's disease}},
  journal = {Science advances},
  year    = {2020},
  doi     = {10.1126/sciadv.aaz9360},
  pmid    = {33087358},
  url     = {https://doi.org/10.1126/sciadv.aaz9360}
}

@article{morabito2020-32803238,
  author  = {Morabito, Samuel and Miyoshi, Emily and Michael, Neethu and Swarup, Vivek},
  title   = {{Integrative genomics approach identifies conserved transcriptomic networks in Alzheimer's disease}},
  journal = {Human molecular genetics},
  year    = {2020},
  doi     = {10.1093/hmg/ddaa182},
  pmid    = {32803238},
  url     = {https://doi.org/10.1093/hmg/ddaa182}
}

@article{nativio2020-32989324,
  author  = {Nativio, R. and Lan, Y. and Donahue, G. and Sidoli, S. and Berson, A. and Srinivasan, A. R. and Shcherbakova, O. and Amlie-Wolf, A. and others},
  title   = {{An integrated multi-omics approach identifies epigenetic alterations associated with Alzheimer's disease}},
  journal = {Nature genetics},
  year    = {2020},
  doi     = {10.1038/s41588-020-0696-0},
  pmid    = {32989324},
  url     = {https://doi.org/10.1038/s41588-020-0696-0}
}

@article{lau2020-32989152,
  author  = {Lau, S. F. and Cao, H. and Fu, A. K. Y. and Ip, N. Y.},
  title   = {{Single-nucleus transcriptome analysis reveals dysregulation of angiogenic endothelial cells and neuroprotective glia in Alzheimer's disease}},
  journal = {Proceedings of the National Academy of Sciences of the United States of America},
  year    = {2020},
  doi     = {10.1073/pnas.2008762117},
  pmid    = {32989152},
  url     = {https://doi.org/10.1073/pnas.2008762117}
}

@article{rayaprolu2021-32898852,
  author  = {Rayaprolu, S. and Higginbotham, L. and Bagchi, P. and Watson, C. M. and Zhang, T. and Levey, A. I. and Rangaraju, S. and Seyfried, N. T.},
  title   = {{Systems-based proteomics to resolve the biology of Alzheimer's disease beyond amyloid and tau}},
  journal = {Neuropsychopharmacology : official publication of the American College of Neuropsychopharmacology},
  year    = {2021},
  doi     = {10.1038/s41386-020-00840-3},
  pmid    = {32898852},
  url     = {https://doi.org/10.1038/s41386-020-00840-3}
}

@article{ma2020-32654306,
  author  = {Ma, Yiyi and Klein, Hans-Ulrich and De Jager, Philip L},
  title   = {{Considerations for integrative multi-omic approaches to explore Alzheimer's disease mechanisms}},
  journal = {Brain pathology (Zurich, Switzerland)},
  year    = {2020},
  doi     = {10.1111/bpa.12878},
  pmid    = {32654306},
  url     = {https://doi.org/10.1111/bpa.12878}
}

@article{thrupp2020-32997994,
  author  = {Thrupp, N. and Sala Frigerio, C. and Wolfs, L. and Skene, N. G. and Fattorelli, N. and Poovathingal, S. and Fourne, Y. and Matthews, P. M. and others},
  title   = {{Single-Nucleus RNA-Seq Is Not Suitable for Detection of Microglial Activation Genes in Humans}},
  journal = {Cell reports},
  year    = {2020},
  doi     = {10.1016/j.celrep.2020.108189},
  pmid    = {32997994},
  url     = {https://doi.org/10.1016/j.celrep.2020.108189}
}

@article{agarwal2020-32826893,
  author  = {Agarwal, D. and Sandor, C. and Volpato, V. and Caffrey, T. M. and Monzón-Sandoval, J. and Bowden, R. and Alegre-Abarrategui, J. and Wade-Martins, R. and others},
  title   = {{A single-cell atlas of the human substantia nigra reveals cell-specific pathways associated with neurological disorders}},
  journal = {Nature communications},
  year    = {2020},
  doi     = {10.1038/s41467-020-17876-0},
  pmid    = {32826893},
  url     = {https://doi.org/10.1038/s41467-020-17876-0}
}

@article{gullett2020-32846274,
  author  = {Gullett, Joseph M and Chen, Zhaoyi and O'Shea, Andrew and Akbar, Maisha and Bian, Jiang and Rani, Asha and Porges, Eric C and Foster, Thomas C and others},
  title   = {{MicroRNA predicts cognitive performance in healthy older adults}},
  journal = {Neurobiology of aging},
  year    = {2020},
  doi     = {10.1016/j.neurobiolaging.2020.07.023},
  pmid    = {32846274},
  url     = {https://doi.org/10.1016/j.neurobiolaging.2020.07.023}
}

@article{wang2020-32711556,
  author  = {Wang, H. and Dey, K. K. and Chen, P. C. and Li, Y. and Niu, M. and Cho, J. H. and Wang, X. and Bai, B. and others},
  title   = {{Integrated analysis of ultra-deep proteomes in cortex, cerebrospinal fluid and serum reveals a mitochondrial signature in Alzheimer's disease}},
  journal = {Molecular neurodegeneration},
  year    = {2020},
  doi     = {10.1186/s13024-020-00384-6},
  pmid    = {32711556},
  url     = {https://doi.org/10.1186/s13024-020-00384-6}
}

@article{chen2020-32702314,
  author  = {Chen, W. T. and Lu, A. and Craessaerts, K. and Pavie, B. and Sala Frigerio, C. and Corthout, N. and Qian, X. and Laláková, J. and others},
  title   = {{Spatial Transcriptomics and In Situ Sequencing to Study Alzheimer's Disease}},
  journal = {Cell},
  year    = {2020},
  doi     = {10.1016/j.cell.2020.06.038},
  pmid    = {32702314},
  url     = {https://doi.org/10.1016/j.cell.2020.06.038}
}

@article{lin2021-32632206,
  author  = {Lin, Chien-Wei and Chang, Lun-Ching and Ma, Tianzhou and Oh, Hyunjung and French, Beverly and Puralewski, Rachel and Mathews, Fasil and Fang, Yusi and others},
  title   = {{Older molecular brain age in severe mental illness}},
  journal = {Molecular psychiatry},
  year    = {2021},
  doi     = {10.1038/s41380-020-0834-1},
  pmid    = {32632206},
  url     = {https://doi.org/10.1038/s41380-020-0834-1}
}

@article{cheng2020-32922692,
  author  = {Cheng, L. and Vella, L. J. and Barnham, K. J. and McLean, C. and Masters, C. L. and Hill, A. F.},
  title   = {{Small RNA fingerprinting of Alzheimer's disease frontal cortex extracellular vesicles and their comparison with peripheral extracellular vesicles}},
  journal = {Journal of extracellular vesicles},
  year    = {2020},
  doi     = {10.1080/20013078.2020.1766822},
  pmid    = {32922692},
  url     = {https://doi.org/10.1080/20013078.2020.1766822}
}

@article{srinivasan2020-32610143,
  author  = {Srinivasan, K. and Friedman, B. A. and Etxeberria, A. and Huntley, M. A. and van der Brug, M. P. and Foreman, O. and Paw, J. S. and Modrusan, Z. and others},
  title   = {{Alzheimer's Patient Microglia Exhibit Enhanced Aging and Unique Transcriptional Activation}},
  journal = {Cell reports},
  year    = {2020},
  doi     = {10.1016/j.celrep.2020.107843},
  pmid    = {32610143},
  url     = {https://doi.org/10.1016/j.celrep.2020.107843}
}

@article{badhwar2020-31891371,
  author  = {Badhwar, A. and McFall, G. P. and Sapkota, S. and Black, S. E. and Chertkow, H. and Duchesne, S. and Masellis, M. and Li, L. and others},
  title   = {{A multiomics approach to heterogeneity in Alzheimer's disease: focused review and roadmap}},
  journal = {Brain : a journal of neurology},
  year    = {2020},
  doi     = {10.1093/brain/awz384},
  pmid    = {31891371},
  url     = {https://doi.org/10.1093/brain/awz384}
}

@article{habib2020-32341542,
  author  = {Habib, N. and McCabe, C. and Medina, S. and Varshavsky, M. and Kitsberg, D. and Dvir-Szternfeld, R. and Green, G. and Dionne, D. and others},
  title   = {{Disease-associated astrocytes in Alzheimer's disease and aging}},
  journal = {Nature neuroscience},
  year    = {2020},
  doi     = {10.1038/s41593-020-0624-8},
  pmid    = {32341542},
  url     = {https://doi.org/10.1038/s41593-020-0624-8}
}

@article{johnson2020-32284590,
  author  = {Johnson, E. C. B. and Dammer, E. B. and Duong, D. M. and Ping, L. and Zhou, M. and Yin, L. and Higginbotham, L. A. and Guajardo, A. and others},
  title   = {{Large-scale proteomic analysis of Alzheimer's disease brain and cerebrospinal fluid reveals early changes in energy metabolism associated with microglia and astrocyte activation}},
  journal = {Nature medicine},
  year    = {2020},
  doi     = {10.1038/s41591-020-0815-6},
  pmid    = {32284590},
  url     = {https://doi.org/10.1038/s41591-020-0815-6}
}

@article{salameh2020-32211026,
  author  = {Salameh, Y. and Bejaoui, Y. and El Hajj, N.},
  title   = {{DNA Methylation Biomarkers in Aging and Age-Related Diseases}},
  journal = {Frontiers in genetics},
  year    = {2020},
  doi     = {10.3389/fgene.2020.00171},
  pmid    = {32211026},
  url     = {https://doi.org/10.3389/fgene.2020.00171}
}

@article{lee2019-32063857,
  author  = {Lee, Soo Youn and Song, Min-Young and Kim, Dain and Park, Chaewon and Park, Da Kyeong and Kim, Dong Geun and Yoo, Jong Shin and Kim, Young Hye},
  title   = {{A Proteotranscriptomic-Based Computational Drug-Repositioning Method for Alzheimer's Disease}},
  journal = {Frontiers in pharmacology},
  year    = {2019},
  doi     = {10.3389/fphar.2019.01653},
  pmid    = {32063857},
  url     = {https://doi.org/10.3389/fphar.2019.01653}
}

@article{zhong2020-31928331,
  author  = {Zhong, Shan and Wang, Mengdi and Zhan, Yaxi and Zhang, Jie and Yang, Xiaoli and Fu, Shumei and Bi, Danlei and Gao, Feng and others},
  title   = {{Single-nucleus RNA sequencing reveals transcriptional changes of hippocampal neurons in APP23 mouse model of Alzheimer's disease}},
  journal = {Bioscience, biotechnology, and biochemistry},
  year    = {2020},
  doi     = {10.1080/09168451.2020.1714420},
  pmid    = {31928331},
  url     = {https://doi.org/10.1080/09168451.2020.1714420}
}

@article{gate2020-31915375,
  author  = {Gate, D. and Saligrama, N. and Leventhal, O. and Yang, A. C. and Unger, M. S. and Middeldorp, J. and Chen, K. and Lehallier, B. and others},
  title   = {{Clonally expanded CD8 T cells patrol the cerebrospinal fluid in Alzheimer's disease}},
  journal = {Nature},
  year    = {2020},
  doi     = {10.1038/s41586-019-1895-7},
  pmid    = {31915375},
  url     = {https://doi.org/10.1038/s41586-019-1895-7}
}

@article{bai2020-31926610,
  author  = {Bai, B. and Wang, X. and Li, Y. and Chen, P. C. and Yu, K. and Dey, K. K. and Yarbro, J. M. and Han, X. and others},
  title   = {{Deep Multilayer Brain Proteomics Identifies Molecular Networks in Alzheimer's Disease Progression}},
  journal = {Neuron},
  year    = {2020},
  doi     = {10.1016/j.neuron.2019.12.015},
  pmid    = {31926610},
  url     = {https://doi.org/10.1016/j.neuron.2019.12.015}
}

@article{grubman2019-31768052,
  author  = {Grubman, A. and Chew, G. and Ouyang, J. F. and Sun, G. and Choo, X. Y. and McLean, C. and Simmons, R. K. and Buckberry, S. and others},
  title   = {{A single-cell atlas of entorhinal cortex from individuals with Alzheimer's disease reveals cell-type-specific gene expression regulation}},
  journal = {Nature neuroscience},
  year    = {2019},
  doi     = {10.1038/s41593-019-0539-4},
  pmid    = {31768052},
  url     = {https://doi.org/10.1038/s41593-019-0539-4}
}

@article{nott2019-31727856,
  author  = {Nott, A. and Holtman, I. R. and Coufal, N. G. and Schlachetzki, J. C. M. and Yu, M. and Hu, R. and Han, C. Z. and Pena, M. and others},
  title   = {{Brain cell type-specific enhancer-promoter interactome maps and disease - risk association}},
  journal = {Science (New York, N.Y.)},
  year    = {2019},
  doi     = {10.1126/science.aay0793},
  pmid    = {31727856},
  url     = {https://doi.org/10.1126/science.aay0793}
}

@article{jain2019-31591382,
  author  = {Jain, G. and Stuendl, A. and Rao, P. and Berulava, T. and Pena Centeno, T. and Kaurani, L. and Burkhardt, S. and Delalle, I. and others},
  title   = {{A combined miRNA-piRNA signature to detect Alzheimer's disease}},
  journal = {Translational psychiatry},
  year    = {2019},
  doi     = {10.1038/s41398-019-0579-2},
  pmid    = {31591382},
  url     = {https://doi.org/10.1038/s41398-019-0579-2}
}

@article{fotuhi2019-31264051,
  author  = {Fotuhi, S. N. and Khalaj-Kondori, M. and Hoseinpour Feizi, M. A. and Talebi, M.},
  title   = {{Long Non-coding RNA BACE1-AS May Serve as an Alzheimer's Disease Blood-Based Biomarker}},
  journal = {Journal of molecular neuroscience : MN},
  year    = {2019},
  doi     = {10.1007/s12031-019-01364-2},
  pmid    = {31264051},
  url     = {https://doi.org/10.1007/s12031-019-01364-2}
}

@article{iacono2019-31159854,
  author  = {Iacono, Giovanni Lo and Massoni-Badosa, Ramon and Heyn, Holger},
  title   = {{Single-cell transcriptomics unveils gene regulatory network plasticity}},
  journal = {Genome biology},
  year    = {2019},
  doi     = {10.1186/s13059-019-1713-4},
  pmid    = {31159854},
  url     = {https://doi.org/10.1186/s13059-019-1713-4}
}

@article{li2019-31113950,
  author  = {Li, Peipei and Marshall, Lee L. and Oh, Gabriel and Jakubowski, Jennifer L. and Groot, Daniel E. and He, Yu and Wang, Ting and Petronis, Artūras and others},
  title   = {{Epigenetic dysregulation of enhancers in neurons is associated with Alzheimer’s disease pathology and cognitive symptoms}},
  journal = {Nature Communications},
  year    = {2019},
  doi     = {10.1038/s41467-019-10101-7},
  pmid    = {31113950},
  url     = {https://doi.org/10.1038/s41467-019-10101-7}
}

@article{xiao2019-30833961,
  author  = {Xiao, Fu-Hui and Wang, Hao-Tian and Kong, Qing-Peng},
  title   = {{Dynamic DNA Methylation During Aging: A "Prophet" of Age-Related Outcomes}},
  journal = {Frontiers in genetics},
  year    = {2019},
  doi     = {10.3389/fgene.2019.00107},
  pmid    = {30833961},
  url     = {https://doi.org/10.3389/fgene.2019.00107}
}

@article{chua2019-30488149,
  author  = {Chua, C. E. L. and Tang, B. L.},
  title   = {{miR-34a in Neurophysiology and Neuropathology}},
  journal = {Journal of molecular neuroscience : MN},
  year    = {2019},
  doi     = {10.1007/s12031-018-1231-y},
  pmid    = {30488149},
  url     = {https://doi.org/10.1007/s12031-018-1231-y}
}

@article{johnson2018-30286791,
  author  = {Johnson, E. C. B. and Dammer, E. B. and Duong, D. M. and Yin, L. and Thambisetty, M. and Troncoso, J. C. and Lah, J. J. and Levey, A. I. and others},
  title   = {{Deep proteomic network analysis of Alzheimer's disease brain reveals alterations in RNA binding proteins and RNA splicing associated with disease}},
  journal = {Molecular neurodegeneration},
  year    = {2018},
  doi     = {10.1186/s13024-018-0282-4},
  pmid    = {30286791},
  url     = {https://doi.org/10.1186/s13024-018-0282-4}
}

@article{wang2018-30204156,
  author  = {Wang, M. and Beckmann, N. D. and Roussos, P. and Wang, E. and Zhou, X. and Wang, Q. and Ming, C. and Neff, R. and others},
  title   = {{The Mount Sinai cohort of large-scale genomic, transcriptomic and proteomic data in Alzheimer's disease}},
  journal = {Scientific data},
  year    = {2018},
  doi     = {10.1038/sdata.2018.185},
  pmid    = {30204156},
  url     = {https://doi.org/10.1038/sdata.2018.185}
}

@article{dejager2018-30084846,
  author  = {De Jager, P. L. and Ma, Y. and McCabe, C. and Xu, J. and Vardarajan, B. N. and Felsky, D. and Klein, H. U. and White, C. C. and others},
  title   = {{A multi-omic atlas of the human frontal cortex for aging and Alzheimer's disease research}},
  journal = {Scientific data},
  year    = {2018},
  doi     = {10.1038/sdata.2018.142},
  pmid    = {30084846},
  url     = {https://doi.org/10.1038/sdata.2018.142}
}

@article{kang2018-30082275,
  author  = {Kang, S. S. and Ebbert, M. T. W. and Baker, K. E. and Cook, C. and Wang, X. and Sens, J. P. and Kocher, J. P. and Petrucelli, L. and others},
  title   = {{Microglial translational profiling reveals a convergent APOE pathway from aging, amyloid, and tau}},
  journal = {The Journal of experimental medicine},
  year    = {2018},
  doi     = {10.1084/jem.20180653},
  pmid    = {30082275},
  url     = {https://doi.org/10.1084/jem.20180653}
}

@article{readhead2018-29937276,
  author  = {Readhead, B. and Haure-Mirande, J. V. and Funk, C. C. and Richards, M. A. and Shannon, P. and Haroutunian, V. and Sano, M. and Liang, W. S. and others},
  title   = {{Multiscale Analysis of Independent Alzheimer's Cohorts Finds Disruption of Molecular, Genetic, and Clinical Networks by Human Herpesvirus}},
  journal = {Neuron},
  year    = {2018},
  doi     = {10.1016/j.neuron.2018.05.023},
  pmid    = {29937276},
  url     = {https://doi.org/10.1016/j.neuron.2018.05.023}
}

@article{berson2018-29885742,
  author  = {Berson, A. and Nativio, R. and Berger, S. L. and Bonini, N. M.},
  title   = {{Epigenetic Regulation in Neurodegenerative Diseases}},
  journal = {Trends in neurosciences},
  year    = {2018},
  doi     = {10.1016/j.tins.2018.05.005},
  pmid    = {29885742},
  url     = {https://doi.org/10.1016/j.tins.2018.05.005}
}

@article{levine2018-29676998,
  author  = {Levine, M. E. and Lu, A. T. and Quach, A. and Chen, B. H. and Assimes, T. L. and Bandinelli, S. and Hou, L. and Baccarelli, A. A. and others},
  title   = {{An epigenetic biomarker of aging for lifespan and healthspan}},
  journal = {Aging},
  year    = {2018},
  doi     = {10.18632/aging.101414},
  pmid    = {29676998},
  url     = {https://doi.org/10.18632/aging.101414}
}

@article{ping2018-29533394,
  author  = {Ping, L. and Duong, D. M. and Yin, L. and Gearing, M. and Lah, J. J. and Levey, A. I. and Seyfried, N. T.},
  title   = {{Global quantitative analysis of the human brain proteome in Alzheimer's and Parkinson's Disease}},
  journal = {Scientific data},
  year    = {2018},
  doi     = {10.1038/sdata.2018.36},
  pmid    = {29533394},
  url     = {https://doi.org/10.1038/sdata.2018.36}
}

@article{nativio2018-29507413,
  author  = {Nativio, R. and Donahue, G. and Berson, A. and Lan, Y. and Amlie-Wolf, A. and Tuzer, F. and Toledo, J. B. and Gosai, S. J. and others},
  title   = {{Dysregulation of the epigenetic landscape of normal aging in Alzheimer's disease}},
  journal = {Nature neuroscience},
  year    = {2018},
  doi     = {10.1038/s41593-018-0101-9},
  pmid    = {29507413},
  url     = {https://doi.org/10.1038/s41593-018-0101-9}
}

@article{wilkins2017-29375465,
  author  = {Wilkins, J. M. and Trushina, E.},
  title   = {{Application of Metabolomics in Alzheimer's Disease}},
  journal = {Frontiers in neurology},
  year    = {2017},
  doi     = {10.3389/fneur.2017.00719},
  pmid    = {29375465},
  url     = {https://doi.org/10.3389/fneur.2017.00719}
}

@article{zhou2018-29331684,
  author  = {Zhou, Lujia and Verstreken, Patrik},
  title   = {{Reprogramming neurodegeneration in the big data era}},
  journal = {Current opinion in neurobiology},
  year    = {2018},
  doi     = {10.1016/j.conb.2017.12.015},
  pmid    = {29331684},
  url     = {https://doi.org/10.1016/j.conb.2017.12.015}
}

@article{akhter2018-30259371,
  author  = {Akhter, R.},
  title   = {{Circular RNA and Alzheimer's Disease}},
  journal = {Advances in experimental medicine and biology},
  year    = {2018},
  doi     = {10.1007/978-981-13-1426-1_19},
  pmid    = {30259371},
  url     = {https://doi.org/10.1007/978-981-13-1426-1_19}
}

@article{friedman2018-29346778,
  author  = {Friedman, B. A. and Srinivasan, K. and Ayalon, G. and Meilandt, W. J. and Lin, H. and Huntley, M. A. and Cao, Y. and Lee, S. H. and others},
  title   = {{Diverse Brain Myeloid Expression Profiles Reveal Distinct Microglial Activation States and Aspects of Alzheimer's Disease Not Evident in Mouse Models}},
  journal = {Cell reports},
  year    = {2018},
  doi     = {10.1016/j.celrep.2017.12.066},
  pmid    = {29346778},
  url     = {https://doi.org/10.1016/j.celrep.2017.12.066}
}

@article{mathys2017-29020624,
  author  = {Mathys, H. and Adaikkan, C. and Gao, F. and Young, J. Z. and Manet, E. and Hemberg, M. and De Jager, P. L. and Ransohoff, R. M. and others},
  title   = {{Temporal Tracking of Microglia Activation in Neurodegeneration at Single-Cell Resolution}},
  journal = {Cell reports},
  year    = {2017},
  doi     = {10.1016/j.celrep.2017.09.039},
  pmid    = {29020624},
  url     = {https://doi.org/10.1016/j.celrep.2017.09.039}
}

@article{xu2018-28923553,
  author  = {Xu, M. and Zhang, D. F. and Luo, R. and Wu, Y. and Zhou, H. and Kong, L. L. and Bi, R. and Yao, Y. G.},
  title   = {{A systematic integrated analysis of brain expression profiles reveals YAP1 and other prioritized hub genes as important upstream regulators in Alzheimer's disease}},
  journal = {Alzheimer's \& dementia : the journal of the Alzheimer's Association},
  year    = {2018},
  doi     = {10.1016/j.jalz.2017.08.012},
  pmid    = {28923553},
  url     = {https://doi.org/10.1016/j.jalz.2017.08.012}
}

@article{ham2018-28879407,
  author  = {Ham, Suji and Kim, Tae Kyoo and Lee, Sangjoon and Tang, Ya-Ping and Im, Heh-In},
  title   = {{MicroRNA Profiling in Aging Brain of PSEN1/PSEN2 Double Knockout Mice}},
  journal = {Molecular neurobiology},
  year    = {2018},
  doi     = {10.1007/s12035-017-0753-6},
  pmid    = {28879407},
  url     = {https://doi.org/10.1007/s12035-017-0753-6}
}

@article{li2018-28456942,
  author  = {Li, Ke and Wei, Qing and Liu, Fang-Fang and Hu, Fan and Xie, Ao-Ji and Zhu, Ling-Qiang and Liu, Dan},
  title   = {{Synaptic Dysfunction in Alzheimer's Disease: Aβ, Tau, and Epigenetic Alterations}},
  journal = {Molecular neurobiology},
  year    = {2018},
  doi     = {10.1007/s12035-017-0533-3},
  pmid    = {28456942},
  url     = {https://doi.org/10.1007/s12035-017-0533-3}
}

@article{seyfried2017-27989508,
  author  = {Seyfried, N. T. and Dammer, E. B. and Swarup, V. and Nandakumar, D. and Duong, D. M. and Yin, L. and Deng, Q. and Nguyen, T. and others},
  title   = {{A Multi-network Approach Identifies Protein-Specific Co-expression in Asymptomatic and Symptomatic Alzheimer's Disease}},
  journal = {Cell systems},
  year    = {2017},
  doi     = {10.1016/j.cels.2016.11.006},
  pmid    = {27989508},
  url     = {https://doi.org/10.1016/j.cels.2016.11.006}
}

@article{kayano2016-27999671,
  author  = {Kayano, M. and Higaki, S. and Satoh, J. I. and Matsumoto, K. and Matsubara, E. and Takikawa, O. and Niida, S.},
  title   = {{Plasma microRNA biomarker detection for mild cognitive impairment using differential correlation analysis}},
  journal = {Biomarker research},
  year    = {2016},
  doi     = {10.1186/s40364-016-0076-1},
  pmid    = {27999671},
  url     = {https://doi.org/10.1186/s40364-016-0076-1}
}

@article{zhao2016-27929395,
  author  = {Zhao, Y. and Alexandrov, P. N. and Jaber, V. and Lukiw, W. J.},
  title   = {{Deficiency in the Ubiquitin Conjugating Enzyme UBE2A in Alzheimer's Disease (AD) is Linked to Deficits in a Natural Circular miRNA-7 Sponge (circRNA; ciRS-7)}},
  journal = {Genes},
  year    = {2016},
  doi     = {10.3390/genes7120116},
  pmid    = {27929395},
  url     = {https://doi.org/10.3390/genes7120116}
}

@article{wang2016-27799057,
  author  = {Wang, M. and Roussos, P. and McKenzie, A. and Zhou, X. and Kajiwara, Y. and Brennand, K. J. and De Luca, G. C. and Crary, J. F. and others},
  title   = {{Integrative network analysis of nineteen brain regions identifies molecular signatures and networks underlying selective regional vulnerability to Alzheimer's disease}},
  journal = {Genome medicine},
  year    = {2016},
  doi     = {10.1186/s13073-016-0355-3},
  pmid    = {27799057},
  url     = {https://doi.org/10.1186/s13073-016-0355-3}
}

@article{allen2016-27727239,
  author  = {Allen, M. and Carrasquillo, M. M. and Funk, C. and Heavner, B. D. and Zou, F. and Younkin, C. S. and Burgess, J. D. and Chai, H. S. and others},
  title   = {{Human whole genome genotype and transcriptome data for Alzheimer's and other neurodegenerative diseases}},
  journal = {Scientific data},
  year    = {2016},
  doi     = {10.1038/sdata.2016.89},
  pmid    = {27727239},
  url     = {https://doi.org/10.1038/sdata.2016.89}
}

@article{hendriks2016-27435506,
  author  = {Hendriks, I. A. and Vertegaal, A. C.},
  title   = {{A comprehensive compilation of SUMO proteomics}},
  journal = {Nature reviews. Molecular cell biology},
  year    = {2016},
  doi     = {10.1038/nrm.2016.81},
  pmid    = {27435506},
  url     = {https://doi.org/10.1038/nrm.2016.81}
}

@article{srinivasan2016-27097852,
  author  = {Srinivasan, K. and Friedman, B. A. and Larson, J. L. and Lauffer, B. E. and Goldstein, L. D. and Appling, L. L. and Borneo, J. and Poon, C. and others},
  title   = {{Untangling the brain's neuroinflammatory and neurodegenerative transcriptional responses}},
  journal = {Nature communications},
  year    = {2016},
  doi     = {10.1038/ncomms11295},
  pmid    = {27097852},
  url     = {https://doi.org/10.1038/ncomms11295}
}

@article{skene2016-26858593,
  author  = {Skene, N. G. and Grant, S. G.},
  title   = {{Identification of Vulnerable Cell Types in Major Brain Disorders Using Single Cell Transcriptomes and Expression Weighted Cell Type Enrichment}},
  journal = {Frontiers in neuroscience},
  year    = {2016},
  doi     = {10.3389/fnins.2016.00016},
  pmid    = {26858593},
  url     = {https://doi.org/10.3389/fnins.2016.00016}
}

@article{watson2016-26803900,
  author  = {Watson, C. T. and Roussos, P. and Garg, P. and Ho, D. J. and Azam, N. and Katsel, P. L. and Haroutunian, V. and Sharp, A. J.},
  title   = {{Genome-wide DNA methylation profiling in the superior temporal gyrus reveals epigenetic signatures associated with Alzheimer's disease}},
  journal = {Genome medicine},
  year    = {2016},
  doi     = {10.1186/s13073-015-0258-8},
  pmid    = {26803900},
  url     = {https://doi.org/10.1186/s13073-015-0258-8}
}

@article{levine2015-26684672,
  author  = {Levine, M. E. and Lu, A. T. and Bennett, D. A. and Horvath, S.},
  title   = {{Epigenetic age of the pre-frontal cortex is associated with neuritic plaques, amyloid load, and Alzheimer's disease related cognitive functioning}},
  journal = {Aging},
  year    = {2015},
  doi     = {10.18632/aging.100864},
  pmid    = {26684672},
  url     = {https://doi.org/10.18632/aging.100864}
}

@article{sood2015-26343147,
  author  = {Sood, Sanjana and Gallagher, Iain J. and Lunnon, Katie and Rullman, Eric and Keohane, Aoife and Crossland, Hannah and Phillips, Bethan Eileen and Cederholm, Tommy and others},
  title   = {{A novel multi-tissue RNA diagnostic of healthy ageing relates to cognitive health status}},
  journal = {Genome biology},
  year    = {2015},
  doi     = {10.1186/s13059-015-0750-x},
  pmid    = {26343147},
  url     = {https://doi.org/10.1186/s13059-015-0750-x}
}

@article{siavelis2016-26197808,
  author  = {Siavelis, John C and Bourdakou, Marilena M and Athanasiadis, Emmanouil I and Spyrou, George M and Nikita, Konstantina S},
  title   = {{Bioinformatics methods in drug repurposing for Alzheimer's disease}},
  journal = {Briefings in bioinformatics},
  year    = {2016},
  doi     = {10.1093/bib/bbv048},
  pmid    = {26197808},
  url     = {https://doi.org/10.1093/bib/bbv048}
}

@article{lardenoije2015-26072273,
  author  = {Lardenoije, R. and Iatrou, A. and Kenis, G. and Kompotis, K. and Steinbusch, H. W. and Mastroeni, D. and Coleman, P. and Lemere, C. A. and others},
  title   = {{The epigenetics of aging and neurodegeneration}},
  journal = {Progress in neurobiology},
  year    = {2015},
  doi     = {10.1016/j.pneurobio.2015.05.002},
  pmid    = {26072273},
  url     = {https://doi.org/10.1016/j.pneurobio.2015.05.002}
}

@article{corbett2015-25961694,
  author  = {Corbett, Anne and Williams, Gareth and Ballard, Clive},
  title   = {{Drug repositioning in Alzheimer's disease}},
  journal = {Frontiers in bioscience (Scholar edition)},
  year    = {2015},
  doi     = {10.2741/s432},
  pmid    = {25961694},
  url     = {https://doi.org/10.2741/s432}
}

@article{gjoneska2015-25693568,
  author  = {Gjoneska, E. and Pfenning, A. R. and Mathys, H. and Quon, G. and Kundaje, A. and Tsai, L. H. and Kellis, M.},
  title   = {{Conserved epigenomic signals in mice and humans reveal immune basis of Alzheimer's disease}},
  journal = {Nature},
  year    = {2015},
  doi     = {10.1038/nature14252},
  pmid    = {25693568},
  url     = {https://doi.org/10.1038/nature14252}
}

@article{cheng2015-25349172,
  author  = {Cheng, L. and Doecke, J. D. and Sharples, R. A. and Villemagne, V. L. and Fowler, C. J. and Rembach, A. and Martins, R. N. and Rowe, C. C. and others},
  title   = {{Prognostic serum miRNA biomarkers associated with Alzheimer's disease shows concordance with neuropsychological and neuroimaging assessment}},
  journal = {Molecular psychiatry},
  year    = {2015},
  doi     = {10.1038/mp.2014.127},
  pmid    = {25349172},
  url     = {https://doi.org/10.1038/mp.2014.127}
}

@article{dejager2014-25129075,
  author  = {De Jager, P. L. and Srivastava, G. and Lunnon, K. and Burgess, J. and Schalkwyk, L. C. and Yu, L. and Eaton, M. L. and Keenan, B. T. and others},
  title   = {{Alzheimer's disease: early alterations in brain DNA methylation at ANK1, BIN1, RHBDF2 and other loci}},
  journal = {Nature neuroscience},
  year    = {2014},
  doi     = {10.1038/nn.3786},
  pmid    = {25129075},
  url     = {https://doi.org/10.1038/nn.3786}
}

@article{coppieters2014-24387984,
  author  = {Coppieters, N. and Dieriks, B. V. and Lill, C. and Faull, R. L. and Curtis, M. A. and Dragunow, M.},
  title   = {{Global changes in DNA methylation and hydroxymethylation in Alzheimer's disease human brain}},
  journal = {Neurobiology of aging},
  year    = {2014},
  doi     = {10.1016/j.neurobiolaging.2013.11.031},
  pmid    = {24387984},
  url     = {https://doi.org/10.1016/j.neurobiolaging.2013.11.031}
}

@article{lau2013-24014289,
  author  = {Lau, Pierre and Bossers, Koen and Janky, Rekin’s and Salta, Evgenia and Frigerio, Carlo Sala and Barbash, Shahar and Rothman, Roy and Sierksma, Annerieke S. R. and others},
  title   = {{Alteration of the microRNA network during the progression of Alzheimer's disease}},
  journal = {EMBO Molecular Medicine},
  year    = {2013},
  doi     = {10.1002/emmm.201201974},
  pmid    = {24014289},
  url     = {https://doi.org/10.1002/emmm.201201974}
}

@article{stutzbach2013-24252572,
  author  = {Stutzbach, L. D. and Xie, S. X. and Naj, A. C. and Albin, R. and Gilman, S. and {PSP Genetics Study Group} and Lee, V. M. and Trojanowski, J. Q. and others},
  title   = {{The unfolded protein response is activated in disease-affected brain regions in progressive supranuclear palsy and Alzheimer's disease}},
  journal = {Acta neuropathologica communications},
  year    = {2013},
  doi     = {10.1186/2051-5960-1-31},
  pmid    = {24252572},
  url     = {https://doi.org/10.1186/2051-5960-1-31}
}

@article{trushina2014-23816564,
  author  = {Trushina, E. and Mielke, M. M.},
  title   = {{Recent advances in the application of metabolomics to Alzheimer's Disease}},
  journal = {Biochimica et biophysica acta},
  year    = {2014},
  doi     = {10.1016/j.bbadis.2013.06.014},
  pmid    = {23816564},
  url     = {https://doi.org/10.1016/j.bbadis.2013.06.014}
}

@article{chouliaras2013-23582657,
  author  = {Chouliaras, L. and Mastroeni, D. and Delvaux, E. and Grover, A. and Kenis, G. and Hof, P. R. and Steinbusch, H. W. and Coleman, P. D. and others},
  title   = {{Consistent decrease in global DNA methylation and hydroxymethylation in the hippocampus of Alzheimer's disease patients}},
  journal = {Neurobiology of aging},
  year    = {2013},
  doi     = {10.1016/j.neurobiolaging.2013.02.021},
  pmid    = {23582657},
  url     = {https://doi.org/10.1016/j.neurobiolaging.2013.02.021}
}

@article{horvath2012-23034122,
  author  = {Horvath, S. and Zhang, Y. and Langfelder, P. and Kahn, R. S. and Boks, M. P. and van Eijk, K. and van den Berg, L. H. and Ophoff, R. A.},
  title   = {{Aging effects on DNA methylation modules in human brain and blood tissue}},
  journal = {Genome biology},
  year    = {2012},
  doi     = {10.1186/gb-2012-13-10-r97},
  pmid    = {23034122},
  url     = {https://doi.org/10.1186/gb-2012-13-10-r97}
}

@article{johnson2012-23098078,
  author  = {Johnson, A. A. and Akman, K. and Calimport, SR. and Wuttke, D. and Stolzing, A. and de Magalhães, J. P.},
  title   = {{The role of DNA methylation in aging, rejuvenation, and age-related disease}},
  journal = {Rejuvenation research},
  year    = {2012},
  doi     = {10.1089/rej.2012.1324},
  pmid    = {23098078},
  url     = {https://doi.org/10.1089/rej.2012.1324}
}

@article{rao2012-22760556,
  author  = {Rao, J. S. and Keleshian, V. L. and Klein, S. and Rapoport, S. I.},
  title   = {{Epigenetic modifications in frontal cortex from Alzheimer's disease and bipolar disorder patients}},
  journal = {Translational psychiatry},
  year    = {2012},
  doi     = {10.1038/tp.2012.55},
  pmid    = {22760556},
  url     = {https://doi.org/10.1038/tp.2012.55}
}

@article{graff2012-22388814,
  author  = {Gräff, J. and Rei, D. and Guan, J. S. and Wang, W. Y. and Seo, J. and Hennig, K. M. and Nieland, T. J. and Fass, D. M. and others},
  title   = {{An epigenetic blockade of cognitive functions in the neurodegenerating brain}},
  journal = {Nature},
  year    = {2012},
  doi     = {10.1038/nature10849},
  pmid    = {22388814},
  url     = {https://doi.org/10.1038/nature10849}
}

@article{rademakers2011-22197934,
  author  = {Rademakers, R. and Baker, M. and Nicholson, A. M. and Rutherford, N. J. and Finch, N. and Soto-Ortolaza, A. and Lash, J. and Wider, C. and others},
  title   = {{Mutations in the colony stimulating factor 1 receptor (CSF1R) gene cause hereditary diffuse leukoencephalopathy with spheroids}},
  journal = {Nature genetics},
  year    = {2011},
  doi     = {10.1038/ng.1027},
  pmid    = {22197934},
  url     = {https://doi.org/10.1038/ng.1027}
}

@article{johnson2012-22202438,
  author  = {Johnson, R.},
  title   = {{Long non-coding RNAs in Huntington's disease neurodegeneration}},
  journal = {Neurobiology of disease},
  year    = {2012},
  doi     = {10.1016/j.nbd.2011.12.006},
  pmid    = {22202438},
  url     = {https://doi.org/10.1016/j.nbd.2011.12.006}
}

@article{klein2011-21532572,
  author  = {Klein, C. J. and Botuyan, M. V. and Wu, Y. and Ward, C. J. and Nicholson, G. A. and Hammans, S. and Hojo, K. and Yamanishi, H. and others},
  title   = {{Mutations in DNMT1 cause hereditary sensory neuropathy with dementia and hearing loss}},
  journal = {Nature genetics},
  year    = {2011},
  doi     = {10.1038/ng.830},
  pmid    = {21532572},
  url     = {https://doi.org/10.1038/ng.830}
}

@article{twine2011-21283692,
  author  = {Twine, N. A. and Janitz, K. and Wilkins, M. R. and Janitz, M.},
  title   = {{Whole transcriptome sequencing reveals gene expression and splicing differences in brain regions affected by Alzheimer's disease}},
  journal = {PloS one},
  year    = {2011},
  doi     = {10.1371/journal.pone.0016266},
  pmid    = {21283692},
  url     = {https://doi.org/10.1371/journal.pone.0016266}
}

@article{urdinguio2009-19833297,
  author  = {Urdinguio, R. G. and Sanchez-Mut, J. V. and Esteller, M.},
  title   = {{Epigenetic mechanisms in neurological diseases: genes, syndromes, and therapies}},
  journal = {The Lancet. Neurology},
  year    = {2009},
  doi     = {10.1016/s1474-4422(09)70262-5},
  pmid    = {19833297},
  url     = {https://doi.org/10.1016/s1474-4422(09)70262-5}
}

@article{mastroeni2010-19117641,
  author  = {Mastroeni, D. and Grover, A. and Delvaux, E. and Whiteside, C. and Coleman, P. D. and Rogers, J.},
  title   = {{Epigenetic changes in Alzheimer's disease: decrements in DNA methylation}},
  journal = {Neurobiology of aging},
  year    = {2010},
  doi     = {10.1016/j.neurobiolaging.2008.12.005},
  pmid    = {19117641},
  url     = {https://doi.org/10.1016/j.neurobiolaging.2008.12.005}
}

@article{wang2008-18628954,
  author  = {Wang, S. C. and Oelze, B. and Schumacher, A.},
  title   = {{Age-specific epigenetic drift in late-onset Alzheimer's disease}},
  journal = {PloS one},
  year    = {2008},
  doi     = {10.1371/journal.pone.0002698},
  pmid    = {18628954},
  url     = {https://doi.org/10.1371/journal.pone.0002698}
}

@article{cogswell2008-18525125,
  author  = {Cogswell, J. P. and Ward, J. and Taylor, I. A. and Waters, M. and Shi, Y. and Cannon, B. and Kelnar, K. and Kemppainen, J. and others},
  title   = {{Identification of miRNA changes in Alzheimer's disease brain and CSF yields putative biomarkers and insights into disease pathways}},
  journal = {Journal of Alzheimer's disease : JAD},
  year    = {2008},
  doi     = {10.3233/jad-2008-14103},
  pmid    = {18525125},
  url     = {https://doi.org/10.3233/jad-2008-14103}
}

@article{siegmund2007-17878930,
  author  = {Siegmund, K. D. and Connor, C. M. and Campan, M. and Long, T. I. and Weisenberger, D. J. and Biniszkiewicz, D. and Jaenisch, R. and Laird, P. W. and others},
  title   = {{DNA methylation in the human cerebral cortex is dynamically regulated throughout the life span and involves differentiated neurons}},
  journal = {PloS one},
  year    = {2007},
  doi     = {10.1371/journal.pone.0000895},
  pmid    = {17878930},
  url     = {https://doi.org/10.1371/journal.pone.0000895}
}

@article{tian2005-16174746,
  author  = {Tian, Lü and Greenberg, Steven A. and Kong, Sek Won and Altschuler, Josiah and Kohane, Isaac S. and Park, Peter J.},
  title   = {{Discovering statistically significant pathways in expression profiling studies}},
  journal = {Proceedings of the National Academy of Sciences},
  year    = {2005},
  doi     = {10.1073/pnas.0506577102},
  pmid    = {16174746},
  url     = {https://doi.org/10.1073/pnas.0506577102}
}

@article{lu2004-15190254,
  author  = {Lu, T. and Pan, Y. and Kao, S. Y. and Li, C. and Kohane, I. and Chan, J. and Yankner, B. A.},
  title   = {{Gene regulation and DNA damage in the ageing human brain}},
  journal = {Nature},
  year    = {2004},
  doi     = {10.1038/nature02661},
  pmid    = {15190254},
  url     = {https://doi.org/10.1038/nature02661}
}

@article{blalock2004-14769913,
  author  = {Blalock, E. M. and Geddes, J. W. and Chen, K. C. and Porter, N. M. and Markesbery, W. R. and Landfield, P. W.},
  title   = {{Incipient Alzheimer's disease: microarray correlation analyses reveal major transcriptional and tumor suppressor responses}},
  journal = {Proceedings of the National Academy of Sciences of the United States of America},
  year    = {2004},
  doi     = {10.1073/pnas.0308512100},
  pmid    = {14769913},
  url     = {https://doi.org/10.1073/pnas.0308512100}
}

@article{holmes2003-12754353,
  author  = {Holmes, Clive},
  title   = {{Systemic infection, interleukin 1beta, and cognitive decline in Alzheimer's disease}},
  journal = {Journal of Neurology Neurosurgery \& Psychiatry},
  year    = {2003},
  doi     = {10.1136/jnnp.74.6.788},
  pmid    = {12754353},
  url     = {https://doi.org/10.1136/jnnp.74.6.788}
}

@article{colangelo2002-12391607,
  author  = {Colangelo, V. and Schurr, J. and Ball, M. J. and Pelaez, R. P. and Bazan, N. G. and Lukiw, W. J.},
  title   = {{Gene expression profiling of 12633 genes in Alzheimer hippocampal CA1: transcription and neurotrophic factor down-regulation and up-regulation of apoptotic and pro-inflammatory signaling}},
  journal = {Journal of neuroscience research},
  year    = {2002},
  doi     = {10.1002/jnr.10351},
  pmid    = {12391607},
  url     = {https://doi.org/10.1002/jnr.10351}
}

@article{issaq2002-11922607,
  author  = {Issaq, H. J. and Veenstra, T. D. and Conrads, T. P. and Felschow, D.},
  title   = {{The SELDI-TOF MS approach to proteomics: protein profiling and biomarker identification}},
  journal = {Biochemical and biophysical research communications},
  year    = {2002},
  doi     = {10.1006/bbrc.2002.6678},
  pmid    = {11922607},
  url     = {https://doi.org/10.1006/bbrc.2002.6678}
}

@article{li1997-9342387,
  author  = {Li, X. and Greenwald, I.},
  title   = {{HOP-1, a Caenorhabditis elegans presenilin, appears to be functionally redundant with SEL-12 presenilin and to facilitate LIN-12 and GLP-1 signaling}},
  journal = {Proceedings of the National Academy of Sciences of the United States of America},
  year    = {1997},
  doi     = {10.1073/pnas.94.22.12204},
  pmid    = {9342387},
  url     = {https://doi.org/10.1073/pnas.94.22.12204}
}