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Stem cell-derived neurons reflect features of protein networks, neuropathology, and cognitive outcome of their aged human donors
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We have generated a controlled and manipulable resource that captures genetic risk for Alzheimer's disease: iPSC lines from 53 individuals coupled with RNA and proteomic profiling of both iPSC-derived neurons and brain tissue of the same individuals. Data collected for each person include genome sequencing, longitudinal cognitive scores, and quantitative neuropathology. The utility of this resource is exemplified here by analyses of neurons derived from these lines, revealing significant associations between specific Aβ and tau species and the levels of plaque and tangle deposition in the brain and, more importantly, with the trajectory of cognitive decline. Proteins and networks are identified that are associated with AD phenotypes in iPSC neurons, and relevant associations are validated in brain. The data presented establish this iPSC collection as a resource for investigating person-specific processes in the brain that can aid in identifying and validating molecular pathways underlying AD.
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“We detected several SHIP1 binding partners previously identified in other myeloid cells, such as SH3KBP117, GRB218, SHC118, DOK218,19, ARAP120 and CD2AP21 (Figure 1D).”
From INPP5D/SHIP1 regulates endo-lysosomal function and cargo-selective phagocytosis in human microglia (2025) · cites this paper as [17]
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“For example, iPSC-derived neurons from patients with familial or sporadic Alzheimer’s disease (AD) exhibit pathological hallmarks of AD such as enlarged early endosomes, increased amyloid-b, and phosphorylated tau.(6,7) iPSC-derived cardiacmyocytes from patients carrying pathogenic mutations of long-QT syndrome, a car…”
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“Human-derived induced pluripotent stem cells are used to create brain organoid models of AD (Lagomarsino et al., 2021).”
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“Furthermore, technological combination between iPSC reprogramming and the generation of brain organoids has resulted in a new disease model for neurological or psychiatric diseases (Lancaster et al., 2013; Clevers, 2016; Di Lullo and Kriegstein, 2017; Qian et al., 2019; Cherskov and Sestan, 2021).”
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“…used 4 ROSMAP iPSC lines derived from 2 persons with AD (R107: 86-year-old female and R126: > 89-year-old male), and 2 without dementia (R46: >89-year-old female and R38: >89-year-old male) [3, 57], and generated mature electrically excitable neurons that make synaptic contracts (Supplemental Fig.”
Self-citationSit, T. P. H., Feord, R. C., Dunn, A. W., Chabros, J., Oluigbo, D., Smith, H., Burn, L. A., Chang, E., Boschi, A., Yin, Y., et al. (2024) · Cell Reports Methods · doi:10.1016/j.crmeth.2024.100901 · Cited by 22
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“28 These cohorts are composed of Catholic nuns, priests, and monks across the United States (ROS) and older persons recruited from communities around the Chicago metropolitan area (MAP).”
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“However, over the years of executing this study, extensive data were acquired regarding the human iN system, including data from our lab defining MEA characteristics of iNs over differentiation time [50].”
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“17 j 2111–2126 j September 13, 2022 (D’Souza et al., 2021; Imberdis et al., 2019; Lagomarsino et al., 2021; Lin et al., 2018; Muratore et al., 2017; Sanyal et al., 2020).”
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BackgroundArtificial intelligence unifies knowledge and actions in drug repositioning
Yin, Z., & Wong, S. T. C. (2021) · Emerging Topics in Life Sciences · doi:10.1042/etls20210223 · Cited by 19
Decoding microglial functions in Alzheimer’s disease: insights from human models
Rao, C., Semrau, S., & Fossati, V. (2025) · Trends in Immunology · doi:10.1016/j.it.2025.02.011 · Cited by 14
Brain Microvascular Pericyte Pathology Linking Alzheimer's Disease to Diabetes
El‐Ghazawi, K., Eyo, U. B., & Peirce, S. M. (2024) · Microcirculation · doi:10.1111/micc.12877 · Cited by 14
Gould, N. L., Scherer, G. R., Carvalho, S., Shurrush, K. A., Kayyal, H., Edry, E., Elkobi, A., David, O., Foqara, M., Thakar, D., et al. (2023) · Journal of Clinical Investigation · doi:10.1172/jci162120 · Cited by 19
“Currently, major efforts are being made to find new ways to slow metabolic aging (51), particularly in the post-mitotic neurons of the brain.”
BackgroundLee, H., Pearse, R. V., Lish, A. M., Pan, C., Augur, Z. M., Terzioğlu, G., Gaur, P., Liao, M., Fujita, M., Tio, E. S., et al. (2025) · Glia · doi:10.1002/glia.24677 · Cited by 21
Self-citationWang, Z., Jin, M., Hong, W., Liu, W., Reczek, D., Lagomarsino, V. N., Hu, Y., Weeden, T., Frosch, M. P., Young‐Pearse, T. L., et al. (2023) · Acta Neuropathologica Communications · doi:10.1186/s40478-023-01511-2 · Cited by 13
“The neurite number and expression of neural markers reached maximal levels by iN day 14 and by iN day 21 spontaneous firing of the iNs had plateaued [19, 23].”
BackgroundSelf-citationCohen, B. M., & Sonntag, K. (2024) · EBioMedicine · doi:10.1016/j.ebiom.2024.105238 · Cited by 13
“15,16,18,36,39,41,43,45,47,50,59,61 Elevated levels were more often observed with greater duration of culture, suggesting that increases in abnormal peptides are a consequence of more basic preceding mechanisms.”
BackgroundResultAssociation of AK4 Protein From Stem Cell–Derived Neurons With Cognitive Reserve
Yu, L., Hsieh, Y., Pearse, R. V., Wang, Y., Petyuk, V., Schneider, J. A., Buchman, A. S., Seyfried, N. T., Jager, P. L. D., Young‐Pearse, T. L., et al. (2022) · Neurology · doi:10.1212/wnl.0000000000201120 · Cited by 13
“Generation of iPSC Lines and iNs Technical details on the generation of iPSC lines and iNs are previously described.(10) In brief, the iPSC lines were generated using cryopreserved PBMCs from autopsied ROSMAP participants.”
BackgroundMethodInfluentialSelf-citationUrine-derived cells from the aged donor for the 2D/3D modeling of neural cells via iPSCs
Supakul, S., Hatakeyama, Y., Leventoux, N., Itsuno, M., Numata, N., Hiramine, H., Morimoto, S., Iwata, A., Maeda, S., & Okano, H. (2023) · Aging Brain · doi:10.1016/j.nbas.2023.100101 · Cited by 11
“In fact, some previous studies demonstrated that the neuronal models derived from the iPSCs could recapitulate the disease pathogenesis in relation to the polygenic risks [34,35].”
BackgroundMamais, A., Sanyal, A., Fajfer, A., Zykoski, C. G., Guldin, M., Riley-DiPaolo, A., Subrahmanian, N., Gibbs, W., Lin, S., & LaVoie, M. J. (2023) · doi:10.1101/2023.04.30.538317 · Cited by 3
Approaches for studying neuroimmune interactions in Alzheimer’s disease
Lin, C., Tian, Y., Tanzi, R. E., & Jorfi, M. (2024) · Trends in Immunology · doi:10.1016/j.it.2024.10.002 · Cited by 11
Oakley, D. H., Chung, M., Abrha, S., Hyman, B. T., & Frosch, M. P. (2024) · Journal of Neuropathology & Experimental Neurology · doi:10.1093/jnen/nlae053 · Cited by 9
Cellular and subcellular localization of Rab10 and phospho-T73 Rab10 in the mouse and human brain
Singh, V., Menard, M. A., Serrano, G. E., Beach, T. G., Zhao, H. T., Riley-DiPaolo, A., Subrahmanian, N., LaVoie, M. J., & Volpicelli-Daley, L. A. (2023) · Acta Neuropathologica Communications · doi:10.1186/s40478-023-01704-9 · Cited by 9
“These cells were induced to differentiate into neurons as reported [33, 47, 69] and immunofluorescence experiments were performed using the pRab10 antibody.”
MethodPomeshchik, Y., Velásquez, E., Gil, J., Klementieva, O. L., Gidlöf, R., Sydoff, M., Bagnoli, S., Nacmias, B., Sorbi, S., Westergren‐Thorsson, G., et al. (2023) · Acta Neuropathologica Communications · doi:10.1186/s40478-023-01649-z · Cited by 10
“Recently, Lago-marsino and colleagues generated induced cortical neurons from iPSC lines obtained from a large cohort of deeply phenotyped individuals, including sixteen neu-ropathologically diagnosed with AD and Alzheimer’s dementia [77].”
BackgroundCell models for Down syndrome-Alzheimer’s disease research
Wu, Y., West, N. R., Bhattacharyya, A., & Wiseman, F. K. (2022) · Neuronal Signaling · doi:10.1042/ns20210054 · Cited by 17
INPP5D/SHIP1 regulates inflammasome activation in human microglia
Chou, V., Fancher, S. B., Pearse, R. V., Lee, H., Lam, M., Seyfried, N. T., Bennett, D. A., De Jager, P. L., Menon, V., & Young-Pearse, T. L. (2023) · doi:10.1101/2023.02.25.530025 · Cited by 8
Self-citationMamais, A., Sanyal, A., Fajfer, A., Zykoski, C. G., Guldin, M., Riley-DiPaolo, A., Subrahmanian, N., Gibbs, W. S., Lin, S., & LaVoie, M. J. (2024) · Stem Cell Reports · doi:10.1016/j.stemcr.2024.01.001 · Cited by 20
Revisiting a Telencephalic Extent of the Ascending Reticular Activating System
Miyawaki, E. K., Bhattacharyya, S., & Torre, M. (2023) · Cellular and Molecular Neurobiology · doi:10.1007/s10571-023-01339-3 · Cited by 9
Fine-mapping in admixed populations using CARMA-X, with applications to Latin American studies
Yang, Z., Wang, C., Posadas‐García, Y. S., Añorve-Garibay, V., Vardarajan, B. N., Moreno‐Estrada, A., Sohail, M., Mayeux, R. P., & Ionita‐Laza, I. (2025) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2025.02.020 · Cited by 8
Self-citationAge-Related Neurodegenerative Diseases: A Stem Cell’s Perspective
Calvo, B., Schembri-Wismayer, P., & Alonso, M. B. D. (2025) · Cells · doi:10.3390/cells14050347 · Cited by 9
Santarriaga, S., Gerlovin, K., Layadi, Y., & Karmacharya, R. (2023) · Schizophrenia Research · doi:10.1016/j.schres.2023.02.029 · Cited by 7
Brain Endothelial Soluble ST2 Production and Cerebral Edema in a Rat Model of Ischemic Stroke
Bevers, M. B., An, J., Yoo, A., Fietsam, E., Booraem, C., Reddy, D., Li, K., Sastre, C., Acharjee, A., Sugimoto, K., et al. (2025) · Annals of Neurology · doi:10.1002/ana.78006 · Cited by 4
Self-citationYang, T., Xu, Y. R., Jin, S., Ramalingam, N., Bellier, J., Lish, A. M., Ostaszewski, B. L., Young‐Pearse, T. L., Liu, L., Yang, H., et al. (2025) · Alzheimer s Research & Therapy · doi:10.1186/s13195-025-01802-x · Cited by 7
“iPSC-derived neurons (iNs) were differentiated as reported [28] with minor modifications [29]. iPSCs were plated at a density of 95 k cells/cm 2 on plates coated with growth factor reduced Matrigel one day prior to virus transduction (Corning #354,230).”
Self-citationMaguire, E., Winston, J., Ellwood, S. H., O’Donoghue, R., Shaw, B., Castillo-Morales, A., Keat, S., Evans, A., Marshall, I. J., Luckcuck, L., et al. (2025) · Stem Cell Reports · doi:10.1016/j.stemcr.2025.102570 · Cited by 7
Changes in iPSC-astrocyte morphology reflect Alzheimer’s disease patient clinical markers
Rowland, H. A., Miller, G., Liu, Q., Li, S., Sharp, N. R., Ng, B., Wei, L., Arunasalam, K., Koychev, I. G., Hedegaard, A., et al. (2024) · Stem Cells · doi:10.1093/stmcls/sxae085 · Cited by 8
“3,4 These findings open the feasibility of modeling sAD, allowing the interrogation of mechanisms and identification of therapeutic targets in a personalized medicine approach.”
White, A. J., Clark, K. A., Alexander, K. D., Ramalingam, N., Young‐Pearse, T. L., Dettmer, U., Selkoe, D. J., & Ho, G. P. H. (2024) · npj Parkinson s Disease · doi:10.1038/s41531-024-00725-y · Cited by 6
“They allow for investigations in a human cell background, exhibit characteristics of excitatory neurons of the layer II/III neocortex 16 , and become electrically active within 21 days of differentiation 17 .”
Self-citationNguyen, L. D., Wei, Z., Silva, M. C., Barberán-Soler, S., Zhang, J., Rabinovsky, R., Muratore, C. R., Stricker, J. M. S., Hortman, C., Young-Pearse, T. L., et al. (2023) · Nature Communications · doi:10.1038/s41467-023-43293-0 · Cited by 50
“Induced pluripotent stem cell (iPSC) lines were retrieved and differentiated into neurons with NGN2 expression, as previously reported 27 .”
InfluentialSelf-citationAugur, Z. M., Fogo, G. M., Arbery, M. R., Hsieh, Y., Rao, N. R., Goyal, K., Dexter, E., Bennett, D. A., Savas, J. N., Stern, A. M., et al. (2025) · Acta Neuropathologica · doi:10.1007/s00401-025-02947-7 · Cited by 6
“Previously reported iPSC lines were used, which were generated from cryopreserved peripheral blood mononuclear cell (PBMC) samples from autopsied participants from the ROS and MAP cohorts using the Sendai reprogramming method [46].”
InfluentialSelf-citationBenoit, C. R., Sattler, L. B., Aylward, A. J., Pembridge, O. G., Kim, B., Muratore, C., Liao, M., He, A., Ashour, N., Fancher, S. B., et al. (2025) · Brain · doi:10.1093/brain/awaf221 · Cited by 3
“47,54 Astrocytes (ebAstros) were differentiated from NPCs as described.”
Self-citationLee, H., Pearse, R., Lish, A. M., Pan, C., Augur, Z. M., Terzioglu, G., Gaur, P., Liao, M., Fujita, M., Tio, E., et al. (2024) · bioRxiv · doi:10.1101/2024.07.31.605928 · Cited by 5
“We next differentiated iPSCs from 44 individuals, sourced from the Religious Order Studies and Rush Memory and Aging Project (ROSMAP (Lagomarsino et al., 2021)).”
MethodInfluentialSelf-citationZhai, T., Krass, E., Zhang, F., & Huang, Z. J. (2023) · Frontiers in Systems Biology · doi:10.3389/fsysb.2023.1188430 · Cited by 6
“Researchers can use induced pluripotent stem cells (iPSC) to grow human neurons in a dish now (Lagomarsino, 2021).”
BackgroundLish, A. M., Galle, P. C., Orme, G. A., Ashour, N., Heuer, S. E., Curle, A. J., Muratore, C., & Young‐Pearse, T. L. (2025) · STAR Protocols · doi:10.1016/j.xpro.2025.104152 · Cited by 6
Self-citationMamais, A., Batchelor, R. D., Chairmandurai, A., Ladd, T. B., Shute, A. J., Subrahmanian, N., Maio, N., Vulpe, C. D., & LaVoie, M. J. (2025) · bioRxiv · doi:10.1101/2025.09.26.678370 · Cited by 4
“BR33 were derived from a Caucasian donor, who was deeply phenotyped as part of the ROS/MAP longitudinal aging studies (53,54) and determined to not be cognitively impaired at death at age >89 and free from genetic variants that confer risk of PD. ND35371 (R1441C heterozygous) and ND50051 (G2019S…”
NCRAD: Advancing Alzheimer's research through high‐quality biospecimens and data
Edler, M. C., Faber, K., Lacy, K., Jackson, J. M., & Foroud, T. (2025) · Alzheimer's & Dementia · doi:10.1002/alz.70682 · Cited by 4
Chun, M. Y., Jung, S., Choe, J., Lee, S., Kim, H., Son, H. J., Choi, Y., Cho, M., Kim, B., Jang, H., et al. (2025) · Alzheimer s & Dementia · doi:10.1002/alz.70660 · Cited by 2
“16 Although numerous studies have investigated the role of single genetic factor such as APOE in AD using organoid models, 18–20 disease Study (BICWALZS), 22 which constituted Dataset 2 for replication analysis.”
Su, W.-S., Wu, M.-T., Cheng, I. H.-J., & Yang, F. (2025) · Experimental Neurology · doi:10.1016/j.expneurol.2025.115420 · Cited by 5
Schwarze‐Taufiq, T. A., Pranoto, I. K. A., Hui, K., Kinoshita, C., Yu, O., Crane, P. K., Gray, S. L., & Young, J. E. (2025) · Alzheimer s & Dementia Translational Research & Clinical Interventions · doi:10.1002/trc2.70040 · Cited by 3
“33”
Schultz, S. A., Liu, L., Schultz, A. P., Fitzpatrick, C. D., Levin, R., Bellier, J., Shirzadi, Z., Joseph‐Mathurin, N., Chen, C. D., Benzinger, T. L. S., et al. (2023) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2023.07.04.547688 · Cited by 5
Self-citationINPP5D/SHIP1 regulates endo-lysosomal function and cargo-selective phagocytosis in human microglia
Terzioglu, G., Karp, E. S., Heuer, S. E., Chadarevian, J. P., Ahsan, F. M., Haage, V. C., Davtyan, H., Fogo, G. M., Curle, A. J., Ashour, N., et al. (2025) · doi:10.1101/2025.10.27.684632 · Cited by 3
Self-citationSaguer, I. L., Gabriele, R. M. C., Bradshaw, T. Y., Leckey, C. A., Belder, C. R. S., Chávez‐Gutiérrez, L., de Silva, R., Fox, N. C., Wray, S., Oxtoby, N. P., et al. (2026) · Brain Communications · doi:10.1093/braincomms/fcag105 · Cited by 3
“A first step on this path would be to test the five A β peptides in iPSC models of LOAD, such as those developed in the literature, 27,28 and patient-derived blood plasma.”
Sanyal, A., Scanavachi, G., Somerville, E., Aylan, B., Costa-Filho, J. I., Brooks, F. A., Dickson, J. R., Hyman, B. T., & Kirchhausen, T. L. (2025) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2025.11.02.686178 · Cited by 2
Liu, J., Zhao, W., Zhang, Z., Ai, X., Cao, B., Zhang, Z., & Ma, D. (2025) · Stem Cell Reviews and Reports · doi:10.1007/s12015-025-10931-7 · Cited by 3
“Ensuring that these induced neurons exhibit senescence and epigenetic characteristics akin to mature substantia nigra neurons in patients remains a critical area for investigation [117].”
Ortlund, E. A., Chen, C.-Y., Maner-Smith, K., Khadka, M., Ahn, J., Gulbin, X., Ivanova, A., Dammer, E., Seyfried, N., Bennett, D. A., et al. (2024) · Research Square · doi:10.21203/rs.3.rs-3973736/v1 · Cited by 3
Self-citationSit, T. P. H., Feord, R., Dunn, A. W. E., Chabros, J., Oluigbo, D., Smith, H., Burn, L., Chang, E., Boschi, A., Yuan, Y., et al. (2024) · bioRxiv · doi:10.1101/2024.02.05.578738 · Cited by 3
“2D human iPSC-derived neuronal cultures show a developmental increase in firing rates and bursting activity that may reveal disease-related phenotypes at the microscale 16,17 .”
Telpoukhovskaia, M. A., Murdy, T. J., Marola, O. J., Charland, K., MacLean, M., Luquez, T., Lish, A. M., Neuner, S. M., Dunn, A. R., Onos, K. D., et al. (2024) · Alzheimer s & Dementia Translational Research & Clinical Interventions · doi:10.1002/trc2.12458 · Cited by 2
“…stem cell (iPSC)-derived neurons from 53 religious orders study and memory aging project (ROSMAP) participants for whom deep cognitive phenotyping and brain-tissue data areavailableweredevelopedandcharacterized 45 includingindividuals cognitively resilient and susceptible to AD pathology.”
BackgroundMethodInfluentialSelf-citation
Metadata
- Authors
- Lagomarsino, V. N., Pearse, R. V., Liu, L., Hsieh, Y.-C., Fernandez, M. A., Vinton, E. A., Paull, D., Felsky, D., Tasaki, S., Gaiteri, C., Vardarajan, B., Lee, H., Muratore, C. R., Benoit, C. R., Chou, V., Fancher, S. B., He, A., Merchant, J. P., Duong, D. M., Martinez, H., Zhou, M., Bah, F., Vicent, M. A., Stricker, J. M. S., Xu, J., Dammer, E. B., Levey, A. I., Chibnik, L. B., Menon, V., Seyfried, N. T., De Jager, P. L., Noggle, S., Selkoe, D. J., Bennett, D. A., & Young-Pearse, T. L.
- Affiliations
- Brigham and Women's Hospital (US)
- New York Stem Cell Foundation (US)
- Centre for Addiction and Mental Health (CA)
- Rush University Medical Center (US)
- Columbia University Irving Medical Center (US)
- Emory University (US)
- Harvard University (US)
- ORCID
- Lagomarsino, Valentina N.
- Pearse, Richard V.
- Liu, Lei
- Hsieh, Yi-Chen
- Fernandez, Marty A.
- Vinton, Elizabeth A.
- Paull, Daniel
- Felsky, Daniel
- Tasaki, Shinya
- Gaiteri, Chris
- Vardarajan, Badri
- Lee, Hyo
- Benoit, Courtney R.
- Chou, Vicky
- Merchant, Julie P.
- Duong, Duc M.
- Stricker, Jonathan M.S.
- Xu, Jishu
- Dammer, Eric B.
- Levey, Allan I.
- Chibnik, Lori B.
- Menon, Vilas
- Seyfried, Nicholas T.
- Noggle, Scott
- Selkoe, Dennis J.
- Bennett, David A.
- Venue
- Neuron
- Publisher
- Elsevier BV
- Published
- 2021-11
- Volume
- 109
- Issue
- 21
- Pages
- 3402-3420.e9
- ISSN
- 0896-6273 (ISSN-L)
- PMC
- PMC8571042
- OpenAlex
- W3198364341
- Cited by
- 151
- References
- 73
- Citations by year
- 2026: 15 · 2025: 37 · 2024: 36 · 2023: 37 · 2022: 20 · 2021: 6
- FWCI
- 16.97
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Licence
- www.elsevier.com/tdm/userlicense/1.0/ (tdm)
- www.elsevier.com/legal/tdmrep-license (tdm)
- www.elsevier.com/open-access/userlicense/1.0/ (vor, 367 d)
- doi.org/10.15223/policy-017 (stm-asf)
- doi.org/10.15223/policy-037 (stm-asf)
- doi.org/10.15223/policy-012 (stm-asf)
- doi.org/10.15223/policy-029 (stm-asf)
- doi.org/10.15223/policy-004 (stm-asf)
- Locations
- Neuron (publishedVersion)
- PubMed (publishedVersion)
- PubMed Central (acceptedVersion)
- Funders
- National Institutes of Health (R21MH118576, R01AG055909, RF1AG057440, R01AG061798, U01AG046170, R21AG056011, U01AG061356, R01NS117446, R01AG061894)
- National Institute on Aging (R01AG30146, R01AG36836, U01AG32984, U01AG46152, R01AG15819, R01AG017917, P30AG10161)
- New York Stem Cell Foundation
- Lawrence Ellison Foundation
- Illinois Department of Public Health
- Topics
- Life Sciences › Neuroscience › Cellular and Molecular Neuroscience › Alzheimer's disease research and treatments
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Pluripotent Stem Cells Research
- Health Sciences › Medicine › Psychiatry and Mental health › Dementia and Cognitive Impairment Research
- Keywords
- Alzheimer's disease, iPSC-derived neurons, genetic risk, amyloid-beta, tau protein, amyloid plaques, neurofibrillary tangles, cognitive decline, neuropathology, proteomic profiling, RNA profiling, protein networks, brain tissue
- MeSH terms
- Aged, Alzheimer Disease, Cognition, Humans, Neurons, Amyloid beta-Peptides, tau Proteins, Proteomics, Induced Pluripotent Stem Cells
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