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Identification of DEAD-Box RNA Helicase DDX41 as a Trafficking Protein That Involves in Multiple Innate Immune Signaling Pathways in a Zebrafish Model

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Single Cell/Nucleus Transcriptomics Comparison in Zebrafish and Humans Reveals Common and Distinct Molecular Responses to Alzheimer’s Disease

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Zebrafish as a Promising Tool for Modeling Neurotoxin-Induced Alzheimer’s Disease

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Diving into the streams and waves of constitutive and regenerative olfactory neurogenesis: insights from zebrafish

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Zebrafish: A Model Deciphering the Impact of Flavonoids on Neurodegenerative Disorders

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Using zebrafish to understand reciprocal interactions between the nervous and immune systems and the microbial world

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KYNA/Ahr Signaling Suppresses Neural Stem Cell Plasticity and Neurogenesis in Adult Zebrafish Model of Alzheimer’s Disease

Siddiqui, T., Bhattarai, P., Popova, S. D., Coşacak, M. İ., Sariya, S., Zhang, Y., Mayeux, R. P., Tosto, G., & Kızıl, Ç. (2021) · Cells · doi:10.3390/cells10102748 · Cited by 27 · see citing works

PLASTAMINATION: Outcomes on the Central Nervous System and Reproduction

Santoro, A., Marino, M., Vandenberg, L. N., Szychlinska, M. A., Lamparelli, E. P., Scalia, F., Rocca, N. D., D’Auria, R., Pastorino, G. M. G., Porta, G. D., et al. (2024) · Current Neuropharmacology · doi:10.2174/1570159x22666240216085947 · Cited by 28 · see citing works

Neuronal IL ‐4Rα modulates neuronal apoptosis and cell viability during the acute phases of cerebral ischemia

Lee, H. K., Koh, S., Lo, D. C., & Marchuk, D. A. (2018) · FEBS Journal · doi:10.1111/febs.14498 · Cited by 26 · see citing works

Type 1 Interleukin-4 Signaling Obliterates Mouse Astroglia in vivo but Not in vitro

Mashkaryan, V., Siddiqui, T., Popova, S. D., Coşacak, M. İ., Bhattarai, P., Brandt, K., Govindarajan, N., Petzold, A., Reinhardt, S., Dahl, A., et al. (2020) · Frontiers in Cell and Developmental Biology · doi:10.3389/fcell.2020.00114 · Cited by 27 · see citing works

Discovery of Potent Cholinesterase Inhibition-Based Multi-Target-Directed Lead Compounds for Synaptoprotection in Alzheimer’s Disease

Turgutalp, B., Bhattarai, P., Erçeti̇n, T., Luise, C., Reis, R., Gürdal, E. E., Isaak, A., Biriken, D., Dinter, E., Si̇pahi̇, H., et al. (2022) · Journal of Medicinal Chemistry · doi:10.1021/acs.jmedchem.2c01003 · Cited by 26 · see citing works

Extended genome‐wide association study employing the African genome resources panel identifies novel susceptibility loci for Alzheimer's disease in individuals of African ancestry

Ray, N. R., Kunkle, B. W., Hamilton‐Nelson, K. L., Kurup, J. T., Rajabli, F., Qiao, M., Vardarajan, B. N., Coşacak, M. İ., Kızıl, Ç., Jean‐Francois, M. N., et al. (2024) · Alzheimer s & Dementia · doi:10.1002/alz.13880 · Cited by 26 · see citing works

Zebrafish as an Experimental and Preclinical Model for Alzheimer’s Disease

Bhattarai, P., Turgutalp, B., & Kızıl, Ç. (2022) · ACS Chemical Neuroscience · doi:10.1021/acschemneuro.2c00583 · Cited by 25 · see citing works

Early-Life Stress Regulates Cardiac Development through an IL-4-Glucocorticoid Signaling Balance

Apaydin, D. C., Jaramillo, P. A. M., Corradi, L., Cosco, F., Rathjen, F. G., Kammertoens, T., Filosa, A., & Sawamiphak, S. (2020) · Cell Reports · doi:10.1016/j.celrep.2020.108404 · Cited by 24 · see citing works

Modeling Neuroregeneration and Neurorepair in an Aging Context: The Power of a Teleost Model

houcke, J. V., Mariën, V., Zandecki, C., Seuntjens, E., Ayana, R., & Arckens, L. (2021) · Frontiers in Cell and Developmental Biology · doi:10.3389/fcell.2021.619197 · Cited by 23 · see citing works

Trehalose Treatment in Zebrafish Model of Lafora Disease

Vecchia, S. D., Ogi, A., Licitra, R., Abramo, F., Nardi, G., Mero, S., Landi, S., Battini, R., Sicca, F., Ratto, G. M., et al. (2022) · International Journal of Molecular Sciences · doi:10.3390/ijms23126874 · Cited by 23 · see citing works

Role of the immune response in initiating central nervous system regeneration in vertebrates: learning from the fish

Bosak, V., Murata, K., Bludau, O., & Brand, M. (2018) · The International Journal of Developmental Biology · doi:10.1387/ijdb.180033vb · Cited by 23 · see citing works

The Kynurenine Pathway, Aryl Hydrocarbon Receptor, and Alzheimer’s Disease

Cortés-Malagón, E. M., Ornelas, A. L., Olvera‐Gómez, I., & Bonilla‐Delgado, J. (2024) · Brain Sciences · doi:10.3390/brainsci14090950 · Cited by 25 · see citing works

Mechanisms of Pathology-Induced Neural Stem Cell Plasticity and Neural Regeneration in Adult Zebrafish Brain

Kızıl, Ç. (2018) · Current Pathobiology Reports · doi:10.1007/s40139-018-0158-x · Cited by 23 · see citing works

Microglia across evolution: from conserved origins to functional divergence

Shimizu, T., & Prinz, M. (2025) · Cellular and Molecular Immunology · doi:10.1038/s41423-025-01368-6 · Cited by 26 · see citing works

Neuroglia Cells Transcriptomic in Brain Development, Aging and Neurodegenerative Diseases

Pinosanu, L. R., Căpitănescu, B., Glăvan, D., Godeanu, S., Fernández‐Cadenas, I., Doeppner, T. R., Hermann, D. M., Bălşeanu, T. A., Cătălin, B., & Popa‐Wagner, A. (2022) · Aging and Disease · doi:10.14336/ad.2022.0621 · Cited by 22 · see citing works

Microalgae Aurantiochytrium Sp. Increases Neurogenesis and Improves Spatial Learning and Memory in Senescence-Accelerated Mouse-Prone 8 Mice

Sasaki, K., Geribaldi‐Doldán, N., Wu, Q., Davies, J., Szele, F. G., & Isoda, H. (2021) · Frontiers in Cell and Developmental Biology · doi:10.3389/fcell.2020.600575 · Cited by 20 · see citing works

A Model of Discovery: The Role of Imaging Established and Emerging Non-mammalian Models in Neuroscience

Haynes, E. M., Ulland, T. K., & Eliceiri, K. W. (2022) · Frontiers in Molecular Neuroscience · doi:10.3389/fnmol.2022.867010 · Cited by 21 · see citing works

Is Alzheimer’s Also a Stem Cell Disease? – The Zebrafish Perspective

Kızıl, Ç., & Bhattarai, P. (2018) · Frontiers in Cell and Developmental Biology · doi:10.3389/fcell.2018.00159 · Cited by 19 · see citing works

Transcriptome Analyses Reveal IL6/Stat3 Signaling Involvement in Radial Glia Proliferation After Stab Wound Injury in the Adult Zebrafish Optic Tectum

Shimizu, Y., Kiyooka, M., & Ohshima, T. (2021) · Frontiers in Cell and Developmental Biology · doi:10.3389/fcell.2021.668408 · Cited by 19 · see citing works

Effect on Osteogenic Differentiation of Genetically Modified IL4 or PDGF-BB Over-Expressing and IL4-PDGF-BB Co-Over-Expressing Bone Marrow-Derived Mesenchymal Stromal Cells In Vitro

Tsubosaka, M., Maruyama, M., Huang, E. E., Zhang, N., Utsunomiya, T., Gao, Q., Shen, H., Li, X., Kushioka, J., Hirata, H., et al. (2021) · Bioengineering · doi:10.3390/bioengineering8110165 · Cited by 19 · see citing works

Ankle2 deficiency-associated microcephaly and spermatogenesis defects in zebrafish are alleviated by heterozygous deletion of vrk1

Sebastian, W. A., Shiraishi, H., Shimizu, N., Umeda, R., Lai, S., Ikeuchi, M., Morisaki, I., Yano, S., Yoshimura, A., Hanada, R., et al. (2022) · Biochemical and Biophysical Research Communications · doi:10.1016/j.bbrc.2022.07.070 · Cited by 18 · see citing works

ABCA7-dependent induction of neuropeptide Y is required for synaptic resilience in Alzheimer’s disease through BDNF/NGFR signaling

Tayran, H., Yılmaz, E., Bhattarai, P., Min, Y., Wang, X., Ma, Y., Wang, N., Jeong, I., Nelson, N. N., Kassara, N., et al. (2024) · Cell Genomics · doi:10.1016/j.xgen.2024.100642 · Cited by 18 · see citing works

Immunization with neural‐derived peptides increases neurogenesis in rats with chronic spinal cord injury

Rodríguez‐Barrera, R., Flores‐Romero, A., García, E., Fernández-Presas, A. M., Abraham, D. I., Navarro-Torres, L. K., García‐Sánchez, J., Whaley, J. J. J., Madrazo, I., & Ibarra, A. (2020) · CNS Neuroscience & Therapeutics · doi:10.1111/cns.13368 · Cited by 18 · see citing works

Distribution of microglia/immune cells in the brain of adult zebrafish in homeostatic and regenerative conditions: Focus on oxidative stress during brain repair

Narra, S. S., Rondeau, P., Fernezelian, D., Gence, L., Ghaddar, B., Bourdon, E., d’Hellencourt, C. L., Rastegar, S., & Diotel, N. (2022) · The Journal of Comparative Neurology · doi:10.1002/cne.25421 · Cited by 17 · see citing works

Zebra-Fishing for Regenerative Awakening in Mammals

Massoz, L., Dupont, M. A., & Manfroid, I. (2021) · Biomedicines · doi:10.3390/biomedicines9010065 · Cited by 19 · see citing works

Adult Neurogenesis of Teleost Fish Determines High Neuronal Plasticity and Regeneration

Pushchina, E. V., Kapustyanov, I. A., & Kluka, G. G. (2024) · International Journal of Molecular Sciences · doi:10.3390/ijms25073658 · Cited by 16 · see citing works

Fish Models for Exploring Mitochondrial Dysfunction Affecting Neurodegenerative Disorders

Otsuka, T., & Matsui, H. (2023) · International Journal of Molecular Sciences · doi:10.3390/ijms24087079 · Cited by 17 · see citing works

Microglial depletion after brain injury prolongs inflammation and impairs brain repair, adult neurogenesis and pro‐regenerative signaling

Kanagaraj, P., Chen, J. Y., Skaggs, K., Qadeer, Y., Connors, M., Cutler, N. S., Richmond, J., Kommidi, V., Poles, A., Affrunti, D., et al. (2023) · Glia · doi:10.1002/glia.24444 · Cited by 24 · see citing works

Decoding the role of zebrafish neuroglia in CNS disease modeling

Zabegalov, K. N., Wang, D., Yang, L., Wang, J., Hu, G., Serikuly, N., Alpyshov, E. T., Khatsko, S. L., Zhdanov, A., Demin, K. A., et al. (2020) · Brain Research Bulletin · doi:10.1016/j.brainresbull.2020.09.020 · Cited by 16 · see citing works

A pharmacological toolkit for human microglia identifies Topoisomerase I inhibitors as immunomodulators for Alzheimer’s diseasePreprint

Haage, V. C., Tuddenham, J. F., Comandante-Lou, N., Bautista, A. R., Monzel, A. S., Chiu, R., Fujita, M., Garcia, F. G., Bhattarai, P., Patel, R., et al. (2024) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2024.02.06.579103 · Cited by 15 · see citing works

Single‐cell transcriptomics analysis of cellular heterogeneity and immune mechanisms in neurodegenerative diseases

He, Z., Chen, Q., Wang, K., Lin, J., Peng, Y., Zhang, J., Yan, X., & Yan, J. (2024) · European Journal of Neuroscience · doi:10.1111/ejn.16242 · Cited by 17 · see citing works

Granulins Regulate Aging Kinetics in the Adult Zebrafish Telencephalon

Zambusi, A., Burhan, Ö. P., Giaimo, R. D., Schmid, B., & Ninkovic, J. (2020) · Cells · doi:10.3390/cells9020350 · Cited by 15 · see citing works

Production, Mechanisms, and Therapeutic Strategies of Tryptophan Metabolites in CNS Diseases

Shi, C., Dong, J., Hui, X., Xu, Z., Zhao, Z., & Dong, L. (2025) · Molecular Neurobiology · doi:10.1007/s12035-025-05538-5 · Cited by 19 · see citing works

Protocol for Dissection and Dissociation of Zebrafish Telencephalon for Single-Cell Sequencing

Coşacak, M. İ., Bhattarai, P., & Kızıl, Ç. (2020) · STAR Protocols · doi:10.1016/j.xpro.2020.100042 · Cited by 14 · see citing works

Vertebrate brain regeneration – a community effort of fate-restricted precursor cell types

Lange, C. M., & Brand, M. (2020) · Current Opinion in Genetics & Development · doi:10.1016/j.gde.2020.06.014 · Cited by 14 · see citing works

Interleukin 4 Affects Epilepsy by Regulating Glial Cells: Potential and Possible Mechanism

Chen, L., Zhu, L., Lu, D., Wu, Z., Han, Y., Xu, P., Chang, L., & Wu, Q. (2020) · Frontiers in Molecular Neuroscience · doi:10.3389/fnmol.2020.554547 · Cited by 14 · see citing works

Designing neuroreparative strategies using aged regenerating animal models

Vanhunsel, S., Beckers, A. M., & Moons, L. (2020) · Ageing Research Reviews · doi:10.1016/j.arr.2020.101086 · Cited by 14 · see citing works

Uncovering the spectrum of adult zebrafish neural stem cell cycle regulators

Caron, A., Trzuskot, L., & Lindsey, B. W. (2022) · Frontiers in Cell and Developmental Biology · doi:10.3389/fcell.2022.941893 · Cited by 13 · see citing works

Long‐term and in vivo assessment of Aβ protein‐induced brain atrophy in a zebrafish model by optical coherence tomography

Lin, Y., Chen, T., Mao, G., Qiu, T. H., Lan, Y., Xiang, X., Huang, J., Huang, J. L., Lu, T. Y., Gan, S., et al. (2020) · Journal of Biophotonics · doi:10.1002/jbio.202000067 · Cited by 14 · see citing works

Elemental and Configural Associative Learning in Spatial Tasks: Could Zebrafish be Used to Advance Our Knowledge?

Buatois, A., & Gerlai, R. T. (2020) · Frontiers in Behavioral Neuroscience · doi:10.3389/fnbeh.2020.570704 · Cited by 13 · see citing works

Differential Clearance of Aβ Species from the Brain by Brain Lymphatic Endothelial Cells in Zebrafish

Jeong, Y.-M., Lee, J. G., Cho, H.-J., Lee, W. S., Jeong, J., & Lee, J.-S. (2021) · International Journal of Molecular Sciences · doi:10.3390/ijms222111883 · Cited by 15 · see citing works

Beyond the classical amyloid hypothesis in Alzheimer's disease: Molecular insights into current concepts of pathogenesis, therapeutic targets, and study models

Theerasri, A., Janpaijit, S., Tencomnao, T., & Prasansuklab, A. (2022) · WIREs Mechanisms of Disease · doi:10.1002/wsbm.1591 · Cited by 13 · see citing works

APOE- ε4-induced Fibronectin at the blood-brain barrier is a conserved pathological mediator of disrupted astrocyte-endothelia interaction in Alzheimer’s diseasePreprint

Bhattarai, P., Yılmaz, E., Cakir, E. Ö., Yüceer, H., Lee, A., Ma, Y., Çelikkaya, H., Coşacak, M. İ., Haage, V. C., Wang, X., et al. (2025) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2025.01.24.634732 · Cited by 12 · see citing works

Effect of nonsense-mediated mRNA decay factor SMG9 deficiency on premature aging in zebrafish

Lai, S., Shiraishi, H., Sebastian, W. A., Shimizu, N., Umeda, R., Ikeuchi, M., Kiyota, K., Takeno, T., Miyazaki, S., Yano, S., et al. (2024) · Communications Biology · doi:10.1038/s42003-024-06356-6 · Cited by 11 · see citing works

Wnt/β-catenin Signaling in Central Nervous System Regeneration

Nazli, D., Bora, U., & Özhan, G. (2024) · Advances in experimental medicine and biology · doi:10.1007/5584_2024_830 · Cited by 12 · see citing works

Decoding the molecular, cellular, and functional heterogeneity of zebrafish intracardiac nervous system

Pedroni, A., Yılmaz, E., Vecchio, L. D., Bhattarai, P., Vidal, I. T., Dai, Y.-W. E., Koutsogiannis, K., Kızıl, Ç., & Ampatzis, K. (2024) · Nature Communications · doi:10.1038/s41467-024-54830-w · Cited by 11 · see citing works

Three-Dimensional Biohybrid StarPEG–Heparin Hydrogel Cultures for Modeling Human Neuronal Development and Alzheimer’s Disease Pathology

Siddiqui, T., Çelikkaya, H., Atasavum, Z. T., Popova, S. D., Freudenberg, U., Werner, C., & Kızıl, Ç. (2022) · Methods in molecular biology · doi:10.1007/978-1-0716-2655-9_8 · Cited by 9 · see citing works

Alterations in immune cell heterogeneities in the brain of aged zebrafish using single-cell resolution

He, J., Zhao, F., Chen, B., Cui, N., Li, Z., Qin, J., Luo, L., Zhao, C., & Li, L. (2023) · Science China Life Sciences · doi:10.1007/s11427-021-2223-4 · Cited by 9 · see citing works

The effects of aging on Amyloid-β42-induced neurodegeneration and regeneration in adult zebrafish brain

Bhattarai, P., Thomas, A. K., Zhang, Y., & Kızıl, Ç. (2017) · Neurogenesis · doi:10.1080/23262133.2017.1322666 · Cited by 76 · see citing works

Identification of a novel mechanism controlling neural stem cell plasticity in Alzheimer's disease model of adult zebrafish using single cell transcriptomics

Kızıl, Ç. (2019) · DZNE Pub

Single-cell transcriptomics analyses of neural stem cell heterogeneity and contextual plasticity in a zebrafish brain model of amyloid toxicity

Cosacak, M. I., Bhattarai, P., Reinhardt, S., Petzold, A., Dahl, A., Zhang, Y., & Kizil, C. (2019) · Cell Reports · doi:10.1016/j.celrep.2019.03.090 · Cited by 116 · see citing works

Type 1 Interleukin-4 Signaling Obliterates Mouse Astroglia in vivo but Not in vitro

Mashkaryan, V., Siddiqui, T., Popova, S. D., Coşacak, M. İ., Bhattarai, P., Brandt, K., Govindarajan, N., Petzold, A., Reinhardt, S., Dahl, A., et al. (2020) · Frontiers in Cell and Developmental Biology · doi:10.3389/fcell.2020.00114 · Cited by 27 · see citing works

Neuron-glia interaction through Serotonin-BDNF-NGFR axis enables regenerative neurogenesis in Alzheimer’s model of adult zebrafish brain

Bhattarai, P., Coşacak, M. İ., Mashkaryan, V., Demir, S., Popova, S. D., Govindarajan, N., Brandt, K., Zhang, Y., Chang, W., Ampatzis, K., et al. (2020) · PLoS Biology · doi:10.1371/journal.pbio.3000585 · Cited by 119 · see citing works