Reliability of human cortical organoid generation

STAR: ultrafast universal RNA-seq aligner

Dobin, A., Davis, C. A., Schlesinger, F., Drenkow, J., Zaleski, C., Jha, S., Batut, P., Chaisson, M., & Gingeras, T. R. (2013) · Bioinformatics · doi:10.1093/bioinformatics/bts635 · Cited by 51,709

<tt>edgeR</tt> : a Bioconductor package for differential expression analysis of digital gene expression data

Robinson, M. D., McCarthy, D. J., & Smyth, G. K. (2010) · Bioinformatics · doi:10.1093/bioinformatics/btp616 · Cited by 41,364

limma powers differential expression analyses for RNA-sequencing and microarray studies

Ritchie, M. E., Phipson, B., Wu, D., Hu, Y., Law, C. W., Shi, W., & Smyth, G. K. (2015) · Nucleic Acids Research · doi:10.1093/nar/gkv007 · Cited by 40,458

PLINK: a tool set for whole-genome association and population-based linkage analyses.

Purcell, S., Neale, B., Todd-Brown, K., Thomas, L., Ferreira, M. A. R., Bender, D., Maller, J., Sklar, P., de Bakker, P. I. W., Daly, M. J., et al. (2007) · The American Journal of Human Genetics · doi:10.1086/519795 · Cited by 34,089

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

McKenna, A., Hanna, M., Banks, E., Sivachenko, A., Cibulskis, K., Kernytsky, A., Garimella, K., Altshuler, D., Gabriel, S., Daly, M., et al. (2010) · Genome Research · doi:10.1101/gr.107524.110 · Cited by 27,895

featureCounts: an efficient general purpose program for assigning sequence reads to genomic features

Liao, Y., Smyth, G. K., & Shi, W. (2014) · Bioinformatics · doi:10.1093/bioinformatics/btt656 · Cited by 27,219

RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome

Li, B., & Dewey, C. N. (2011) · BMC Bioinformatics · doi:10.1186/1471-2105-12-323 · Cited by 22,179

Adjusting batch effects in microarray expression data using empirical Bayes methods

Johnson, W. E., Li, C., & Rabinovic, A. (2007) · Biostatistics · doi:10.1093/biostatistics/kxj037 · Cited by 8,658

Cerebral organoids model human brain development and microcephaly

Lancaster, M. A., Renner, M., Martin, C.-A., Wenzel, D., Bicknell, L. S., Hurles, M. E., Homfray, T., Penninger, J. M., Jackson, A. P., & Knoblich, J. A. (2013) · Nature · doi:10.1038/nature12517 · Cited by 5,372

Brain-Region-Specific Organoids Using Mini-bioreactors for Modeling ZIKV Exposure

Qian, X., Nguyen, H. N., Song, M. M., Hadiono, C., Ogden, S. C., Hammack, C., Yao, B., Hamersky, G. R., Jacob, F., Zhong, C., et al. (2016) · Cell · doi:10.1016/j.cell.2016.04.032 · Cited by 2,127

Individual brain organoids reproducibly form cell diversity of the human cerebral cortex

Velasco, S., Kedaigle, A. J., Simmons, S. K., Nash, A., Rocha, M., Quadrato, G., Paulsen, B., Nguyen, L., Adiconis, X., Regev, A., et al. (2019) · Nature · doi:10.1038/s41586-019-1289-x · Cited by 1,094

Complex Oscillatory Waves Emerging from Cortical Organoids Model Early Human Brain Network Development

Trujillo, C. A., Gao, R., Negraes, P. D., Gu, J., Buchanan, J., Preissl, S., Wang, A., Wu, W., Haddad, G. G., Chaim, I. A., et al. (2019) · Cell Stem Cell · doi:10.1016/j.stem.2019.08.002 · Cited by 974

Brain organoids: advances, applications and challenges

Qian, X., Song, H., & Ming, G.-L. (2019) · Development · doi:10.1242/dev.166074 · Cited by 724

Generation of Functional Human 3D Cortico-Motor Assembloids

Andersen, J., Revah, O., Miura, Y., Thom, N., Amin, N. D., Kelley, K. W., Singh, M., Chen, X., Thete, M. V., Walczak, E. M., et al. (2020) · Cell · doi:10.1016/j.cell.2020.11.017 · Cited by 593

Maturation and circuit integration of transplanted human cortical organoids

Revah, O., Gore, F., Kelley, K. W., Andersen, J., Sakai, N., Chen, X., Li, M.-Y., Birey, F., Yang, X., Saw, N. L., et al. (2022) · Nature · doi:10.1038/s41586-022-05277-w · Cited by 504

Generation of human striatal organoids and cortico-striatal assembloids from human pluripotent stem cells

Miura, Y., Li, M.-Y., Birey, F., Ikeda, K., Revah, O., Thete, M. V., Park, J.-Y., Puno, A., Lee, S. H., Porteus, M. H., et al. (2020) · Nature Biotechnology · doi:10.1038/s41587-020-00763-w · Cited by 431

Engineered materials for organoid systems

Kratochvil, M. J., Seymour, A. J., Li, T. L., Pașca, S. P., Kuo, C. J., & Heilshorn, S. C. (2019) · Nature Reviews Materials · doi:10.1038/s41578-019-0129-9 · Cited by 430

Towards organoid culture without Matrigel

Kozlowski, M. T., Crook, C. J., & Ku, H. T. (2021) · Communications Biology · doi:10.1038/s42003-021-02910-8 · Cited by 409

Vascularized human cortical organoids (vOrganoids) model cortical development in vivo

Shi, Y., Sun, L., Liu, J., Zhong, S., Wang, M., Li, R., Li, P., Guo, L., Fang, A., Chen, R., et al. (2020) · PLoS Biology · doi:10.1371/journal.pbio.3000705 · Cited by 412

Differentiation and maturation of oligodendrocytes in human three-dimensional neural cultures

Marton, R. M., Miura, Y., Sloan, S. A., Li, Q., Revah, O., Levy, R. J., Huguenard, J. R., & Pașca, S. P. (2019) · Nature Neuroscience · doi:10.1038/s41593-018-0316-9 · Cited by 362

Long-term maturation of human cortical organoids matches key early postnatal transitions

Gordon, A., Yoon, S., Tran, S. S., Makinson, C. D., Park, J. Y., Andersen, J., Valencia, A. M., Horvath, S., Xiao, X. G., Huguenard, J. R., et al. (2021) · Nature Neuroscience · doi:10.1038/s41593-021-00802-y · Cited by 361

Brain organoids for the study of human neurobiology at the interface of in vitro and in vivo

Chiaradia, I., & Lancaster, M. A. (2020) · Nature Neuroscience · doi:10.1038/s41593-020-00730-3 · Cited by 360

Mouse embryonic stem cells self-organize into trunk-like structures with neural tube and somites

Veenvliet, J. V., Bolondi, A., Kretzmer, H., Haut, L., Scholze‐Wittler, M., Schifferl, D., Koch, F., Guignard, L., Kumar, A. S., Pustet, M., et al. (2020) · Science · doi:10.1126/science.aba4937 · Cited by 318

Lipid accumulation induced by APOE4 impairs microglial surveillance of neuronal-network activity

Victor, M. B., Leary, N., Luna, X., Meharena, H. S., Scannail, A. N., Bozzelli, P. L., Samaan, G., Murdock, M. H., von Maydell, D., Effenberger, A. H., et al. (2022) · Cell Stem Cell · doi:10.1016/j.stem.2022.07.005 · Cited by 316

Human cerebral organoids — a new tool for clinical neurology research

Eichmüller, O. L., & Knoblich, J. A. (2022) · Nature Reviews Neurology · doi:10.1038/s41582-022-00723-9 · Cited by 319

Chromatin accessibility dynamics in a model of human forebrain development

Trevino, A. E., Sinnott-Armstrong, N., Andersen, J., Yoon, S.-J., Huber, N., Pritchard, J. K., Chang, H. Y., Greenleaf, W. J., & Pașca, S. P. (2020) · Science · doi:10.1126/science.aay1645 · Cited by 251

Proper acquisition of cell class identity in organoids allows definition of fate specification programs of the human cerebral cortex

Uzquiano, A., Kedaigle, A. J., Pigoni, M., Paulsen, B. D. S., Adiconis, X., Kim, K., Faits, T., Nagaraja, S., Antón-Bolaños, N., Gerhardinger, C., et al. (2022) · Cell · doi:10.1016/j.cell.2022.09.010 · Cited by 257

Organoid and Assembloid Technologies for Investigating Cellular Crosstalk in Human Brain Development and Disease

Marton, R. M., & Pașca, S. P. (2019) · Trends in Cell Biology · doi:10.1016/j.tcb.2019.11.004 · Cited by 253

Mechanisms of hyperexcitability in Alzheimer’s disease hiPSC-derived neurons and cerebral organoids vs isogenic controls

Ghatak, S., Dolatabadi, N., Trudler, D., Zhang, X., Wu, Y., Mohata, M., Ambasudhan, R., Talantova, M., & Lipton, S. A. (2019) · eLife · doi:10.7554/elife.50333 · Cited by 227

Synthetic Analyses of Single-Cell Transcriptomes from Multiple Brain Organoids and Fetal Brain

Tanaka, Y., Çakır, B., Xiang, Y., Sullivan, G. J., & Park, I. (2020) · Cell Reports · doi:10.1016/j.celrep.2020.01.038 · Cited by 244

Human brain organogenesis: Toward a cellular understanding of development and disease

Kelley, K. W., & Pașca, S. P. (2021) · Cell · doi:10.1016/j.cell.2021.10.003 · Cited by 244

Cyborg Organoids: Implantation of Nanoelectronics via Organogenesis for Tissue-Wide Electrophysiology

Li, Q., Nan, K., Le Floch, P., Lin, Z., Sheng, H., Blum, T. S., & Liu, J. (2019) · Nano Letters · doi:10.1021/acs.nanolett.9b02512 · Cited by 224

A logical network-based drug-screening platform for Alzheimer’s disease representing pathological features of human brain organoids

Park, J., Jang, S., Lee, D., Lee, J.-H., Kang, U., Chang, H., Kim, H. J., Han, S.-H., Seo, J., Choi, M., et al. (2021) · Nature Communications · doi:10.1038/s41467-020-20440-5 · Cited by 227

Bioengineering Approaches for the Advanced Organoid Research

Yi, S. A., Zhang, Y., Rathnam, C., Pongkulapa, T., & Lee, K. (2021) · Advanced Materials · doi:10.1002/adma.202007949 · Cited by 218

Advancing cell therapy for neurodegenerative diseases

Temple, S. (2023) · Cell stem cell · doi:10.1016/j.stem.2023.03.017 · Cited by 221

Modeling Sporadic Alzheimer's Disease in Human Brain Organoids under Serum Exposure

Chen, X., Sun, G., Tian, E., Zhang, M., Davtyan, H., Beach, T. G., Reiman, E. M., Blurton‐Jones, M., Holtzman, D. M., & Shi, Y. (2021) · Advanced Science · doi:10.1002/advs.202101462 · Cited by 200

Neuronal defects in a human cellular model of 22q11.2 deletion syndrome

Khan, T. A., Revah, O., Gordon, A., Yoon, S.-J., Krawisz, A. K., Goold, C., Sun, Y., Kim, C. H., Tian, Y., Li, M.-Y., et al. (2020) · Nature Medicine · doi:10.1038/s41591-020-1043-9 · Cited by 186

Engineering brain assembloids to interrogate human neural circuits

Miura, Y., Li, M.-Y., Revah, O., Yoon, S., Narazaki, G., & Pașca, S. P. (2022) · Nature Protocols · doi:10.1038/s41596-021-00632-z · Cited by 184

Human ALS/FTD brain organoid slice cultures display distinct early astrocyte and targetable neuronal pathology

Szebényi, K., Wenger, L. M. D., Sun, Y., Dunn, A. W., Limegrover, C. A., Gibbons, G. M., Conci, E., Paulsen, O., Mierau, S. B., Balmus, G., et al. (2021) · Nature Neuroscience · doi:10.1038/s41593-021-00923-4 · Cited by 185

Production of human spinal-cord organoids recapitulating neural-tube morphogenesis

Lee, J., Shin, H., Shaker, M. R., Kim, H. J., Park, S.-H., Kim, J. H., Lee, N., Kang, M., Cho, S., Kwak, T. H., et al. (2022) · Nature Biomedical Engineering · doi:10.1038/s41551-022-00868-4 · Cited by 179

ELAVL4, splicing, and glutamatergic dysfunction precede neuron loss in MAPT mutation cerebral organoids

Bowles, K. R., Silva, M. C., Whitney, K., Bertucci, T., Berlind, J. E., Lai, J. D., Garza, J. C., Boles, N. C., Mahali, S., Strang, K. H., et al. (2021) · Cell · doi:10.1016/j.cell.2021.07.003 · Cited by 175

Human 3D cellular model of hypoxic brain injury of prematurity

Pașca, A. M., Park, J.-Y., Shin, H.-W., Qi, Q., Revah, O., Krasnoff, R., O’Hara, R., Willsey, A. J., Palmer, T. D., & Pașca, S. P. (2019) · Nature Medicine · doi:10.1038/s41591-019-0436-0 · Cited by 174

A human tissue screen identifies a regulator of ER secretion as a brain-size determinant

Esk, C., Lindenhofer, D., Haendeler, S., Wester, R. A., Pflug, F., Schroeder, B., Bagley, J. A., Elling, U., Zuber, J., von Haeseler, A., et al. (2020) · Science · doi:10.1126/science.abb5390 · Cited by 170

An integrated transcriptomic cell atlas of human neural organoids

He, Z., Dony, L., Fleck, J. S., Szałata, A., Li, K. X., Slišković, I., Lin, H., Santel, M., Atamian, A., Quadrato, G., et al. (2024) · Nature · doi:10.1038/s41586-024-08172-8 · Cited by 190

Brain organoids: an ensemble of bioassays to investigate human neurodevelopment and disease

Sidhaye, J., & Knoblich, J. A. (2020) · Cell Death and Differentiation · doi:10.1038/s41418-020-0566-4 · Cited by 170

Kirigami electronics for long-term electrophysiological recording of human neural organoids and assembloids

Yang, X., Forró, C., Li, T. L., Miura, Y., Zaluska, T. J., Tsai, C., Kanton, S., McQueen, J. P., Chen, X., Mollo, V., et al. (2024) · Nature Biotechnology · doi:10.1038/s41587-023-02081-3 · Cited by 164

Stretchable Mesh Nanoelectronics for 3D Single‐Cell Chronic Electrophysiology from Developing Brain Organoids

Floch, P. L., Li, Q., Lin, Z., Zhao, S., Liu, R., Tasnim, K., Jiang, H., & Jia Liu, B. (2022) · Advanced Materials · doi:10.1002/adma.202106829 · Cited by 166

Orthogonally induced differentiation of stem cells for the programmatic patterning of vascularized organoids and bioprinted tissues

Skylar-Scott, M. A., Huang, J. Y., Lu, A., Ng, A. H. M., Duenki, T., Liu, S., Nam, L. L., Damaraju, S., Church, G. M., & Lewis, J. A. (2022) · Nature Biomedical Engineering · doi:10.1038/s41551-022-00856-8 · Cited by 160

Mitochondrial STAT3 exacerbates LPS-induced sepsis by driving CPT1a-mediated fatty acid oxidation

Li, R., Li, X., Zhao, J., Meng, F., Yao, C., Bao, E.-S., Sun, N., Chen, X., Cheng, W., Hua, H. M., et al. (2021) · Theranostics · doi:10.7150/thno.63751 · Cited by 159

Human sensorimotor organoids derived from healthy and amyotrophic lateral sclerosis stem cells form neuromuscular junctions

Pereira, J. D., DuBreuil, D. M., Devlin, A., Held, A., Sapir, Y., Berezovski, E., Hawrot, J., Dorfman, K., Chander, V., & Wainger, B. J. (2021) · Nature Communications · doi:10.1038/s41467-021-24776-4 · Cited by 159

Dissecting the molecular basis of human interneuron migration in forebrain assembloids from Timothy syndrome

Birey, F., Li, M.-Y., Gordon, A., Thete, M. V., Valencia, A. M., Revah, O., Pașca, A. M., Geschwind, D. H., & Pașca, S. P. (2022) · Cell stem cell · doi:10.1016/j.stem.2021.11.011 · Cited by 158

Spatially controlled construction of assembloids using bioprinting

Roth, J. G., Brunel, L. G., Huang, M. S., Liu, Y., Cai, B., Sinha, S., Yang, F., Pașca, S. P., Shin, S., & Heilshorn, S. C. (2023) · Nature Communications · doi:10.1038/s41467-023-40006-5 · Cited by 149

Assembloid CRISPR screens reveal impact of disease genes in human neurodevelopment

Meng, X., Yao, D., Imaizumi, K., Chen, X., Kelley, K. W., Reis, N., Thete, M. V., McKinney, A. A., Kulkarni, S., Panagiotakos, G., et al. (2023) · Nature · doi:10.1038/s41586-023-06564-w · Cited by 154

Human assembloid model of the ascending neural sensory pathway

Kim, J., Imaizumi, K., Jurjuţ, O. F., Kelley, K. W., Wang, D., Thete, M. V., Hudáčová, Z., Amin, N. D., Levy, R. J., Scherrer, G., et al. (2025) · Nature · doi:10.1038/s41586-025-08808-3 · Cited by 152

Three-dimensional modeling of human neurodegeneration: brain organoids coming of age

Grenier, K., Kao, J., & Diamandis, P. (2019) · Molecular Psychiatry · doi:10.1038/s41380-019-0500-7 · Cited by 131

Advancing models of neural development with biomaterials

Roth, J. G., Huang, M. S., Li, T. L., Feig, V. R., Jiang, Y., Cui, B., Greely, H. T., Bao, Z., Pașca, S. P., & Heilshorn, S. C. (2021) · Nature reviews. Neuroscience · doi:10.1038/s41583-021-00496-y · Cited by 122

Modeling HIV-1 neuropathogenesis using three-dimensional human brain organoids (hBORGs) with HIV-1 infected microglia

dos Reis, R. S., Sant, S., Keeney, H., Wagner, M. C. E., & Ayyavoo, V. (2020) · Scientific Reports · doi:10.1038/s41598-020-72214-0 · Cited by 115

Modeling and Targeting Alzheimer’s Disease With Organoids

Papaspyropoulos, A., Tsolaki, M., Foroglou, N., & Pantazaki, Α. A. (2020) · Frontiers in Pharmacology · doi:10.3389/fphar.2020.00396 · Cited by 107

3D Brain Organoids: Studying Brain Development and Disease Outside the Embryo

Velasco, S., Paulsen, B. D. S., & Arlotta, P. (2020) · Annual Review of Neuroscience · doi:10.1146/annurev-neuro-070918-050154 · Cited by 111

Human fetal brain self-organizes into long-term expanding organoids

Hendriks, D. F. G., Pagliaro, A., Andreatta, F., Ma, Z., van Giessen, J., Massalini, S., López‐Iglesias, C., van Son, G. J. F., DeMartino, J., Damen, M. J. A., et al. (2024) · Cell · doi:10.1016/j.cell.2023.12.012 · Cited by 108

Primate cell fusion disentangles gene regulatory divergence in neurodevelopment

Agoglia, R. M., Sun, D., Birey, F., Yoon, S., Miura, Y., Sabatini, K., Pașca, S. P., & Fraser, H. B. (2021) · Nature · doi:10.1038/s41586-021-03343-3 · Cited by 104

Modeling human telencephalic development and autism-associated SHANK3 deficiency using organoids generated from single neural rosettes

Wang, Y., Chiola, S., Yang, G., Russell, C., Armstrong, C. J., Wu, Y., Spampanato, J. G., Tarboton, P., Ullah, H. M. A., Edgar, N. U., et al. (2022) · Nature Communications · doi:10.1038/s41467-022-33364-z · Cited by 104

Upgrading the Physiological Relevance of Human Brain Organoids

Dosso, A. D., Urenda, J., Nguyen, T. N., & Quadrato, G. (2020) · Neuron · doi:10.1016/j.neuron.2020.08.029 · Cited by 106

Controllable fusion of human brain organoids using acoustofluidics

Ao, Z., Cai, H., Wu, Z., Ott, J., Wang, H., Mackie, K., & Guo, F. (2021) · Lab on a Chip · doi:10.1039/d0lc01141j · Cited by 104

Crosstalk between small-cell lung cancer cells and astrocytes mimics brain development to promote brain metastasis

Qu, F., Brough, S. C., Michno, W., Madubata, C. J., Hartmann, G. G., Puno, A., Drainas, A. P., Bhattacharya, D., Tomasich, E., Lee, M. C., et al. (2023) · Nature Cell Biology · doi:10.1038/s41556-023-01241-6 · Cited by 103

3D Bioprinting using UNIversal Orthogonal Network (UNION) Bioinks

Hull, S. M., Lindsay, C. D., Brunel, L. G., Shiwarski, D. J., Tashman, J. W., Roth, J. G., Myung, D. J., Feinberg, A. W., & Heilshorn, S. C. (2020) · Advanced Functional Materials · doi:10.1002/adfm.202007983 · Cited by 101

Cell diversity in the human cerebral cortex: from the embryo to brain organoids

Arlotta, P., & Pașca, S. P. (2019) · Current Opinion in Neurobiology · doi:10.1016/j.conb.2019.03.001 · Cited by 99

SARS-CoV-2 infection and viral fusogens cause neuronal and glial fusion that compromises neuronal activity

Martínez-Mármol, R., Giordano-Santini, R., Kaulich, E., Cho, A.-N., Przybyla, M., Riyadh, M. A., Robinson, E., Chew, K. Y., Amor, R., Meunier, F. A., et al. (2023) · Science Advances · doi:10.1126/sciadv.adg2248 · Cited by 94

Transcription Factor 4 loss-of-function is associated with deficits in progenitor proliferation and cortical neuron content

Papes, F., Camargo, A. P., de Souza, J. S., Carvalho, V. M. D. A., Szeto, R. A., LaMontagne, E., Júnior, J. R. T., Avansini, S. H., Sánchez-Sánchez, S. M., Nakahara, T. S., et al. (2022) · Nature Communications · doi:10.1038/s41467-022-29942-w · Cited by 95

Past, Present, and Future of Brain Organoid Technology.

Koo, B., Choi, B., Park, H., & Yoon, K. (2019) · Europe PMC (PubMed Central) · doi:10.14348/molcells.2019.0162 · Cited by 93

Multiscale 3D phenotyping of human cerebral organoids

Albanese, A., Swaney, J., Yun, D. H., Evans, N. B., Antonucci, J. M., Velasco, S., Sohn, C. H., Arlotta, P., Gehrke, L., & Chung, K. (2020) · Scientific Reports · doi:10.1038/s41598-020-78130-7 · Cited by 92

Enhanced cortical neural stem cell identity through short SMAD and WNT inhibition in human cerebral organoids facilitates emergence of outer radial glial cells

Rosebrock, D., Arora, S., Mutukula, N., Volkman, R., Gralinska, E., Balaskas, A., Aragonés Hernández, A., Buschow, R., Brändl, B., Müller, F.-J., et al. (2022) · Nature Cell Biology · doi:10.1038/s41556-022-00929-5 · Cited by 89

Microfluidics for Neuronal Cell and Circuit Engineering

Habibey, R., Arias, J. E. R., Striebel, J., & Busskamp, V. (2022) · Chemical Reviews · doi:10.1021/acs.chemrev.2c00212 · Cited by 88

Innovations in 3D Tissue Models of Human Brain Physiology and Diseases

Lovett, M. L., Nieland, T. J. F., Dingle, Y. L., & Kaplan, D. L. (2020) · Advanced Functional Materials · doi:10.1002/adfm.201909146 · Cited by 87

Revolutionizing Disease Modeling: The Emergence of Organoids in Cellular Systems

Silva-Pedrosa, R., Salgado, A. J., & Ferreira, P. E. (2023) · Cells · doi:10.3390/cells12060930 · Cited by 84

Middle-out methods for spatiotemporal tissue engineering of organoids

Blatchley, M. R., & Anseth, K. S. (2023) · Nature Reviews Bioengineering · doi:10.1038/s44222-023-00039-3 · Cited by 85

Aging, Cellular Senescence, and Progressive Multiple Sclerosis

Papadopoulos, D., Magliozzi, R., Mitsikostas, D. D., Gorgoulis, V. G., & Nicholas, R. S. (2020) · Frontiers in Cellular Neuroscience · doi:10.3389/fncel.2020.00178 · Cited by 80

Robust production of uniform human cerebral organoids from pluripotent stem cells

Sivitilli, A., Gosio, J., Ghoshal, B., Evstratova, A., Trcka, D., Ghiasi, P., Hernández, J. J., Beaulieu, J., Wrana, J. L., & Attisano, L. (2020) · Life Science Alliance · doi:10.26508/lsa.202000707 · Cited by 85

A critical look: Challenges in differentiating human pluripotent stem cells into desired cell types and organoids

Fowler, J. L., Ang, L. T., & Loh, K. M. (2019) · Wiley Interdisciplinary Reviews Developmental Biology · doi:10.1002/wdev.368 · Cited by 87

Generation of inner ear hair cells by direct lineage conversion of primary somatic cells

Menendez, L., Trecek, T., Gopalakrishnan, S., Tao, L., Markowitz, A. L., Yu, H. V., Wang, X., Llamas, J., Huang, C., Lee, J. D., et al. (2020) · eLife · doi:10.7554/elife.55249 · Cited by 83

Evolutionary conservation and divergence of the human brain transcriptome

Pembroke, W. G., Hartl, C., & Geschwind, D. H. (2021) · Genome biology · doi:10.1186/s13059-020-02257-z · Cited by 78

A matrigel-free method to generate matured human cerebral organoids using 3D-Printed microwell arrays

Chen, C., Rengarajan, V., Kjar, A., & Huang, Y. (2021) · Bioactive Materials · doi:10.1016/j.bioactmat.2020.10.003 · Cited by 77

Understanding Immune‐Driven Brain Aging by Human Brain Organoid Microphysiological Analysis Platform

Ao, Z., Song, S., Tian, C., Cai, H., Li, X., Miao, Y., Wu, Z., Krzesniak, J., Ning, B., Gu, M., et al. (2022) · Advanced Science · doi:10.1002/advs.202200475 · Cited by 77

Stretchable mesh microelectronics for the biointegration and stimulation of human neural organoids

Li, T. L., Liu, Y., Forró, C., Yang, X., Beker, L., Bao, Z., Cui, B., & Pașca, S. P. (2022) · Biomaterials · doi:10.1016/j.biomaterials.2022.121825 · Cited by 73

Cell-Type-Specific Impact of Glucocorticoid Receptor Activation on the Developing Brain: A Cerebral Organoid Study

Cruceanu, C., Dony, L., Krontira, A. C., Fischer, D. S., Roeh, S., Giaimo, R. D., Kyrousi, C., Kaspar, L., Arloth, J., Czamara, D., et al. (2021) · American Journal of Psychiatry · doi:10.1176/appi.ajp.2021.21010095 · Cited by 72

Generating human neural diversity with a multiplexed morphogen screen in organoids

Amin, N. D., Kelley, K. W., Kaganovsky, K., Onesto, M. M., Hao, J., Miura, Y., McQueen, J. P., Reis, N., Narazaki, G., Li, T., et al. (2024) · Cell stem cell · doi:10.1016/j.stem.2024.10.016 · Cited by 72

The Next 50 Years of Neuroscience

Altimus, C. M., Marlin, B. J., Charalambakis, N., Colón-Rodríguez, A., Glover, E. J., Izbicki, P., Johnson, A. C., Lourenco, M. V., Makinson, R. A., McQuail, J. A., et al. (2020) · Journal of Neuroscience · doi:10.1523/jneurosci.0744-19.2019 · Cited by 67

Studying Human Neurodevelopment and Diseases Using 3D Brain Organoids

Tian, A., Muffat, J., & Li, Y. (2020) · Journal of Neuroscience · doi:10.1523/jneurosci.0519-19.2019 · Cited by 68

Intracellular energy controls dynamics of stress-induced ribonucleoprotein granules

Wang, T., Tian, X., Kim, H. B., Jang, Y., Huang, Z., Na, C. H., & Wang, J. (2022) · Nature Communications · doi:10.1038/s41467-022-33079-1 · Cited by 71

Dissecting the complexities of Alzheimer disease with in vitro models of the human brain

Blanchard, J., Victor, M. B., & Tsai, L. (2021) · Nature Reviews Neurology · doi:10.1038/s41582-021-00578-6 · Cited by 68

Brain Organoids as Tools for Modeling Human Neurodevelopmental Disorders

Adams, J. W., Cugola, F. R., & Muotri, A. R. (2019) · Physiology · doi:10.1152/physiol.00005.2019 · Cited by 68

Schizophrenia-associated NRXN1 deletions induce developmental-timing- and cell-type-specific vulnerabilities in human brain organoids

Sebastian, R., Jin, K., Pavon, N., Bansal, R., Potter, A., Song, Y., Babu, J., Gabriel, R., Sun, Y., Aronow, B. J., et al. (2023) · Nature Communications · doi:10.1038/s41467-023-39420-6 · Cited by 66

Upregulation of SYNGAP1 expression in mice and human neurons by redirecting alternative splicing

Yang, R., Feng, X., Arias‐Cavieres, A., Mitchell, R. M., Polo, A., Hu, K., Zhong, R., Qi, C., Zhang, R. S., Westneat, N., et al. (2023) · Neuron · doi:10.1016/j.neuron.2023.02.021 · Cited by 66

Proteostatic regulation in neuronal compartments

Giandomenico, S. L., Alvarez‐Castelao, B., & Schuman, E. M. (2021) · Trends in Neurosciences · doi:10.1016/j.tins.2021.08.002 · Cited by 65

Pushing the boundaries of brain organoids to study Alzheimer’s disease

Cerneckis, J., Bu, G., & Shi, Y. (2023) · Trends in Molecular Medicine · doi:10.1016/j.molmed.2023.05.007 · Cited by 63

Materials Chemistry of Neural Interface Technologies and Recent Advances in Three-Dimensional Systems

Park, Y., Chung, T. S., Lee, G., & Rogers, J. A. (2021) · Chemical Reviews · doi:10.1021/acs.chemrev.1c00639 · Cited by 62

Morphogenesis and development of human telencephalic organoids in the absence and presence of exogenous extracellular matrix

Martins‐Costa, C., Pham, V. A., Sidhaye, J., Novatchkova, M., Wiegers, A., Peer, A. M., Möseneder, P., Corsini, N. S., & Knoblich, J. A. (2023) · The EMBO Journal · doi:10.15252/embj.2022113213 · Cited by 60

KCNJ2 inhibition mitigates mechanical injury in a human brain organoid model of traumatic brain injury

Lai, J. D., Berlind, J. E., Fricklas, G., Lie, C., Urenda, J., Lam, K., Maria, N. S. S., Jacobs, R. E., Yu, V. L., Zhao, Z., et al. (2024) · Cell stem cell · doi:10.1016/j.stem.2024.03.004 · Cited by 58

How well do brain organoids capture your brain?

Kim, J., Sullivan, G. J., & Park, I. (2021) · iScience · doi:10.1016/j.isci.2021.102063 · Cited by 59

Dissecting Alzheimer's disease pathogenesis in human 2D and 3D models

Cenini, G., Hebisch, M., Iefremova, V., Flitsch, L. J., Breitkreuz, Y., Tanzi, R. E., Kim, D. Y., Peitz, M., & Brüstle, O. (2020) · Molecular and Cellular Neuroscience · doi:10.1016/j.mcn.2020.103568 · Cited by 60

Brain Organoids as Model Systems for Genetic Neurodevelopmental Disorders

Baldassari, S., Musante, I., Iacomino, M., Zara, F., Salpietro, V., & Scudieri, P. (2020) · Frontiers in Cell and Developmental Biology · doi:10.3389/fcell.2020.590119 · Cited by 59

Modeling of Hypoxic Brain Injury through 3D Human Neural Organoids

Kim, M. S., Kim, D., Kang, H. K., Kook, M. G., Choi, S. W., & Kang, K. (2021) · Cells · doi:10.3390/cells10020234 · Cited by 55

Magnetically reshapable 3D multi-electrode arrays of liquid metals for electrophysiological analysis of brain organoids

Kim, E., Jeong, E., Hong, Y., Jeong, I., Kim, J.-H., Kwon, Y. W., Park, Y., Lee, J., Choi, S., Kim, J., et al. (2025) · Nature Communications · doi:10.1038/s41467-024-55752-3 · Cited by 67

Biomaterials and Culture Systems for Development of Organoid and Organ-on-a-Chip Models

D’Costa, K. A., Kosic, M., Lam, A., Moradipour, A., Zhao, Y., & Radisic, M. (2020) · Annals of Biomedical Engineering · doi:10.1007/s10439-020-02498-w · Cited by 54

Cerebral organoids as tools to identify the developmental roots of autism

Chan, W. K., Griffiths, R., Price, D. J., & Mason, J. O. (2020) · Molecular Autism · doi:10.1186/s13229-020-00360-3 · Cited by 58

JMX0207, a Niclosamide Derivative with Improved Pharmacokinetics, Suppresses Zika Virus Infection Both In Vitro and In Vivo

Li, Z., Xu, J., Lang, Y., Fan, X., Kuo, L., D’Brant, L., Hu, S., Samrat, S. K., Trudeau, N., Tharappel, A. M., et al. (2020) · ACS Infectious Diseases · doi:10.1021/acsinfecdis.0c00217 · Cited by 54

Functional brain region-specific neural spheroids for modeling neurological diseases and therapeutics screening

Strong, C. E., Zhang, J., Carrasco, M., Kundu, S., Boutin, M. E., Vishwasrao, H. D., Liu, J., Medina, A., Chen, Y., Wilson, K. M., et al. (2023) · Communications Biology · doi:10.1038/s42003-023-05582-8 · Cited by 53

Organoid assessment technologies

Gu, Y., Zhang, W. C., Wu, X., Zhang, Y., Xu, K., & Su, J. (2023) · Clinical and Translational Medicine · doi:10.1002/ctm2.1499 · Cited by 53

Reliability of high-quantity human brain organoids for modeling microcephaly, glioma invasion and drug screening

Ramani, A., Pasquini, G., Gerkau, N. J., Jadhav, V., Vinchure, O. S., Altinisik, N., Windoffer, H., Muller, S. M., Rothenaigner, I., Lin, S., et al. (2024) · Nature Communications · doi:10.1038/s41467-024-55226-6 · Cited by 51

The Age of Brain Organoids: Tailoring Cell Identity and Functionality for Normal Brain Development and Disease Modeling

Porciúncula, L. O., Goto‐Silva, L., Ledur, P. F., & Rehen, S. K. (2021) · Frontiers in Neuroscience · doi:10.3389/fnins.2021.674563 · Cited by 54

Highly reproducible human brain organoids recapitulate cerebral cortex cellular diversity.Preprint

Velasco, S., Paulsen, B. D. S., & Arlotta, P. (2019) · doi:10.21203/rs.2.9542/v1 · Cited by 16

A simplified protocol for the generation of cortical brain organoids

Eigenhuis, K. N., Somsen, H. B., van der Kroeg, M., Smeenk, H., Korporaal, A. L., Kushner, S. A., de Vrij, F. M. S., & van den Berg, D. L. C. (2023) · Frontiers in Cellular Neuroscience · doi:10.3389/fncel.2023.1114420 · Cited by 19

Generation of cerebral organoids from human pluripotent stem cells

Lancaster, M. A., & Knoblich, J. A. (2014) · Nature Protocols · doi:10.1038/nprot.2014.158 · Cited by 1,823

Generating Cerebral Organoids from Human Pluripotent Stem Cells

Chew, L. H., Añonuevo, A., & Knock, E. (2021) · Methods in molecular biology · doi:10.1007/978-1-0716-1783-0_15 · Cited by 11

A Robust Methodological Framework for Generating Whole‐Brain and Cortical Organoids From Diverse Healthy‐ and Patient‐Derived Induced Pluripotent Stem Cell Lines

Fournier, T., Pugliese, E., Montagne, B., Cimmaruta, C., & Ricchetti, M. (2026) · Biology of the Cell · doi:10.1111/boc.70051