Particular person mind organoids reproducibly kind the mobile variety of the human cerebral cortex
Silbereis, J.C., Pochareddy, S., Zhu, Y., Li, M., and Sestan, N. The mobile and molecular landscapes of the growing human central nervous system. Neuron 89, 248-268 (2016).
Quadrato, G., Brown, J. & Arlotta, P. The Guarantees and Challenges of Organoids of the Human Mind as Fashions of Neuropsychiatric Illness. Nat. Med. 22, 1220-1228 (2016).
Quadrato, G. et al. Mobile variety and community dynamics in photosensitive organoids of the human mind. Nature 545, 48-53 (2017).
Lancaster, M.A. et al. The mind organoids mannequin the event of the human mind and microcephaly. Nature 501, 373-379 (2013).
Kadoshima, T. et al. Self-organization of axial polarity, internal-external layer sample and species-specific progenitor dynamics in neocortex derived from human ES cells. Proc. Natl Acad. Sci. USA 110, 20284-20289 (2013).
Yoon, S.J. et al. Reliability of human cortical organoid technology. Nat. Strategies 16, 75-78 (2019).
Pollen, A.A. et al. Set up mind organoids as fashions of the evolution of the mind in people. Cell 176, 743-756 (2019).
Camp, J.G. et al. The human mind organoids summarize the gene expression packages of fetal neocortex growth. Proc. Natl Acad. Sci. USA 112, 15672-15677 (2015).
Qian, X. et al. Organoids particular to the mind area utilizing mini-bioreactors to mannequin publicity to ZIKV. Cell 165, 1238-1254 (2016).
Lancaster, M.A. et al. Guided self-organization and formation of cortical plates within the organoids of the human mind. Nat. Biotechnol. 35, 659-666 (2017).
Bagley, J. A., D. Reumann, S. Bian, J. Levi-Strauss, J. & Knoblich, J. A. Interactions between fused mind organoids, between areas of the mind. Nat. Strategies 14, 743-751 (2017).
Xiang, Y. et al. The fusion of regionally-specified hPSC-derived organoids fashions the event of the human mind and the migration of interneurons. Cell Stem Cell 21, 383-398 (2017).
Birey, F. et al. Meeting of human anterior mind spheroids functionally built-in. Nature 545, 54-59 (2017).
Bershteyn, M. et al. The human mind organoids derived from iPSC mannequin the mobile options of lissencephaly and reveal extended mitosis of the outer radial glia. Cell Stem Cell 20, 435-449 (2017).
Rigamonti, A. et al. Giant-scale manufacturing of mature neurons from human pluripotent stem cells in a three-dimensional suspension tradition system. Stem Cell Reviews 6, 993-1008 (2016).
Church, G. M. The Private Genome Challenge. Mol. Syst. Biol. 1, 0030 (2005).
Pollen, A.A. et al. Molecular identification of human exterior radial glia throughout cortical growth. Cell 163, 55-67 (2015).
Nowakowski, T.J. et al. The spatio-temporal gene expression trajectories reveal developmental hierarchies of the human cortex. Science 358, 1318-1323 (2017).
Molyneaux, B.J. et al. New subtype-specific genes determine distinct subpopulations of callous projection neurons. J. Neurosci. 29, 12343-12354 (2009).
Arlotta, P. et al. Particular neuronal subtype genes that management the event of the corticospinal motor neuron in vivo. Neuron 45, 207-221 (2005).
Zhang, Y. et al. Purification and characterization of progenitor and mature human astrocytes reveal variations in transcription and performance with the mouse. Neuron 89, 37-53 (2016).
Darmanis, S. et al. A examine of the variety of the transcriptome of the human mind on the stage of cells. Proc. Natl Acad. Sci. USA 112, 7285-7290 (2015).
Lodato, S. & Arlotta, P. Technology of neuronal variety within the mammalian cerebral cortex. Annu. Rev. Cell Dev. Biol. 31, 699-720 (2015).
Greig, L.C., Woodworth, M.B., Galazo, M.J., Padmanabhan, H. & Macklis, J.D. Molecular logic of the specification, growth and variety of neocortical projection neurons. Nat. Rev. Neurosci. 14, 755-769 (2013).
Kohwi, M. et al. A subpopulation of GABAergic olfactory bulb interneurons is derived from progenitors expressing Emx1 and Dlx5 / 6. J. Neurosci. 27, 6878-6891 (2007).
Qiu, X. et al. Inverted incorporation of graphs solves advanced single-celled trajectories Nat. Strategies 14, 979-982 (2017).
Shekhar, Okay. et al. Full classification of retinal bipolar neurons by unicellular transcriptomic. Cell 166, 1308-1323 (2016).
Habib, N. et al. Massively parallel single-core RNA-seq with DroNc-seq. Nat. Strategies 14, 955-958 (2017).
Fan, X. et al. Spatial transcriptomic examine of the human embryonic cerebral cortex by unicellular evaluation of RNA-seq. Cell Res. 28, 730-745 (2018).
Saunders, A. et al. Molecular variety and specializations amongst grownup mouse mind cells. Cell 174, 1015-1030 (2018).
Sheridan, S.D. et al. Epigenetic characterization of the FMR1 gene and aberrant neurological growth in human-induced pluripotent stem cell fashions of fragile X syndrome. PLoS ONE 6, e26203 (2011).
Sugathan, A. et al. CHD8 regulates the neurodevelopmental pathways related to autism spectrum dysfunction in neural progenitors. Proc. Natl Acad. Sci. USA 111, E4468 to E4477 (2014).
Velasco, S., Paulsen, B. and Arlotta, P. Extremely reproducible human organoids of the mind recapitulate the mobile variety of the cerebral cortex. Alternate of Protocols https://doi.org/10.21203/rs.2.9542/v1 (2019).
Quadrato, G., Sherwood, J.L. & Arlotta, P. Lengthy-term tradition and electrophysiological characterization of organoids within the human mind. Alternate of Protocols https://doi.org/10.1038/protex.2017.049 (2017).
Zheng, G. X. Y. et al. Massively parallel digital transcription profile of particular person cells. Nat. Widespread. eight, 14049 (2017).
Butler, A., Hoffman, P., Smibert, P., Papalexi, E., and Satija, R. Integration of single-cell transcriptomic knowledge beneath completely different situations, applied sciences, and species. Nat. Biotechnol. 36, 411-420 (2018).
Arya, S., Mount, D., Kemp, S.E. and Jefferis, G. RANN: Nearest Neighbor Fast Search (wraps the ANN library) utilizing the l2 metric. Model of bundle R 2.6. (2018).
McDavid, A., Finak, G. and Yajima, M. MAST: Evaluation primarily based on a mannequin of the unicellular transcriptomic. Bundle Model R 1.6.1. (2018).
Wolock, S.L., Lopez, R. & Klein, A.M. Scrublet: laptop identification of cell doublets in unicellular transcriptomic knowledge. Cell Syst. eight, 281-291 (2019).
Liaw, A. & Wiener, M. Classification and regression by randomForest. R Information 2, 18-22 (2002).