Gradinaru, Viviana

Article from CaltechAUTHORS

• Griffiths, Jessica A. and Yoo, Bryan B., et el. (2024) Peripheral neuronal activation shapes the microbiome and alters gut physiology; Cell Reports; Vol. 43; No. 4; 113953; PMCID PMC11132177; 10.1016/j.celrep.2024.113953
• Ding, Xiaozhe and Chen, Xinhong, et el. (2024) Fast, accurate ranking of engineered proteins by target-binding propensity using structure modeling; Molecular Therapy; 10.1016/j.ymthe.2024.04.003
• Kahan, Anat and Mahe, Karan, et el. (2023) Immediate responses to ambient light in vivo reveal distinct subpopulations of suprachiasmatic VIP neurons; iScience; Vol. 26; No. 10; 107865; PMCID PMC10520357; 10.1016/j.isci.2023.107865
• Chuapoco, Miguel R. and Flytzanis, Nicholas C., et el. (2023) Adeno-associated viral vectors for functional intravenous gene transfer throughout the non-human primate brain; Nature Nanotechnology; Vol. 18; No. 10; 1241-1251; PMCID PMC10575780; 10.1038/s41565-023-01419-x
• Henrickson, Amy and Ding, Xiaozhe, et el. (2023) Characterization and quantification of adeno-associated virus capsid-loading states by multi-wavelength analytical ultracentrifugation with UltraScan; Nanomedicine; Vol. 18; No. 22; 1519-1534; PMCID PMC10652292; 10.2217/nnm-2023-0156
• Jang, Min J. and Coughlin, Gerard M., et el. (2023) Spatial transcriptomics for profiling the tropism of viral vectors in tissues; Nature Biotechnology; Vol. 41; No. 9; 1272-1286; PMCID PMC10443732; 10.1038/s41587-022-01648-w
• Chen, Xinhong and Wolfe, Damien A., et el. (2023) Functional gene delivery to and across brain vasculature of systemic AAVs with endothelial-specific tropism in rodents and broad tropism in primates; Nature Communications; Vol. 14; Art. No. 3345; PMCID PMC10250345; 10.1038/s41467-023-38582-7
• Jang, Min Jee and Gradinaru, Viviana (2023) Spatial tropism profiling of AAV vectors by ultrasensitive sequential FISH in tissue; Nature Biotechnology; PMCID PMC9885914; 10.1038/s41587-023-01681-3
• Shay, Timothy F. and Sullivan, Erin E., et el. (2023) Primate-conserved carbonic anhydrase IV and murine-restricted LY6C1 enable blood-brain barrier crossing by engineered viral vectors; Science Advances; Vol. 9; No. 16; Art. No. eadg6618; PMCID PMC10115422; 10.1126/sciadv.adg6618
• Campos, Lillian J. and Arokiaraj, Cynthia M., et el. (2023) Advances in AAV technology for delivering genetically encoded cargo to the nonhuman primate nervous system; Current Research in Neurobiology; Vol. 4; Art. No. 100086; PMCID PMC10313870; 10.1016/j.crneur.2023.100086
• Schubert, Rajib and Bae, Taegeun, et el. (2023) CRISPR-clear imaging of melanin-rich B16-derived solid tumors; Communications Biology; Vol. 6; Art. No. 370; PMCID PMC10073193; 10.1038/s42003-023-04614-7
• Abdel-Haq, Reem and Schlachetzki, Johannes C. M., et el. (2022) A prebiotic diet modulates microglial states and motor deficits in α-synuclein overexpressing mice; eLife; Vol. 11; Art. No. e81453; PMCID PMC9668333; 10.7554/elife.81453
• Endo, Fumito and Kasai, Atsushi, et el. (2022) Molecular basis of astrocyte diversity and morphology across the CNS in health and disease; Science; Vol. 378; No. 6619; Art. No. adc9020; 10.1126/science.adc9020
• Goertsen, David and Goeden, Nick, et el. (2022) Targeting the lung epithelium after intravenous delivery by directed evolution of underexplored sites on the AAV capsid; Molecular Therapy - Methods & Clinical Development; Vol. 26; 331-342; PMCID PMC9372736; 10.1016/j.omtm.2022.07.010
• Jang, Seongmin and Shen, Hao K., et el. (2022) Structural basis of receptor usage by the engineered capsid AAV-PHP.eB; Molecular Therapy - Methods & Clinical Development; Vol. 26; 343-354; PMCID PMC9382559; 10.1016/j.omtm.2022.07.011
• Seo, Jai Woong and Ajenjo, Javier, et el. (2022) Multimodal imaging of capsid and cargo reveals differential brain targeting and liver detargeting of systemically-administered AAVs; Biomaterials; Vol. 288; Art. No. 121701; PMCID PMC9621732; 10.1016/j.biomaterials.2022.121701
• Chen, Xinhong and Ravindra Kumar, Sripriya, et el. (2022) Engineered AAVs for non-invasive gene delivery to rodent and non-human primate nervous systems; Neuron; Vol. 110; No. 14; 2242-2257; PMCID PMC9308721; 10.1016/j.neuron.2022.05.003
• Challis, Rosemary C. and Ravindra Kumar, Sripriya, et el. (2022) Adeno-Associated Virus Toolkit to Target Diverse Brain Cells; Annual Review of Neuroscience; Vol. 45; 447-469; 10.1146/annurev-neuro-111020-100834
• Fan, Jiang-peng and Geng, Hui-zhen, et el. (2022) Age-dependent alterations in key components of the nigrostriatal dopaminergic system and distinct motor phenotypes; Acta Pharmacologica Sinica; Vol. 43; No. 4; 862-875; PMCID PMC8975991; 10.1038/s41401-021-00713-5
• Cui, Lian and Guo, Jeff, et el. (2022) Glutamate in primary afferents is required for itch transmission; Neuron; Vol. 110; No. 5; 809-823; PMCID PMC8898340; 10.1016/j.neuron.2021.12.007
• Duan, Yangyang and Ye, Tao, et el. (2022) Brain-wide Cas9-mediated cleavage of a gene causing familial Alzheimer's disease alleviates amyloid-related pathologies in mice; Nature Biomedical Engineering; Vol. 6; No. 2; 168-180; 10.1038/s41551-021-00759-0
• Goertsen, David and Flytzanis, Nicholas C., et el. (2021) AAV capsid variants with brain-wide transgene expression and decreased liver targeting after intravenous delivery in mouse and marmoset; Nature Neuroscience; Vol. 25; No. 1; 106-115; 10.1038/s41593-021-00969-4
• Brown, David and Altermatt, Michael, et el. (2021) Deep Parallel Characterization of AAV Tropism and AAV-Mediated Transcriptional Changes via Single-Cell RNA Sequencing; Frontiers in Immunology; Vol. 12; Art. No. 730825; PMCID PMC8574206; 10.3389/fimmu.2021.730825
• Davidson, Cristin D. and Gibson, Alana L., et el. (2021) Improved systemic AAV gene therapy with a neurotrophic capsid in Niemann–Pick disease type C1 mice; Life Science Alliance; Vol. 4; No. 10; Art. No. e202101040; PMCID PMC8380657; 10.26508/lsa.202101040
• Kahan, Anat and Greenbaum, Alon, et el. (2021) Light-guided sectioning for precise in situ localization and tissue interface analysis for brain-implanted optical fibers and GRIN lenses; Cell Reports; Vol. 36; No. 13; Art. No. 109744; PMCID PMC8552649; 10.1016/j.celrep.2021.109744
• Zhu, Meng and Shahbazi, Marta, et el. (2021) Human embryo polarization requires PLC signaling to mediate trophectoderm specification; eLife; Vol. 10; Art. No. e65068; 10.7554/eLife.65068
• Nagai, Jun and Bellafard, Arash, et el. (2021) Specific and behaviorally consequential astrocyte G_q GPCR signaling attenuation in vivo with iβARK; Neuron; Vol. 109; No. 14; 2256-2274; PMCID PMC8418870; 10.1016/j.neuron.2021.05.023
• Wu, Wei-Li and Adame, Mark D., et el. (2021) Microbiota regulate social behaviour via stress response neurons in the brain; Nature; Vol. 595; No. 7867; 409-414; PMCID PMC8346519; 10.1038/s41586-021-03669-y
• Smith, Sheena N. and Schubert, Rajib, et el. (2021) The SHREAD gene therapy platform for paracrine delivery improves tumor localization and intratumoral effects of a clinical antibody; Proceedings of the National Academy of Sciences of the United States of America; Vol. 118; No. 21; Art. No. e2017925118; PMCID PMC8166199; 10.1073/pnas.2017925118
• Smith, Edward J. and Farshim, Pamela P., et el. (2021) Use of high-content imaging to quantify transduction of AAV-PHP viruses in the brain following systemic delivery; Brain Communications; Vol. 3; No. 2; Art. No. fcab105; PMCID PMC8200048; 10.1093/braincomms/fcab105
• Graybuck, Lucas T. and Daigle, Tanya L., et el. (2021) Enhancer viruses for combinatorial cell-subclass-specific labeling; Neuron; Vol. 109; No. 9; 1449-1464; PMCID PMC8610077; 10.1016/j.neuron.2021.03.011
• Jang, Min Jee and Coughlin, Gerard M., et el. (2021) Deep Tropism Profiling of Barcoded AAV Capsid and Cargo Pools in Intact Tissue Using High-Throughput Ultrasensitive Sequential FISH; Molecular Therapy; Vol. 29; No. 4, S1; 142; 10.1016/j.ymthe.2021.04.019
• Borsos, Máté and Chen, Xinhong, et el. (2021) Simultaneous Detection of AAV Genome, Transcript, and Protein Localization in Intact Cells and Tissues at High Resolution; Molecular Therapy; Vol. 29; No. 4, S1; 142-143; 10.1016/j.ymthe.2021.04.019
• Hori, Acacia and Grebin, Anastasiya, et el. (2021) Targeted Gene Therapy with Engineered Systemic AAVs for the Central and Peripheral Nervous Systems Prevents Motor Coordination Phenotypes in a Mouse Model of Friedreich's Ataxia; Molecular Therapy; Vol. 29; No. 4, S1; 125; 10.1016/j.ymthe.2021.04.019
• Chen, Xinhong and Wolfe, Damien A., et el. (2021) Endothelial-Tropic AAVs for Genetic Access to Whole-Brain Vasculature in Wild-Type Mouse Strains Following Non-Invasive Systemic Delivery; Molecular Therapy; Vol. 29; No. 4, S1; 25; 10.1016/j.ymthe.2021.04.019
• Helseth, Ashley R. and Hernandez-Martinez, Ricardo, et el. (2021) Cholinergic neurons constitutively engage the ISR for dopamine modulation and skill learning in mice; Science; Vol. 372; No. 6540; Art. No. eabe1931; PMCID PMC8457366; 10.1126/science.abe1931
• Mich, John K. and Graybuck, Lucas T., et el. (2021) Functional enhancer elements drive subclass-selective expression from mouse to primate neocortex; Cell Reports; Vol. 34; No. 13; Art. No. 108754; 10.1016/j.celrep.2021.108754
• Cho, Jounhong Ryan and Chen, Xinhong, et el. (2021) Dorsal Raphe Dopamine Neurons Signal Motivational Salience Dependent on Internal State, Expectation, and Behavioral Context; Journal of Neuroscience; Vol. 41; No. 12; 2645-2655; PMCID PMC8018733; 10.1523/JNEUROSCI.2690-20.2021
• Unger, Elizabeth K. and Keller, Jacob P., et el. (2020) Directed Evolution of a Selective and Sensitive Serotonin Sensor via Machine Learning; Cell; Vol. 183; No. 7; 1986-2002; PMCID PMC8025677; 10.1016/j.cell.2020.11.040
• Badimon, Ana and Strasburger, Hayley J., et el. (2020) Negative feedback control of neuronal activity by microglia; Nature; Vol. 586; No. 7829; 417-423; 10.1038/s41586-020-2777-8
• Gradinaru, Viviana (2020) Expanding the brain researcher's toolkit; Science; Vol. 369; No. 6504; 637; 10.1126/science.abd2660
• Ravindra Kumar, Sripriya and Miles, Timothy F., et el. (2020) Multiplexed Cre-dependent selection yields systemic AAVs for targeting distinct brain cell types; Nature Methods; Vol. 17; No. 5; 541-550; PMCID PMC7219404; 10.1038/s41592-020-0799-7
• Seo, Jai Woong and Ingham, Elizabeth S., et el. (2020) Positron emission tomography imaging of novel AAV capsids maps rapid brain accumulation; Nature Communications; Vol. 11; Art. No. 2102; PMCID PMC7193641; 10.1038/s41467-020-15818-4
• Padia, Umesh and Brown, David, et el. (2020) Cloud-based Software for NGS Data Management and Analysis for Directed Evolution of Peptide-Based Delivery Vectors; Molecular Therapy; Vol. 28; No. 4; 434-435; 10.1016/j.ymthe.2020.04.019
• Chen, Xinhong and Ravindra Kumar, Sripriya, et el. (2020) Targeting the Rodent Peripheral Nervous System Efficiently and with Greater Specificity through Intravenous Delivery of AAV Capsids Evolved by Multiplexed-CREATE; Molecular Therapy; Vol. 28; No. 4; 252-253; 10.1016/j.ymthe.2020.04.019
• Ravindra Kumar, Sripriya and Miles, Timothy F., et el. (2020) Evolution and Investigation of Engineered AAV Capsids Exhibiting Enhanced Transduction of the Central Nervous System with or without Murine Strain Specificity; Molecular Therapy; Vol. 28; No. 4; 11-12; 10.1016/j.ymthe.2020.04.019
• Jang, Min Jee and Coughlin, Gerard M., et el. (2020) Method for High-Throughput, In Situ Characterization of AAV Variant Pools in Intact Tissue Using Ultrasensitive Sequential FISH; Molecular Therapy; Vol. 28; No. 4; 78-79; 10.1016/j.ymthe.2020.04.019
• Mich, John K. and Gore, Bryan B., et el. (2020) Building a Toolbox of Compact Enhancers for Cell Type-Specific Gene Expression from AAVs in the Primate Brain; Molecular Therapy; Vol. 28; No. 4; 70; 10.1016/j.ymthe.2020.04.019
• Altermatt, Michael and Brown, David, et el. (2020) In-Depth Parallel Profiling of Tissue and Cell-Type Tropism of AAV Variants by Single-Cell RNA Sequencing; Molecular Therapy; Vol. 28; No. 4; 399-400; 10.1016/j.ymthe.2020.04.019
• Ding, Xiaozhe and Gradinaru, Viviana (2020) Structure-Guided Rational Design of Adeno-Associated Viral Capsids with Expanded Sizes; Molecular Therapy; Vol. 28; No. 4; 226-227; 10.1016/j.ymthe.2020.04.019
• Brown, David and Altermatt, Michael, et el. (2020) A Computational and Experimental Platform for Detecting Full Transcriptome Cell Type Tropism of Lowly Expressed Barcoded and Pooled AAV Variants via Single-Cell RNA Sequencing; Molecular Therapy; Vol. 28; No. 4; 80-81; 10.1016/j.ymthe.2020.04.019
• Hori, Acacia and Robinson, J. Elliott, et el. (2020) Recombinant AAVs Target Custom Frataxin Therapeutic Cassettes to Tissues of Pathophysiologic Relevance in Friedreich's Ataxia; Molecular Therapy; Vol. 28; No. 4; 86-87; 10.1016/j.ymthe.2020.04.019
• Goertsen, David and Flytzanis, Nicholas C., et el. (2020) Transduction Profiles of Engineered Adeno-Associated Viral Capsids in Mouse and Marmoset; Molecular Therapy; Vol. 28; No. 4; 269-270; 10.1016/j.ymthe.2020.04.019
• Rauch, Jennifer N. and Luna, Gabriel, et el. (2020) LRP1 is a master regulator of tau uptake and spread; Nature; Vol. 580; No. 7803; 381-385; 10.1038/s41586-020-2156-5
• Yao, Shenqin and Yuan, Peng, et el. (2020) RecV recombinase system for in vivo targeted optogenomic modifications of single cells or cell populations; Nature Methods; Vol. 17; No. 4; 422-429; PMCID PMC7135964; 10.1038/s41592-020-0774-3
• Challis, Collin and Hori, Acacia, et el. (2020) Gut-seeded α-synuclein fibrils promote gut dysfunction and brain pathology specifically in aged mice; Nature Neuroscience; Vol. 23; No. 3; 327-336; PMCID PMC7065967; 10.1038/s41593-020-0589-7
• Sampson, Timothy R. and Challis, Collin, et el. (2020) A gut bacterial amyloid promotes α-synuclein aggregation and motor impairment in mice; eLife; Vol. 9; Art. No. e53111; PMCID PMC7012599; 10.7554/elife.53111
• Ueda, Hiroki R. and Ertürk, Ali, et el. (2020) Tissue clearing and its applications in neuroscience; Nature Reviews. Neuroscience; Vol. 21; No. 2; 61-79; PMCID PMC8121164; 10.1038/s41583-019-0250-1
• Song, Anying and Dai, Wenting, et el. (2020) Low- and high-thermogenic brown adipocyte subpopulations coexist in murine adipose tissue; Journal of Clinical Investigation; Vol. 130; No. 1; 247-257; PMCID PMC6934193; 10.1172/jci129167
• Patriarchi, Tommaso and Cho, Jounhong Ryan, et el. (2019) Imaging neuromodulators with high spatiotemporal resolution using genetically encoded indicators; Nature Protocols; Vol. 14; No. 12; 3471-3505; 10.1038/s41596-019-0239-2
• Smith, S. N. and Schubert, R., et el. (2019) Paracrine delivery of therapeutic biologics for cancer; Human Gene Therapy; Vol. 30; No. 11; A3; 10.1089/hum.2019.29095.abstracts
• Bedbrook, Claire N. and Yang, Kevin K., et el. (2019) Machine learning-guided channelrhodopsin engineering enables minimally-invasive optogenetics; Nature Methods; Vol. 16; No. 11; 1176-1184; PMCID PMC6858556; 10.1038/s41592-019-0583-8
• Robinson, J. Elliott and Coughlin, Gerard M., et el. (2019) Optical dopamine monitoring with dLight1 reveals mesolimbic phenotypes in a mouse model of neurofibromatosis type 1; eLife; Vol. 8; Art. No. e48983; PMCID PMC6819083; 10.7554/elife.48983
• Ramirez-Zamora, Adolfo and Gradinaru, Viviana (2019) Proceedings of the Sixth Deep Brain Stimulation Think Tank Modulation of Brain Networks and Application of Advanced Neuroimaging, Neurophysiology, and Optogenetics; Frontiers in Neuroscience; Vol. 13; Art. No. 936; PMCID PMC6751331; 10.3389/fnins.2019.00936
• Ding, Xiaozhe and Kumar, Sripriya, et el. (2019) Structural Studies of Engineered Adeno-Associated Virus Capsids that Cross Blood-Brain Barrier Efficiently; Protein Science; Vol. 28; No. S1; 116-117; 10.1002/pro.3710
• Oikonomou, Grigorios and Altermatt, Michael, et el. (2019) The Serotonergic Raphe Promote Sleep in Zebrafish and Mice; Neuron; Vol. 103; No. 4; 686-701; PMCID PMC6706304; 10.1016/j.neuron.2019.05.038
• Rajendran, Pradeep S. and Challis, Rosemary C., et el. (2019) Identification of peripheral neural circuits that regulate heart rate using optogenetic and viral vector strategies; Nature Communications; Vol. 10; Art. No. 1944; PMCID PMC6486614; 10.1038/s41467-019-09770-1
• Ravindra Kumar, Sripriya and Chen, Xinhong, et el. (2019) Multiplexed-CREATE Selection Yields AAV Vectors Targeting Different Cell Types of the Central Nervous System Following Systemic Delivery; Molecular Therapy; Vol. 27; No. 4; Art. No. 99; 10.1016/j.ymthe.2019.04.004
• Flytzanis, Nicholas and Goeden, Nick, et el. (2019) Engineered AAVS for CNS Transduction and Peripheral Organ De-Targeting across Species after Systemic Delivery; Molecular Therapy; Vol. 27; No. 4; Art. No. 102; 10.1016/j.ymthe.2019.04.004
• Goeden, Nick and Flytzanis, Nicholas, et el. (2019) Engineered AAVs for Enhanced Transduction of Submucosal Cells within the Lung Following Intravenous Delivery; Molecular Therapy; Vol. 27; No. 4; Art. No. 101; 10.1016/j.ymthe.2019.04.004
• Zeng, Jianxiong and Wang, Yaoming, et el. (2019) TRIM9-Mediated Resolution of Neuroinflammation Confers Neuroprotection upon Ischemic Stroke in Mice; Cell Reports; Vol. 27; No. 2; 549-560; PMCID PMC6485958; 10.1016/j.celrep.2018.12.055
• Challis, Rosemary C. and Ravindra Kumar, Sripriya, et el. (2019) Systemic AAV vectors for widespread and targeted gene delivery in rodents; Nature Protocols; Vol. 14; No. 2; 379-414; 10.1038/s41596-018-0097-3
• Mano, Tomoyuki and Albanese, Alexandre, et el. (2018) Whole-Brain Analysis of Cells and Circuits by Tissue Clearing and Light-Sheet Microscopy; Journal of Neuroscience; Vol. 38; No. 44; 9330-9337; PMCID PMC6706004; 10.1523/jneurosci.1677-18.2018
• Arbabi, Ehsan and Li, Jiaqi, et el. (2018) Two-photon microscopy with a double-wavelength metasurface objective lens; Nano Letters; Vol. 18; No. 8; 4943-4948; 10.1021/acs.nanolett.8b01737
• Bedbrook, Claire N. and Deverman, Benjamin E., et el. (2018) Viral Strategies for Targeting the Central and Peripheral Nervous Systems; Annual Review of Neuroscience; Vol. 41; 323-348; 10.1146/annurev-neuro-080317-062048
• Patriarchi, Tommaso and Cho, Jounhong Ryan, et el. (2018) Ultrafast neuronal imaging of dopamine dynamics with designed genetically encoded sensors; Science; Vol. 360; No. 6396; Art. No. eaat4422; PMCID PMC6287765; 10.1126/science.aat4422
• Zelikowsky, Moriel and Hui, May, et el. (2018) The Neuropeptide Tac2 Controls a Distributed Brain State Induced by Chronic Social Isolation Stress; Cell; Vol. 173; No. 5; 1265-1279; PMCID PMC5967263; 10.1016/j.cell.2018.03.037
• Ravindra Kumar, Sripriya and Chan, Ken, et el. (2018) Developing AAV Vectors for More Efficient and Selective Gene Expression in Specific Cell Types of the Nervous System Following Systemic Delivery; Molecular Therapy; Vol. 26; No. 5; 321; 10.1016/j.ymthe.2018.05.001
• Gradinaru, Viviana and Treweek, Jennifer, et el. (2018) Hydrogel-Tissue Chemistry: Principles and Applications; Annual Review of Biophysics; Vol. 47; 355-376; PMCID PMC6359929; 10.1146/annurev-biophys-070317-032905
• Gu, Tansy and Davidson, Cristin, et el. (2018) Enhanced Efficacy of Gene Therapy Treatment for Niemann-Pick C1 Disease Using a Novel Serotype, AAV-PHP.B; Molecular Therapy; Vol. 26; No. 5; 404; 10.1016/j.ymthe.2018.05.001
• Flytzanis, Nicholas and Goeden, Nicholas, et el. (2018) Engineering Cell Type Specific Delivery Vectors for Noninvasive Modulation of Brain Circuits and Behaviors; Molecular Therapy; Vol. 26; No. 5; 304; 10.1016/j.ymthe.2018.05.001
• Robinson, J. Elliott and Gradinaru, Viviana (2018) Dopaminergic dysfunction in neurodevelopmental disorders: recent advances and synergistic technologies to aid basic research; Current Opinion in Neurobiology; Vol. 48; 17-29; PMCID PMC5825239; 10.1016/j.conb.2017.08.003
• Davidson, Cristin and Gibson, Alana, et el. (2018) Gene therapy for the treatment of Niemann-Pick disease type C1: Comparison of AAV9 to a novel serotype, AAV-PHP.B; Molecular Genetics and Metabolism; Vol. 123; No. 2; S36-S37; 10.1016/j.ymgme.2017.12.075
• Greenbaum, Alon and Chan, Ken, et el. (2017) Bone CLARITY reveals that anti-sclerostin antibody penetrates the lacunar canalicular system in mice under physiological loading conditions; Journal of Bone and Mineral Research; Vol. 32; No. S1; S293; 10.1002/jbmr.3363
• Ruan, Haowen and Brake, Joshua, et el. (2017) Deep tissue optical focusing and optogenetic modulation with time-reversed ultrasonically encoded light; Science Advances; Vol. 3; No. 12; Art. No. eaao5520; PMCID PMC5722648; 10.1126/sciadv.aao5520
• Gradinaru, Viviana (2017) Overriding sleep; Science; Vol. 358; No. 6362; 457-457; 10.1126/science.aap9535
• Bedbrook, Claire N. and Yang, Kevin K., et el. (2017) Machine learning to design integral membrane channelrhodopsins for efficient eukaryotic expression and plasma membrane localization; PLOS Computational Biology; Vol. 13; No. 10; Art. No. e1005786; PMCID PMC5695628; 10.1371/journal.pcbi.1005786
• Nath, Ravi D. and Bedbrook, Claire N., et el. (2017) The Jellyfish Cassiopea Exhibits a Sleep-like State; Current Biology; Vol. 27; No. 19; 2984-2990; PMCID PMC5653286; 10.1016/j.cub.2017.08.014
• Greenbaum, Alon and Jang, Min J., et el. (2017) Q&A: How can advances in tissue clearing and optogenetics contribute to our understanding of normal and diseased biology?; BMC Biology; Vol. 15; Art. No. 87; PMCID PMC5613628; 10.1186/s12915-017-0421-3
• Chan, Ken Y. and Jang, Min J., et el. (2017) Engineered AAVs for efficient noninvasive gene delivery to the central and peripheral nervous systems; Nature Neuroscience; Vol. 20; No. 8; 1172-1179; PMCID PMC5529245; 10.1038/nn.4593
• Cho, Jounhong Ryan and Treweek, Jennifer B., et el. (2017) Dorsal Raphe Dopamine Neurons Modulate Arousal and Promote Wakefulness by Salient Stimuli; Neuron; Vol. 94; No. 6; 1205-1219; 10.1016/j.neuron.2017.05.020
• Allen, William E. and Kauvar, Isaac V., et el. (2017) Global Representations of Goal-Directed Behavior in Distinct Cell Types of Mouse Neocortex; Neuron; Vol. 94; No. 4; 891-907; PMCID PMC5723385; 10.1016/j.neuron.2017.04.017
• Gibson, Alana L. and Davidson, Cristin D., et el. (2017) Adeno-Associated Viral Gene Therapy Using PHP.B:NPC1 Ameliorates Disease Phenotype in Mouse Model of Niemann-Pick C1 Disease; Molecular Therapy; Vol. 25; No. 5; Art. No. 225; 10.1016/j.ymthe.2017.04.025
• Greenbaum, Alon and Chan, Ken Y., et el. (2017) Bone CLARITY: Clearing, imaging, and computational analysis of osteoprogenitors within intact bone marrow; Science Translational Medicine; Vol. 9; No. 387; Art. No. eaah6518; 10.1126/scitranslmed.aah6518
• Bedbrook, Claire N. and Rice, Austin J., et el. (2017) Structure-guided SCHEMA recombination generates diverse chimeric channelrhodopsins; Proceedings of the National Academy of Sciences of the United States of America; Vol. 114; No. 13; E2624-E2633; PMCID PMC5380088; 10.1073/pnas.1700269114
• Herwig, Lukas and Rice, Austin J., et el. (2017) Directed Evolution of a Bright Near-Infrared Fluorescent Rhodopsin Using a Synthetic Chromophore; Cell Chemical Biology; Vol. 24; No. 3; 415-425; PMCID PMC5357175; 10.1016/j.chembiol.2017.02.008
• Mazmanian, Sarkis K. and Sampson, Timothy R., et el. (2016) Gut Microbiota Regulate Motor Deficits and Neuroinflammation in a Model of Parkinson's Disease; Cell; Vol. 167; No. 6; 1469-1480; PMCID PMC5718049; 10.1016/j.cell.2016.11.018
• Fairhall, Adrienne and Svoboda, Karel, et el. (2016) Global Collaboration, Learning from Other Fields; Neuron; Vol. 92; No. 3; 561-563; 10.1016/j.neuron.2016.10.040
• Pan, Min and Reid, Michael A., et el. (2016) Regional glutamine deficiency in tumours promotes dedifferentiation through inhibition of histone demethylation; Nature Cell Biology; Vol. 18; No. 10; 1090-1101; PMCID PMC5536113; 10.1038/ncb3410
• DePas, William H. and Starwalt-Lee, Ruth, et el. (2016) Exposing the Three-Dimensional Biogeography and Metabolic States of Pathogens in Cystic Fibrosis Sputum via Hydrogel Embedding, Clearing, and rRNA Labeling; mBio; Vol. 7; No. 5; e00796-16; PMCID PMC5040109; 10.1128/mBio.00796-16
• Shah, Sheel and Lubeck, Eric, et el. (2016) Single-molecule RNA detection at depth via hybridization chain reaction and tissue hydrogel embedding and clearing; Development; Vol. 143; No. 15; 2862-2867; PMCID PMC5004914; 10.1242/dev.138560
• Treweek, Jennifer Brooke and Gradinaru, Viviana (2016) Extracting structural and functional features of widely distributed biological circuits with single cell resolution via tissue clearing and delivery vectors; Current Opinion in Biotechnology; Vol. 40; 193-207; PMCID PMC4975678; 10.1016/j.copbio.2016.03.012
• Deverman, Benjamin E. and Pravdo, Piers L., et el. (2016) Using Cre-Dependent In Vivo Selection to Identify AAV Variants That Enable Efficient and Widespread Gene Transfer to the Adult Central Nervous System; Molecular Therapy; Vol. 24; No. S1; S99; 10.1016/S1525-0016(16)33061-1
• Xiao, Cheng and Cho, Jounhong Ryan, et el. (2016) Cholinergic Mesopontine Signals Govern Locomotion and Reward through Dissociable Midbrain Pathways; Neuron; Vol. 90; No. 2; 333-347; PMCID PMC4840478; 10.1016/j.neuron.2016.03.028
• Gradinaru, Viviana (2016) Tools for Anatomical and Functional Analysis of Widely Distributed Brain Networks; Biophysical Journal; Vol. 110; No. 3; 364A-365A; 10.1016/j.bpj.2015.11.1965
• Rice, Austin J. and Bedbrook, Claire N., et el. (2016) Rhodopsin Engineering through Structure-Guided Recombination; Biophysical Journal; Vol. 110; No. 3; 170A; 10.1016/j.bpj.2015.11.947
• Deverman, Benjamin E. and Pravdo, Piers L., et el. (2016) Cre-dependent selection yields AAV variants for widespread gene transfer to the adult brain; Nature Biotechnology; Vol. 34; No. 2; 204-209; PMCID PMC5088052; 10.1038/nbt.3440
• Gradinaru, Viviana and Flytzanis, Nicholas C. (2016) Fluorescent boost for voltage sensors; Nature; Vol. 529; No. 7587; 469-470; 10.1038/529469a
• Skennerton, Connor T. and Ward, Lewis M., et el. (2015) Genomic Reconstruction of an Uncultured Hydrothermal Vent Gammaproteobacterial Methanotroph (Family Methylothermaceae) Indicates Multiple Adaptations to Oxygen Limitation; Frontiers in Microbiology; Vol. 6; Art. No. 1425; PMCID PMC4688376; 10.3389/fmicb.2015.01425
• Treweek, Jennifer B. and Chan, Ken Y., et el. (2015) Whole-body tissue stabilization and selective extractions via tissue-hydrogel hybrids for high-resolution intact circuit mapping and phenotyping; Nature Protocols; Vol. 10; No. 11; 1860-1896; PMCID PMC4917295; 10.1038/nprot.2015.122
• Bedbrook, Claire N. and Kato, Mihoko, et el. (2015) Genetically Encoded Spy Peptide Fusion System to Detect Plasma Membrane-Localized Proteins In Vivo; Chemistry and Biology; Vol. 22; No. 8; 1108-1121; PMCID PMC4546540; 10.1016/j.chembiol.2015.06.020
• Flytzanis, Nicholas C. and Bedbrook, Claire N., et el. (2014) Archaerhodopsin variants with enhanced voltage-sensitive fluorescence in mammalian and Caenorhabditis elegans neurons; Nature Communications; Vol. 5; No. 9; Art. No. 4894; PMCID PMC4166526; 10.1038/ncomms5894
• McIsaac, R. Scott and Engqvist, Martin K. M., et el. (2014) Directed evolution of a far-red fluorescent rhodopsin; Proceedings of the National Academy of Sciences of the United States of America; Vol. 111; No. 36; 13034-13039; PMCID PMC4246972; 10.1073/pnas.1413987111
• Yang, Bin and Treweek, Jennifer B., et el. (2014) Single-Cell Phenotyping within Transparent Intact Tissue through Whole-Body Clearing; Cell; Vol. 158; No. 4; 945-958; PMCID PMC4153367; 10.1016/j.cell.2014.07.017
• Birmingham, Karen and Gradinaru, Viviana, et el. (2014) Bioelectronic medicines: a research roadmap; Nature Reviews Drug Discovery; Vol. 13; No. 6; 399-400; 10.1038/nrd4351
• Chung, Kwanghun and Wallace, Jenelle, et el. (2013) Structural and molecular interrogation of intact biological systems; Nature; Vol. 497; No. 7449; 332-337; PMCID PMC4092167; 10.1038/nature12107
• Sukhotinsky, Inna and Chan, Alexander M., et el. (2013) Optogenetic Delay of Status Epilepticus Onset in an In Vivo Rodent Epilepsy Model; PLoS ONE; Vol. 8; No. 4; e62013; PMCID PMC3634849; 10.1371/journal.pone.0062013
• Mattis, Joanna and Tye, Kay M., et el. (2012) Principles for applying optogenetic tools derived from direct comparative analysis of microbial opsins; Nature Methods; Vol. 9; No. 2; 159-172; PMCID PMC4165888; 10.1038/NMETH.1808
• Domingos, Ana I. and Vaynshteyn, Jake, et el. (2011) Leptin regulates the reward value of nutrient; Nature Neuroscience; Vol. 14; No. 12; 1562-1568; PMCID PMC4238286; 10.1038/nn.2977
• Goshen, Inbal and Brodsky, Matthew, et el. (2011) Dynamics of Retrieval Strategies for Remote Memories; Cell; Vol. 147; No. 3; 678-689; 10.1016/j.cell.2011.09.033
• Tye, Kay M. and Prakash, Rohit, et el. (2011) Amygdala circuitry mediating reversible and bidirectional control of anxiety; Nature; Vol. 471; No. 7338; 358-362; PMCID PMC3154022; 10.1038/nature09820
• Witten, Ilana B. and Lin, Shih-Chun, et el. (2010) Cholinergic Interneurons Control Local Circuit Activity and Cocaine Conditioning; Science; Vol. 330; No. 6011; 1677-1681; PMCID PMC3142356; 10.1126/science.1193771
• Lee, Jin Hyung and Durand, Remy, et el. (2010) Global and local fMRI signals driven by neurons defined optogenetically by type and wiring; Nature; Vol. 465; No. 7299; 788-792; PMCID PMC3177305; 10.1038/nature09108
• Gradinaru, Viviana and Zhang, Feng, et el. (2010) Molecular and Cellular Approaches for Diversifying and Extending Optogenetics; Cell; Vol. 141; No. 1; 154-165; PMCID PMC4160532; 10.1016/j.cell.2010.02.037
• Zhang, Feng and Gradinaru, Viviana, et el. (2010) Optogenetic interrogation of neural circuits: technology for probing mammalian brain structures; Nature Protocols; Vol. 5; No. 3; 439-456; PMCID PMC4503465; 10.1038/nprot.2009.226
• Gradinaru, Viviana and Mogri, Murtaza, et el. (2009) Optical Deconstruction of Parkinsonian Neural Circuitry; Science; Vol. 324; No. 5925; 354-359; PMCID PMC6744370; 10.1126/science.1167093
• Gradinaru, Viviana and Thompson, Kimberly R., et el. (2008) eNpHR: a Natronomonas halorhodopsin enhanced for optogenetic applications; Brain Cell Biology; Vol. 36; No. 1-4; 129-139; PMCID PMC2588488; 10.1007/s11068-008-9027-6
• Schneider, M. Bret and Gradinaru, Viviana, et el. (2008) Controlling Neuronal Activity; American Journal of Psychiatry; Vol. 165; No. 5; 562-562; 10.1176/appi.ajp.2008.08030444
• Gradinaru, Viviana and Thompson, Kimberly R., et el. (2007) Targeting and Readout Strategies for Fast Optical Neural Control In Vitro and In Vivo; Journal of Neuroscience; Vol. 27; No. 52; 14231-14238; PMCID PMC6673457; 10.1523/JNEUROSCI.3578-07.2007