MIC Publications

The MIC is very proud to help so many research projects come to fruition. Below is a list of many of those publications. If you would like us to include your publication in the list below, please email us a link to your pub or fill out the form here:  https://forms.gle/vjbNkgTB9G4Go7HNA

Please remember to acknowledge us on your papers. It’s super easy: info on how here. 

2024

Han K. D. Le, Ye Zhang, Piush Behera, Arturas Vailionis, Amelyn Phang, Rafaela M. Brinn, and Peidong Yang, Room-Temperature Ferroelectric Epitaxial Nanowire Arrays with Photoluminescence, Nano Lett.2024, 24, 17, 5189–5196, April 18, 2024. https://doi.org/10.1021/acs.nanolett.4c00453

Anneliese M.M. Gest, Vincent Grenier, and Evan W. Miller, Optical Estimation of Membrane Potential Values Using Fluorescence Lifetime Imaging Microscopy and Hybrid Chemical-Genetic Voltage Indicators, Bioelectricity 2024 6:1, 34-41. https://doi.org/10.1089/bioe.2023.002.

Allen KN, Torres-Velarde JM, Vazquez JM, Moreno-Santillán DD, Sudmant PH, Vázquez-Medina JP. Hypoxia exposure blunts angiogenic signaling and upregulates the antioxidant system in endothelial cells derived from elephant seals. BMC Biology. 2024;22(91). https://doi.org/10.1186/s12915-024-01892-3

Gest, AMM, JR Lazzari-Dean, G Ortiz, EW Miller, A red-emitting carborhodamine for monitoring and measuring membrane potential, PNAS, March 29, 2024, 121 (14) e2315264121. https://www.pnas.org/doi/10.1073/pnas.2315264121

2023

Kotov DI, Lee OV, Fattinger SA, Langner CA, Guillen JV, Peters JM, Moon A, Burd EM, Witt KC, Stetson DB, Jaye DL, Bryson BD, Vance RE. Early cellular mechanisms of type I interferon-driven susceptibility to tuberculosis. Cell. 2023 Dec 7;186(25):5536-5553.e22. doi: 10.1016/j.cell.2023.11.002. Epub 2023 Nov 28. PMID: 38029747; PMCID: PMC10757650.

Anneliese M.M. Gest, Vincent Grenier, and Evan W. Miller, Optical Estimation of Membrane Potential Values Using Fluorescence Lifetime Imaging Microscopy and Hybrid Chemical-Genetic Voltage Indicators, Bioelectricity 2024 6:1, 34-41. https://www.liebertpub.com/doi/10.1089/bioe.2023.0027

Wang, A.Y.M., Kulkarni, M.M., McLaughlin, A.J. et al. An ON-type direction-selective ganglion cell in primate retina. Nature 623, 381–386 (2023). https://doi.org/10.1038/s41586-023-06659-4

Ku HY, Harris LK, Bilder D. Specialized cells that sense tissue mechanics to regulate Drosophila morphogenesis. Dev Cell. 2023 Feb 6;58(3):211-223.e5. doi: 10.1016/j.devcel.2023.01.004. Epub 2023 Jan 27. PMID: 36708706.

Preininger MK, Zaytseva D, Lin JM, Kaufer D. Blood-brain barrier dysfunction promotes astrocyte senescence through albumin-induced TGFβ signaling activation. Aging Cell. 2023 Feb;22(2):e13747. doi: 10.1111/acel.13747. Epub 2023 Jan 5. PMID: 36606305; PMCID: PMC9924950.

2022

Graham, Thomas G W; Ferrie, John Joseph; Dailey, Gina M; Tjian, Robert; Darzacq, Xavier, Detecting molecular interactions in live-cell single-molecule imaging with proximity-assisted photoactivation (PAPA), eLife2022 Aug 17; 11.

Zhenni Lin, Maria C. Folgueras, Han K.D. Le, Mengyu Gao, Peidong Yang, Laser-accelerated phase transformation in cesium lead iodide perovskite, Matter, Volume 5, Issue 5, 2022, Pages 1455-1465, ISSN 2590-2385, https://doi.org/10.1016/j.matt.2022.04.002.

Vincent Grenier, Kayli N. Martinez, Brittany R. Benlian, Derek M. García-Almedina, Benjamin K. Raliski, Steven C. Boggess, Johnathan C. Maza, Samantha J. Yang, Anneliese M. M. Gest, and Evan W. Miller, Molecular Prosthetics for Long-Term Functional Imaging with Fluorescent Reporters
ACS Central Science 2022 8 (1), 118-121
DOI: 10.1021/acscentsci.1c01153.

Newman, Z.L., Bakshinskaya, D., Schultz, R. et al. Determinants of synapse diversity revealed by super-resolution quantal transmission and active zone imaging. Nat Commun 13, 229 (2022). https://doi.org/10.1038/s41467-021-27815-2

Percival KA, Gayet J, Khanjian R, Taylor WR, Puthussery T., Calcium-permeable AMPA receptors on AII amacrine cells mediate sustained signaling in the On-pathway of the primate retina, Cell Rep . 2022 Oct 11;41(2):111484. doi: 10.1016/j.celrep.2022.111484.

Sterne G, Otsuna H, Dickson B, Scott K, Classification and genetic targeting of cell types in the primary taste and premotor center of the adult Drosophila brain, eLife. 2021 Sept 2; 10:e71679. https://doi.org/10.7554/eLife.71679.

Aaron B. Sullivan, K. P. Connie Tam, Matteo M. E. Metruccio, David J. Evans, Suzanne M. J. Fleiszig, The Importance of the Pseudomonas aeruginosa Type III Secretion System in Epithelium Traversal Depends upon Conditions of Host Susceptibility, 17 March 2015, https://doi.org/10.1128/IAI.02329-14. 

Newman, Z.L., Bakshinskaya, D., Schultz, R. et al. Determinants of synapse diversity revealed by super-resolution quantal transmission and active zone imaging. Nat Commun 13, 229 (2022). https://doi.org/10.1038/s41467-021-27815-2.

Derek J. Bangs, Alexandra Tsitsiklis,
Zoe ̈ Steier, …, Aaron Streets, Nir Yosef,
Ellen A. Robey, CXCR3 regulates stem and proliferative CD8+ T cells
during chronic infection by promoting interactions
with DCs in splenic bridging channels, Cell Reports, January 2022, https://doi.org/10.1016/j.celrep.2021.110266.

Yao, Z. and K. Scott, Serotonergic neurons translate taste detection into internal nutrient regulation, Neuron, 2022 Mar 16;110(6):1036-1050.e7. doi: 10.1016/j.neuron.2021.12.028. Epub 2022 Jan 19.

Pham, K. L. J., Schmollinger, S., Merchant, S. S., & Strenkert, D. (2022). Chlamydomonas ATX1 is essential for Cu distribution to multiple cupro-enzymes and maintenance of biomass in conditions demanding cupro-enzyme-dependent metabolic pathways. Plant Direct, 6( 2), e383. https://doi.org/10.1002/pld3.383

2021

Benthall, K.N., Cording, K.R., Agopyan-Miu, A.H.C.W., Wong, C.D., Chen, E.Y., and Bateup, H.S. (2021) Loss of Tsc1 from striatal direct pathway neurons impairs endocannabinoid-LTD and enhances motor routine learning. Cell Reports. Aug 10;36(6):109511. PMID: 34380034.

Biering, SB, FT Gomes de Sousa, LV Tjan, F Pahmeier, R Ruan, SF Blanc, TS Patel, CM Worthington, DR Glasner, B Castillo-Rojas, V SErvellita, NTN Lo, MP Wong, CM Warnes, DR Sandoval, TM Clausen, YA Santos, V Ortega, HC Aguilar, JD Esko, CY Chui, JE Pak, PR Beatty, E Harris, SARS-CoV-2 Spike triggers barrier dysfunction and vascular leak via integrins and TGF-β signaling, bioRxiv 2021.12.10.472112;  doi: https://doi.org/10.1101/2021.12.10.472112

McGregor JE, Kunala K , Xu Z, Murphy PJ, Godat T, Strazzeri JM, Bateman BA, Fischer WS, Parkins K, Chu CJ, Puthussery T, Williams DR, Merigan WH, Optogenetic therapy restores retinal activity in primate for at least a year following photoreceptor ablation, PMID: 34547460 doi: 10.1074/jbc.M115.685289.

Loss of Tsc1 from striatal direct pathway neurons impairs endocannabinoid-LTD and enhances motor routine learning, Benthall K*, Cording K*, Agopyan-Miu A, Wong C, Chen E, Bateup H, Cell Reports. 2021 Aug 10;36(6) 109511. doi: 10.1016/j.celrep.2021.109511. 

Biering, SB, SA Sarnik, W Wang, JR Zengel, V Sathyan, X Nguyenla, E Van Dis, C Catamura, LH Yamashiro, A Begeman, JC Stark, DJ Shon, DM Fox, AS Puschnik, CR Bertozzi, JE Carette, SA Stanley, E Harris, S Konermann, PD Hsu, Genome-wide, bidirectional CRISPR screens identify mucins as critical host factors modulating SARS-CoV-2 infection,bioRxiv 2021.04.22.440848; doi: https://doi.org/10.1101/2021.04.22.440848

Gest A, Yaeger-Weiss S, Lazzari-Dean J, Miller E, VoltageFluor dyes and fluorescence lifetime imaging for optical measurement of membrane potential, In Methods in Enzymology; Academic Press Inc., 2021; Vol. 653, pp 267–293. https://doi.org/10.1016/bs.mie.2021.02.009.

Lazzari-Dean, J.R.; Miller, E.W., Optical Estimation of Absolute Membrane Potential Using One- and Two-Photon Fluorescence Lifetime Imaging Microscopy. Bioelectricity. 2021. Accepted.

McLaughlin AJ, Percival KA, Gayet-Primo J, Puthussery T, Glycinergic Inhibition Targets Specific Off Cone Bipolar Cells in Primate Retina, ENEURO.0432-20.2020. 2021 Feb 24;8(1) doi: 10.1523/ENEURO.0432-20.2020.

Boggess, S.C.*; Lazzari-Dean, J.R.*; Raliski, B.K.*; Mun, D.M.; Li, A.Y.; Turnbull, J.L.; Miller, E.W., Fluorescence Lifetime Predicts Performance of Voltage Sensitive Fluorophores in Cardiomyocytes and Neurons. RSC Chem. Biol., 2021, 2, 248-258. DOI: 10.1039/D0CB00152J

Kramer, Daniel J. et al., Generatio of a DAT-P2A-F1po mouse lnie for intersectional genetic targeting of dopaminie neuron subpopulations, Cell Reports, Volume 35, Issue 6, 109123, DOI:https://doi.org/10.1016/j.celrep.2021.109123

Klier PEZ, Martin JG, Miller EW, Imaging Reversible Mitochondrial Membrane Potential Dynamics with a Masked Rhodamine Voltage Reporter, J. Am. Chem. Soc. 2021, 143, 11, 4095–4099, https://doi.org/10.1021/jacs.0c13110.

Delevich K, Okada NJ , Rahane A, Zhang Z, Hall CD, and Wilbrecht L, Sex and Pubertal Status Influence Dendritic Spine Density on Frontal Corticostriatal Projection Neurons in Mice, Cereb Cortex. 2020 May; 30(6): 3543–3557. Published online 2020 Feb 9. doi: 10.1093/cercor/bhz325 PMCID: PMC7232997.

Nguyen AH, Bachtrog D, Toxic Y chromosome: Increased repeat expression and age-associated heterochromatin loss in male Drosophila with a young Y chromosome, PLoS Genet 17(4): e1009438. https://doi.org/10.1371/journal.pgen.1009438

Ehrenberg AJ, Leng K, Letourneau KN, Hernandez I, Lew C, Seeley WW, Spina S, Miller B, Heinsen H, Kampmann M, Kosik KS, Grinberg LT, Patterns of neuronal Rhes as a novel hallmark of tauopathies, Acta Neuropathol. 2021 Mar 7. doi: 10.1007/s00401-021-02279-2. Epub ahead of print.

Chuang HC, Nichols EK, Rauch I, Chang WC, Lin PM, Misra R, Kitaoka M, Vance RE, Saijo K. Lytic cell death in specific microglial subsets is required for preventing atypical behavior in mice, eNeuro, ENEURO.0342-20.2020. https://doi.org/10.1523/ENEURO.0342-20.2020

Biering S, Akey DL, Wong MP, Brown WC, Lo NTN, Puerta-guardo H, Tramontini F, Sousa G De, Wang C, Konwerski JR, Espinosa DA, Bockhaus NJ, Glasner DR, Li J, Blanc SF, Juan EY, Elledge SJ, Mina MJ, Beatty PR, Smith JL, Harris E. 2021. Structural basis for antibody inhibition of flavivirus NS1–triggered endothelial dysfunction. Science (80- ) 200:194–200.

Polina Kosillo, Kamran M Ahmed, Erin E Aisenberg, Vasiliki Karalis, Bradley M Roberts, Stephanie J Cragg, Helen S Bateup (2022) Dopamine neuron morphology and output are differentially controlled by mTORC1 and mTORC2 eLife 11:e75398. https://doi.org/10.7554/eLife.75398

2020

Puerta-Guardo H, Tabata T, Petitt M, Dimitrova M, Glasner DR, Pereira L, Harris E. 2020. Zika Virus Nonstructural Protein 1 Disrupts Glycosaminoglycans and Causes Permeability in Developing Human Placentas. J Infect Dis 221:313–324.

Zhang Y, Li M, Ly A, Flannery JG, Wildseot CF, scAAV.7M8 and VMD2 promoter as novel gene delivery tools targeting chicken RPE, ARVO Conference Abstract, June 2020. https://iovs.arvojournals.org/article.aspx?articleid=2766765

Belardi B, Hamkins-Indik T, Harris AR, Kim J, Xu K, Fletcher DA, A Weak Link with Actin Organizes Tight Junctions to Control Epithelial Permeability, Dev Cell. Published online 2020. doi:10.1016/j.devcel.2020.07.022

McLaughlin AJ, KA Percival, J Gayet-Primo, T Puthussery, Rod signals are routed through specific Off cone bipolar cells in primate retina. Now published in eneuro doi: 10.1523/ENEURO.0432-20.2020

Jeeawoody S, Yamauchi KA, Su A, Herr AE, Laterally aggregated polyacrylankde gels for immunoprobed isoelectric focusing, analytical chemistry https://pubs.acs.org/doi/abs/10.1021/acs.analchem.9b04913.

Moss A, Herr A, In-gel fluorescence detection by DNA polymerase elongation, APL Bioengineering. 2020 Nov 20; 4(4). doi: 10.1063/5.0021149. 

Harris, A.R., Jreij, P., Belardi, B. et al. Biased localization of actin binding proteins by actin filament conformation. Nat Commun 11, 5973 (2020). https://doi.org/10.1038/s41467-020-19768-9

Grist, SM, AP Mourdoukoutas, AE Herr, 3D projection electrophoresis for single-cell immunoblotting, bioRxiv, Sep 2020, doi: https://doi.org/10.1101/805770

Author links open overlay panel

Bidaye, SS, M Laturney, AJ Chang, Y Liu, T Bockemühl, A Büschges, K Scott, Two Brain Pathways Initiate Distinct Forward Walking Programs in Drosophila, Neuron, August 2020, https://doi.org/10.1016/j.neuron.2020.07.032.

Su A, Smith BE, Herr AE, In situ measurement of thermodynamic partitioning in open hydrogels, Analytical Chemistry, 2020, 92(1):875-883.

Hansen AS, Amitai A, Cattoglio C, Tjian R & Darzacq X, Guided nuclear exploration increases CTCF target search efficiency, Nat Chem Biol 16, 257–266 (2020). https://doi.org/10.1038/s41589-019-0422-3. 

Delevich K, Okada NJ, Rahane A, Zhang Z, Hall CD, and Wilbrecht L, Sex and Pubertal Status Influence Dendritic Spine Density on Frontal Corticostriatal Projection Neurons in Mice, Cerebral Cortex, Volume 30, Issue 6, June 2020, Pages 3543–3557, https://doi.org/10.1093/cercor/bhz325.

Khoury MJ, Bilder D, Distinct activities of Scrib module proteins organize epithelial polarity, PNAS May 2020, 117 (21) 11531-11540; DOI: 10.1073/pnas.1918462117, https://pubmed.ncbi.nlm.nih.gov/32414916/.

Hernández-Morales M, Shang T, Chen J, Han V, Liu C, Lipid Oxidation Induced by RF Waves and Mediated by Ferritin Iron Causes Activation of Ferritin-Tagged Ion Channels, https://doi.org/10.1016/j.celrep.2020.02.070.

Yang Y, Li G, Chen L, High resolution three-dimensional imaging of the ocular surface and intact eyeball using tissue clearing and light sheet microscopy, Ocul Surf. 2020;18(3):526-532. doi:10.1016/j.jtos.2020.04.009. 

Hansen AS, Amitai A, Cattoglio C, Tjian R & Darzacq X, Guided nuclear exploration increases CTCF target search efficiency, Nat Chem Biol 16, 257–266 (2020). https://doi.org/10.1038/s41589-019-0422-3.

Chen J, Ananthanarayanan B, Springer KS, Wolf KJ, Sheyman SM, Tran VD, and Kumar S, Suppression of LIM Kinase 1 and LIM Kinase 2 Limits Glioblastoma Invasion, Cancer Res; 80(1): 69-78 January 1, 2020, 10.1158/0008-5472.CAN-19-1237.

2019

Naka, A, J Veit, B Shababo, RK Chance, D Risso, D Stafford, B Snyder, A Egladyous, D Chu, S Sridharan, DP Mossing, L Paninski, J Ngai, H Adesnik, Complementary networks of cortical somatostatin interneurons enforce layer specific control, eLife 2019;8:e43696 DOI: 10.7554/eLife.43696.

Walsh CM, Hill RZ, Schwendinger-Schreck J, Deguine J, Brock EC, Kucirek N, Rifi Z, Wei J, Gronert K, Brem RB, Barton DM, Bautista DM, Neutrophils promote CXCR3-dependent itch in the development of atopic dermatitis, eLife 2019;8:e48448, doi: 10.7554/eLife.48448.

McSwiggen DT,Hansen AS, Teves SS, Marie-Nelly H, Hao Y, Heckert AB, Umemoto KK, Dugast-Darzacq C, Tjian R & Darzacq X, Evidence for DNA-mediated nuclear compartmentalization distinct from phase separation, eLife 2019;8:e47098 DOI: 10.7554/eLife.47098.

Jing Liu and Scott C. Baraban. Network Properties Revealed during Multi-Scale Calcium Imaging of Seizure Activity in Zebrafish. eNeuro. 2019 Jan-Feb; 6(1): ENEURO.0041-19.2019. doi: 10.1523/ENEURO.0041-19.2019

Kosillo, P., Doig, N.M., Ahmed, K.M. et al. Tsc1-mTORC1 signaling controls striatal dopamine release and cognitive flexibility. Nat Commun 10, 5426 (2019) doi:10.1038/s41467-019-13396-8. DOI . https://doi.org/10.1038/s41467-019-13396-8

Lazzari-Dean JR, Gest AM, Miller EW. Optical estimation of absolute membrane potential using fluorescence lifetime imaging. Elife. 2019;8:e44522. Published 2019 Sep 23. doi:10.7554/eLife.44522.

Zhang, Y, D Lua, M Gao, M Lai , J Lin , T Lei , Z Lin, LN Quan, and P Yang, Quantitative imaging of anion exchange kinetics in halide perovskites, PNAS (2019). https://www.pnas.org/cgi/doi/10.1073/pnas.1903448116

Su, EJ, Jeeawoody, S, AE Herr, Protein diffusion from microwells with contrasting hydrogel domains, APL Bioeng. 3, 026101, https://doi.org/10.1063/1.5078650.

Prashant C. Donthamsetti, Johannes Broichhagen, Vojtech Vyklicky, Cherise Stanley, Zhu Fu, Meike Visel, Joshua L. Levitz, Jonathan A. Javitch, Dirk Trauner, and Ehud Y. Isacoff, Genetically Targeted Optical Control of an Endogenous G Protein-Coupled Receptor, Journal of the American Chemical Society 2019 141 (29), 11522-11530, DOI: 10.1021/jacs.9b02895.

Pedersen RTA, Drubin DG. (2019) Type I myosins anchor actin assembly to the plasma membrane during clathrin-mediated endocytosis, J Cell Bio, Apr 1;218(4):1138-1147. doi: 10.1083/jcb.201810005.

Martinez Marshall MN, Emmerstorfer-Augustin A, Leskoske KL, Zhang LH, Li B, Thorner J. (2019) Analysis of the roles of phosphatidylinositol-4,5- bisphosphate and individual subunits in assembly, localization and function of Saccharomyces cerevisiae Target of Rapamycin Complex 2, Mol Biol Cell. 2019 Apr 10:mbcE18100682. doi: 10.1091/mbc.E18-10-0682. 

Wang L, AJ De Solis, Y Goffer, KE Birkenbach, SE Engle, R Tanis, JM Levenson, X Li, R Rausch, M Purohit, J-Y Lee, J Tan, MC De Rosa, CA Doege, HL Aaron, GJ Martins, JC Brüning, D Egli, R Costa, N Berbari, RL Leibel, G Stratigopoulos. (2019) Ciliary gene RPGRIP1L is required for hypothalamic arcuate neuron development, JCI Insight, 2019; 4(3):e123337.  https://doi.org/10.1172/jci.insight.123337.

2018

Yuan L, Kenny SJ, Hemmati J, Xu K, Schekman R. TANGO1 and SEC12 are copackaged with procollagen I to facilitate the generation of large COPII carriers, Proc Natl Acad Sci U S A. 2018 Dec 26;115(52):E12255-E12264. doi: 10.1073/pnas.1814810115. Epub 2018 Dec 13.

Chong S, Dugast-Darzacq C, Liu Z, Dong P, Dailey GM, Cattoglio C, Heckert A, Banala S, Lavis L, Darzacq X, Tjian R. Imaging dynamic and selective low-complexity domain interactions that control gene transcription, Science. 2018 Jul 27;361(6400). pii: eaar2555. doi: 10.1126/science.aar2555. Epub 2018 Jun 21.

Wolf KJ, Lee S, Kumar S, A. 3D topographical model of parenchymal infiltration and perivascular invasion in glioblastoma, APL Bioengineering 2, 031903 (2018); https://doi.org/10.1063/1.5021059.

Beckwith-Cohen B, Holzhausen LC, Wang TM, Rajappa R, Kramer RH (2018). Localizing Proton-Mediated Inhibitory Feedback at the Retinal Horizontal Cell-Cone Synapse with Genetically-Encoded pH Probes, JNeuro, 1541, DOI: 10.1523/JNEUROSCI.1541-18.2018

Lu D, Zhang Y, Lai M, Lee A, Xie C, Lin J, Lei T, Lin Z, Kley CS, Huang J, Rabani E, Yang P. (2018), Giant Light-Emission Enhancement in Lead Halide Perovskites by Surface Oxygen Passivation, Nano Lett., 18 (11), pp 6967 – 6973, https://pubs.acs.org/doi/abs/10.1021/acs.nanolett.8b02887

Blair JD, Hockemeyer D, Bateup HS (2018), Genetically engineered human cortical spheroid models of tuberous sclerosis, Nat Med. 2018 Oct;24(10):1568-1578. doi: 10.1038/s41591-018-0139-y. Epub 2018 Aug 20.

Xiao, T., Ackerman, C.M., Carroll, E.C. et al. Copper regulates rest-activity cycles through the locus coeruleus-norepinephrine system. Nat Chem Biol 14, 655–663 (2018) doi:10.1038/s41589-018-0062-z.

Tiriac A, Smith BE, Feller MB. (2018) Light Prior to Eye Opening Promotes Retinal Waves and Eye-Specific Segregation, Neuron. 6273(18) 30899-7. doi: 10.1016/j.neuron.2018.10.011

Fazel Darbandi S, Robinson Schwartz SE, Qi Q, Catta-Preta R, Pai EL, Mandell JD, Everitt A, Rubin A, Krasnoff RA, Katzman S, Tastad D, Nord AS, Willsey AJ, Chen B, State MW, Sohal VS, Rubenstein JLR, Neonatal Tbr1 Dosage Controls Cortical Layer 6 Connectivity, Neuron , Volume 100 , Issue 4 , 831 – 845.e7. doi: 10.1016/j.neuron.2018.09.027

Zachary Louis Newman, Adam Hoagland, Krishan Aghi, Kurtresha Lumanlan Worden, Sabrina Leah Levy, Jun Ho Son, Luke PyungSe Lee, and Ehud Yeheskel Isacoff, Input-specific plasticity and homeostasis at the Drosophila larval neuromuscular junction, Neuron, March 22, 2018, https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5464967/

Schaum, et al., Single-cell transcriptomics of 20 mouse organs creates a Tabula Muris, Nature, October 3, 2018, https://www.nature.com/articles/s41586-018-0590-4.

Boehning M, Dugast-Darzacq C, Rankovic M, Hansen AS, Yu T, Marie-Nelly H, McSwiggen DT, Kokic G, Dailey GM, Cramer P, Darzacq X, Zweckstetter M., RNA polymerase II clustering through carboxy-terminal domain phase separation, Nat Struct Mol Biol. 2018 Aug 20. doi: 10.1038/s41594-018-0112-y. [Epub ahead of print] PMID: 30127355

Chong S, Dugast-Darzacq C, Liu Z, Dong P, Dailey GM, Cattoglio C, Heckert A, Banala S, Lavis L, Darzacq X, Tjian R., Imaging dynamic and selective low-complexity domain interactions that control gene transcription, Science. 2018 Jul 27;361(6400). pii: eaar2555. doi: 10.1126/science.aar2555. Epub 2018 Jun 21. PMID: 29930090

Taro Ohkawa and Matthew D. Welch (2018), Baculovirus Actin-Based Motility Drives Nuclear Envelope Disruption and Nuclear Egress, Current Biology, DOI: https://doi.org/10.1016/j.cub.2018.05.027

Ryan D. Morrie & Marla B. Feller (2018), A Dense Starburst Plexus Is Critical for Generating Direction Selectivity. Current Biology, 28(8), 1204–1212. http://doi.org/10.1016/j.cub.2018.03.001

Jen-Yi Lee and Maiko Kitaoka (2018), A beginner’s guide to rigor and reproducibility in fluorescence imaging experiments, MBoC, Published Online:28 Jun 2018https://doi.org/10.1091/mbc.E17-05-0276.

Jacqueline Gayet-Primo, Yaeger DB, Khanjian RA, Puthussery T (2018), Heteromeric KV2/KV8.2 Channels Mediate Delayed Rectifier Potassium Currents in Primate Photoreceptors, J Neurosci. 2018 Apr 4;38(14):3414-3427. PMID: 29483285 PMCID: PMC5895036 [Available on 2018-10-04] DOI: 10.1523/JNEUROSCI.2440-17.2018.

Daniel J. Kramer, Davide Risso, Polina Kosillo, John Ngai and Helen S. Bateup (2018), Combinatorial Expression of Grp and Neurod6 Defines Dopamine Neuron Populations with Distinct Projection Patterns and Disease Vulnerability, ENEURO 0152-18.2018. DOI: https://doi.org/10.1523/ENEURO.0152-18.2018.

Katelyn N. Benthall, Stacie L. Ong, Helen S. Bateup (2018), Corticostriatal Transmission Is Selectively Enhanced in Striatonigral Neurons with Postnatal Loss of Tsc1, https://doi.org/10.1016/j.celrep.2018.05.037.

Rose Z Hill, Benjamin U Hoffman, Takeshi Morita, Stephanie M Campos, Ellen A Lumpkin, Rachel B Brem, Diana M Bautista (2018), The signaling lipid sphingosine 1-phosphate regulates mechanical pain, eLife 2018;7:e33285 DOI: 10.7554/eLife.33285.

Gibeaux R, Acker R, Kitaoka M, Georgiou G, van Kruijsbergen I, Ford B, Marcotte EM, Nomura DK, Kwon T, Veenstra GJC, Heald R. (2018), Paternal chromosome loss and metabolic crisis contribute to hybrid inviability in Xenopus, Nature. 2018 Jan 18;553(7688):337-341. doi: 10.1038/nature25188. Epub 2018 Jan 10.

2017

Newman ZL, Hoagland, A, Aghi K, Worden KL, Levy SL, Son JH, Lee LP, Isacoff EY. Input-specific plasticity and homeostasis at the Drosophila larval neuromuscular junction. Neuron 2017; 93:1388–1404. PMCID: PMC5464967; https://dx.doi.org/10.1016%2Fj.neuron.2017.02.028

Kassianidou E, JH Hughes, S Kumar, Activation of ROCK and MLCK tunes regional stress fiber formation and mechanics via preferential myosin light chain phosphorylation, MBoC, Vol. 28, No. 26, 18 Oct 2017https://doi.org/10.1091/mbc.e17-06-0401.

Livne-Bar I, Wei J, Liu HH, Alqawlaq S, Won GJ, Tuccitto A et al. Astrocyte-derived lipoxins A4 and B4 promote neuroprotection from acute and chronic injury. The Journal of Clinical Investigation, 2017, 127(12):4403-4414. PMID:29106385.

Crest, J, A Diz-Muñoz, DY Chen, DA Fletcher, D Bilder (2017), Organ sculpting by patterned extracellular matrix stiffness, eLife 2017;6:e24958 DOI: 10.7554/eLife.24958

Kimberly M. Sogi, Katie A. Lien, Jeffrey R. Johnson, Nevan J. Krogan, and Sarah A. Stanley (2017), The Tyrosine Kinase Inhibitor Gefitinib Restricts Mycobacterium tuberculosis Growth through Increased Lysosomal Biogenesis and Modulation of Cytokine Signaling, ACS Infect. Dis., 2017, 3 (8), pp 564–574.

2016

Carlos Pantoja, Adam Hoagland, Elizabeth C. Carroll, Vasiliki Karalis, Alden Conner, Ehud Y. Isacoff (2016), Neuromodulatory Regulation of Behavioral Individuality in Zebrafish, Neuron, Volume 91, Issue 3, Pages 587-601, https://doi.org/10.1016/j.neuron.2016.06.016.

Bos R, Gainer C, Feller MB (2016), Role for Visual Experience in the Development of Direction-Selective Circuits, Curr Biol. 2016 May 23;26(10):1367-75. doi: 10.1016/j.cub.2016.03.073.

Chen DY, Lipari KR, Dehghan Y, Streichan SJ, Bilder D (2016), Symmetry Breaking in an Edgeless Epithelium by Fat2-Regulated Microtubule Polarity, Cell Rep.  May 10;15(6):1125-33. doi: 10.1016/j.celrep.2016.04.014.

Berlin, S., Szobota, S., Reiner, A., Carroll, E. C., Kienzler, M. A., Guyon, A., … Isacoff, E. Y. (2016), A family of photoswitchable NMDA receptors. Raman IM, ed. eLife. 2016;5:e12040. doi:10.7554/eLife.12040.

Harris RE, Setiawan L, Saul J, Hariharan IK (2016), Localized epigenetic silencing of a damage-activated WNT enhancer limits regeneration in mature Drosophila imaginal discs. Elife. Feb 3;5. pii: e11588. doi: 10.7554/eLife.11588.

Bandaria, P. Qin, V. Berk, S. Chu, and A. Yildiz (2016), Shelterin Protects Chromosome Ends by Compacting Telomeric Chromatin, Feb 11;164(4):735-46. doi: 10.1016/j.cell.2016.01.036.

Levitz, J., Popescu, A. T., Reiner, A., & Isacoff, E. Y. (2016). A Toolkit for Orthogonal and in vivo Optical Manipulation of Ionotropic Glutamate Receptors. Frontiers in Molecular Neuroscience, 9, 2. http://doi.org/10.3389/fnmol.2016.00002.

Palty, R., & Isacoff, E. Y. (2016). Cooperative Binding of Stromal Interaction Molecule 1 (STIM1) to the N and C Termini of Calcium Release-activated Calcium Modulator 1 (Orai1). The Journal of Biological Chemistry, 291(1), 334–341. http://doi.org/10.1074/jbc.M115.685289.

Gao Y, Min K, Zhang Y, Su J, Greenwood M, and Gronert K (2016). Female-Specific Downregulation of Tissue Polymorphonuclear Neutrophils Drives Impaired Regulatory T Cell and Amplified Effector T Cell Responses in Autoimmune Dry Eye Disease, J Immunology. https://www.ncbi.nlm.nih.gov/pubmed/26324767

Berlin S, Carroll EC, Newman ZL, Okada HO, Quinn CM, Kallman B, Rockwell NC, Martin SS, Lagarias JC, and Isacoff EY (2016)  Photoactivatable genetically encoded calcium indicators for targeted neuronal imaging, Nat Methods. https://www.ncbi.nlm.nih.gov/pubmed/26167640

Chang CW and Kumar S (2016). Differential Contributions of Nonmuscle Myosin II Isoforms and Functional Domains to Stress Fiber Mechanics, Sci Rep. DOI: 10.1038/srep13736

2015

Gaub, B. M., Berry, M. H., Holt, A. E., Isacoff, E. Y., & Flannery, J. G. (2015). Optogenetic Vision Restoration Using Rhodopsin for Enhanced Sensitivity. Molecular Therapy, 23(10), 1562–1571. http://doi.org/10.1038/mt.2015.121.

Berlin, S., Carroll, E. C., Newman, Z. L., Okada, H. O., Quinn, C. M., Kallman, B., … Isacoff, E. Y. (2015). Photoactivatable Genetically-Encoded Calcium Indicators for targeted neuronal imaging. Nature Methods, 12(9), 852–858. http://doi.org/10.1038/nmeth.3480.

Rosa, J. M., Bos, R., Sack, G. S., Fortuny, C., Agarwal, A., Bergles, D. E., … Feller, M. B. (2015). Neuron-glia signaling in developing retina mediated by neurotransmitter spillover. eLife, 4, e09590. http://doi.org/10.7554/eLife.09590.

Crowder, M. E., Strzelecka, M., Wilbur, J. D., Good, M. C., von Dassow, G., & Heald, R. (2015). A comparative analysis of spindle morphometrics across metazoans. Current Biology : CB, 25(11), 1542–1550. http://doi.org/10.1016/j.cub.2015.04.036.

D.E. Liu, T.J. Dursch, Y. Oh, D.T. Bregante, S.Y. Chan, C.J. Radke (2015), Equilibrium water and solute uptake in silicone hydrogels, Acta Biomaterialia, Volume 18; 112-117, https://doi.org/10.1016/j.actbio.2015.02.019.

T.J. Dursch, D.E. Liu, Y. Oh, C.J. Radke (2015), Fluorescent solute-partitioning characterization of layered soft contact lenses,    Acta Biomaterialia, Volume 15; 48-54, https://doi.org/10.1016/j.actbio.2014.11.046.

Carroll, E. C., Berlin, S., Levitz, J., Kienzler, M. A., Yuan, Z., Madsen, D., … Isacoff, E. Y. (2015). Two-photon brightness of azobenzene photoswitches designed for glutamate receptor optogenetics. PNAS, 112(7), E776–E785. http://doi.org/10.1073/pnas.1416942112.

Hoepker AC, Wang A, Le Marois A, Suhling K, Yan Y, and Marriott G (2015). Genetically encoded sensors of protein hydrodynamics and molecular proximity, Proc National Academy Science USA. 112(20:E2569-74). https://www.ncbi.nlm.nih.gov/pubmed/25931526

Ball RW, Peled ES, Guerrero G, and Isacoff EY (2015). BMP signaling and microtubule organization regulate synaptic strength, Neuroscience. 2015 April 16;291:155-66. DOI: 101.106/j.neuroscience.2015.01.069.

Reiner A, Levitz J, and Isacoff EY (2015). Controlling ionotropic and metabotropic glutamate receptors with light: principles and potential (2015). Current Opin Pharamacology. 2015 Feb; 20:135-43. DOI: 10.1016/j.coph.2014.12.008

Friedmann D, Hoagland A, Berlin S, and Isacoff EY (2015) A spinal opsin controls early neural activity and drives a behavioral light response. Current Biology. 2014 Dec, 4. DOI: https://doi.org/10.1016/j.cub.2014.10.055

2014

Gaub BM, Berry MH, Holt AE, Reiner A, Kienzler MA, Dolgova N, Nikonov S, Aguirre GD, Beltran WA, Flannery JG, and Isacoff EY (2014) Restoration of visual function by expression of a light-gated mammalian ion channel in retinal ganglion cells or ON-bipolar cells. Proc National Academy Science. 2014 Dec 23. DOI: 10.1073/pnas.1414162111

Paszek, M. J., DuFort, C. C., Rossier, O., Bainer, R., Mouw, J. K., Godula, K., … Weaver, V. M. (2014). The cancer glycocalyx mechanically primes integrin-mediated growth and survival. Nature, 511(7509), 319–325. http://doi.org/10.1038/nature13535.

Truong, T. N., Li, H., Hong, Y.-K., & Chen, L. (2014). Novel Characterization and Live Imaging of Schlemm’s Canal Expressing Prox-1. PLoS ONE, 9(5), e98245. http://doi.org/10.1371/journal.pone.0098245.

Truong, T., Huang, E., Yuen, D., & Chen, L. (2014). Corneal Lymphatic Valve Formation in Relation to Lymphangiogenesis. Investigative Ophthalmology & Visual Science, 55(3), 1876–1883. http://doi.org/10.1167/iovs.13-12251.

Pool AH, Kvello P, Mann K, Cheung SK, Gordon MD, Wang L, and Scott K (2014) Four GABAergic interneurons impose feeding restraint in drosophila. Neuron 2014 Jul 2. DOI: 10.1016/j.neuron.2014.05.006

Forster R, Chiba K, Schaeffer L, Regalado SG, Lai CS, Gao Q, Kiani S, Farin HF, Clevers H, Cost GJ, Chan A, Rebar EJ, Umov FD, Gregory PD, Pachter L, Jaenisch R, and Hockemeyer D. (2014) Human intestinal tissue with adult stem cell properties derived from pluripotent stem cells Stem Cell Reports 2014 Jun 3. DOI: 10.1016/j.stemcr.2014.05.001

Riera CE, Huising MO, Follett P, Leblanc M, Halloran J, Van Andel R, de Magalhaes Filho CD, Merkwirth C, and Dillin A (2014) TRPV1 pain receptors regulate longevity and metabolism by neuropeptide signaling Cell 2014 May 22: 157(5):1023-36. DOI: 10.1016/j.cell.2014.03.051

Reiner A and Isacoff EY (2014) Tethered ligands reveal glutamate receptor desensitization depends on subunit occupancy National Chemical Biology 2014 April; 10(4):273-80. DOI: 10.1038/nchembio.1458

Peled ES, Newman ZL, and Isacoff EY (2014) Evoked and spontaneous transmission favored by distinct sets of synapses Current Biology 2014 MAr 3; 24(5): 484-93. DOI: 101.1016/j.cub.2014.01.022

Dursch TJ, Taylor NO, Liu DE, Wu RY, Prausnitz JM, and Radke CJ (2014) Water soluble drug partitioning and adsorption in HEMA/MAA hydrogels 2014 Jan;35(2):620-9. DOI 10.1016/j.biomaterials.2103.09.109

2013

Liu DE, Kotsmar C, Nguyen F, Sells T, Taylor NO, Prausnitz JM, and Radke CJ (2013) Macromolecule sorption and diffusion in HEMA/MAA hydrogels American Chemical Society 2013 November 14; pp 18109-18120. DOI: 10.1021/ie402148u

Pinto L. Goard MJ, Estandian D, Xu M, Kwan AC, Lee SH, Harrison TC, Feng G, and Dan Y (2013) Fast modulation of visual perception by basal forebrain cholinergic neurons National Neuroscience 2013 Dec; 16(12):1857-1863. DOI: 10.1038/nn.3552

Chang CW and Kumar S (2013) Vinculin tension distributions of individual stress fibers within cell-matrix adhesions  Journal Cell Science 2013; 126: 3021-3030. DOI 10.1242/jcs.119032

Kirby ED, Muroy SE, Sun WG, Covarrubias D, Leong MJ, Barchas LA, and Kaufer D (2013) Acute stress enhances adult rat hippocampal neurogenesis and activation of newborn neurons via secreted astrocytic FGF2. Elife 2013 Apr 16;2:e00362. DOI: 10.7554/eLife.00362

Levitz J, Pantoja C, Gaub B, Janovjak H, Reiner A, Hoagland A, Schoppik D, Kane B, Stawaski P, Schier AF, Trauner D, and Isacoff EY (2013) Optical control of metabotropic glutamate receptors National Neuroscience 2013 Apri; 16(4):507-16. DOI: 10.1038/nn.3346

Miyashita T, Shao YR, Chung K, Pourzia O, and Feldman DE (2013) Long-term channelrhodopsin-2 (ChR2) expression can induce abnormal axonal morphology and targeting in cerebral cortex Front Neural Circuits 2013 Jan 31; 7:8. DOI: 10.3389/fncir.2013.00008

Katibah GE, Lee HJ, Huizar JP, Vogan JM, Alber T, and Collins K (2013) tRNA binding, structure, and localization of the human interferon-induced protein IFIT5 Molecular Cell 2013 Feb 21;49(4):743-50. DOI: 10.1016/j.molcel.2012.12.015

M. Way, M. D. Welch, Arp2/3-mediated actin-based motility: a tail of pathogen abuse. (2013) Cell Host Microbe 14, 242-255.

2012

Smith, Charlotte & Berk, Sharon & Brandl, Maria & Riley, Lee. (2012). Survival characteristics of diarrheagenic Escherichia coli pathotypes and Helicobacter pylori during passage through the free-living ciliate, Tetrahymena sp. FEMS microbiology ecology. 82. 10.1111/j.1574-6941.2012.01428.x.

Delaune EA, Francois P, Shih NP, and Amacher SL (2012) Single-cell-resolution imaging of the impact of Notch signaling and mitosis on segmentation clock dynamics Development Cell. 2012 Nov 13; 23(5):995-1005. DOI: 10.10106/j.devcel.2012.09.009

Warp E, Agarwal G, Wyart C, Friedmann D, Oldfield CS, Conner A, Del Bene F, Arrenberg AB, Baier H, and Isacoff EY (2012) Emergence of patterned activity in the developing zebrafish spinal cord Current Biology 2012 Jan 24; 22(2):93-102. DOI: 10.1016/j.cub.2011.12.002

Earlier

Yudushkin IA and Vale RD (2010) Imaging T-cell receptor activation reveals accumulation of tyrosine-phosphorylated CD3ζ in the endosomal compartment  Proc National Academy Science U.S.A 2010 Dec 21; 107(51):22128-33. DOI: 10.1073/pnas.1016388108

Ladi E, Schwickert Ta, Chtanova T, Chen Y. Herzmark P, Yin X, Aaron H, Chan SW, Lipp M, Roysam B, and Robey EA (2008) Thymocyte-dendritic cell interactions near sources of CCR7 ligands in the thymic cortex. J Immunology 2008 Nov 15; 181(10): 7014-23

Zhu L, Zhou R, Mettler S, Wu T, Abbas A, Delaney J, and Forte JG (2007) High turnover of ezrin T567 phosphorylation: conformation, activity, and cellular function  American Journal of Physiological Cell Physiology 2007 Sep; 293(3):C874-84

Szobota S, Gorostiza P, Del Bene F, Wyart C, Fortin DL, Kolstad KD, Tulyathan O, Volgrad M, Numano R, Aaron HL, Scott EK, Kramer RH, Flnnery J, Baier H, Trauner D, and Isacoff EY (2007) Remote control of neuronal activity with a light-gated glutamate receptor Neuron 2077 May 24;54(4):535-45

Witt Cm Raychaudhuri S, and Chakraborty AK (2005) Movies, measurement, and modeling: the three Ms of mechanistic immunology. J Exp Med 2005 Feb 21;201(4):501-4

Wilt CM and Robey EA (2005)  Thymopoiesis in 4 dimensions. Semin Immunol 2005 Feb; 17(1):95-102

Henry CA and Amacher SL (2004) Zebrafish slow muscle cell migration induces a wave of fast muscle morphogenesis. Development Cell 2004 Dec; 7(6):917-23

Daggett DF, and Boyd CA, Gautier P, and Bryson-Richardson RJ, Thisse C, Thisse B, Amacher Sl, and Currie PD (2004) Developmentally restricted actin-regulatory molecules control morphogenetic cell movements in the zebrafish gastrula Current Biology 2004 Sep 21; 14(18):1632-8

Rea R, Li J, Dharia A, Levitan ES, Sterling P, and Kramer RH (2004) Streamlined synaptic vesicle cycle in cone photoreceptor terminals Neuron 2004 Mar 4;41(5):755-66

Hybiske K, Ichikawa JK, Huang V, Lory SJ, and Machen TE (2004) Cystic fibrosis airway epithelial cell polarity and bacterial flagellin determine host response to Pseudomonas aeruginosa Cell Microbiology. 2004 Jan;6(1):49-63

Henry CA, Urban MK, Dill KK, Merlie JP, Page MF, Kimmel CB, and Amacher SL (2002) Two linked hairy/Enhancer of split-related zebrafish genes, her1 and her7, function together to refine alternating somite boundaries Development 2002 Aug; 129(15):3693-704