Philipp J. Keller - Publications

2011- Janelia Farm Research Campus - HHMI, Ashburn, VA, United States 

72 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2023 Farrants H, Shuai Y, Lemon WC, Hernandez CM, Yang S, Patel R, Qiao G, Frei MS, Grimm JB, Hanson TL, Tomaska F, Turner GC, Stringer C, Keller PJ, Beyene AG, et al. A modular chemigenetic calcium indicator enables in vivo functional imaging with near-infrared light. Biorxiv : the Preprint Server For Biology. PMID 37503182 DOI: 10.1101/2023.07.18.549527  0.703
2022 Malin-Mayor C, Hirsch P, Guignard L, McDole K, Wan Y, Lemon WC, Kainmueller D, Keller PJ, Preibisch S, Funke J. Automated reconstruction of whole-embryo cell lineages by learning from sparse annotations. Nature Biotechnology. PMID 36065022 DOI: 10.1038/s41587-022-01427-7  0.752
2021 Keller JP, Marvin JS, Lacin H, Lemon WC, Shea J, Kim S, Lee RT, Koyama M, Keller PJ, Looger LL. In vivo glucose imaging in multiple model organisms with an engineered single-wavelength sensor. Cell Reports. 35: 109284. PMID 34161775 DOI: 10.1016/j.celrep.2021.109284  0.753
2020 Azizi A, Herrmann A, Wan Y, Buse SJ, Keller PJ, Goldstein RE, Harris WA. Nuclear crowding and nonlinear diffusion during interkinetic nuclear migration in the zebrafish retina. Elife. 9. PMID 33021471 DOI: 10.7554/eLife.58635  0.637
2020 Ueda HR, Dodt HU, Osten P, Economo MN, Chandrashekar J, Keller PJ. Whole-Brain Profiling of Cells and Circuits in Mammals by Tissue Clearing and Light-Sheet Microscopy. Neuron. 106: 369-387. PMID 32380050 DOI: 10.1016/J.Neuron.2020.03.004  0.367
2020 Ueda HR, Ertürk A, Chung K, Gradinaru V, Chédotal A, Tomancak P, Keller PJ. Tissue clearing and its applications in neuroscience. Nature Reviews. Neuroscience. PMID 31896771 DOI: 10.1038/S41583-019-0250-1  0.396
2019 Sato Y, Hilbert L, Oda H, Wan Y, Heddleston JM, Chew TL, Zaburdaev V, Keller P, Lionnet T, Vastenhouw N, Kimura H. Histone H3K27 acetylation precedes active transcription during zebrafish zygotic genome activation as revealed by live-cell analysis. Development (Cambridge, England). 146. PMID 31570370 DOI: 10.1242/Dev.179127  0.557
2019 Wan Y, Wei Z, Looger LL, Koyama M, Druckmann S, Keller PJ. Single-Cell Reconstruction of Emerging Population Activity in an Entire Developing Circuit. Cell. PMID 31564455 DOI: 10.1016/J.Cell.2019.08.039  0.589
2019 Hörl D, Rojas Rusak F, Preusser F, Tillberg P, Randel N, Chhetri RK, Cardona A, Keller PJ, Harz H, Leonhardt H, Treier M, Preibisch S. BigStitcher: reconstructing high-resolution image datasets of cleared and expanded samples. Nature Methods. PMID 31384047 DOI: 10.1038/S41592-019-0501-0  0.458
2019 Wan Y, McDole K, Keller PJ. Light-Sheet Microscopy and Its Potential for Understanding Developmental Processes. Annual Review of Cell and Developmental Biology. PMID 31299171 DOI: 10.1146/Annurev-Cellbio-100818-125311  0.647
2019 Djabrayan NJ, Smits CM, Krajnc M, Stern T, Yamada S, Lemon WC, Keller PJ, Rushlow CA, Shvartsman SY. Metabolic Regulation of Developmental Cell Cycles and Zygotic Transcription. Current Biology : Cb. PMID 30880009 DOI: 10.1016/J.Cub.2019.02.028  0.698
2018 Vladimirov N, Wang C, Höckendorf B, Pujala A, Tanimoto M, Mu Y, Yang CT, Wittenbach JD, Freeman J, Preibisch S, Koyama M, Keller PJ, Ahrens MB. Brain-wide circuit interrogation at the cellular level guided by online analysis of neuronal function. Nature Methods. 15: 1117-1125. PMID 30504888 DOI: 10.1038/S41592-018-0221-X  0.332
2018 Royer LA, Lemon WC, Chhetri RK, Keller PJ. A practical guide to adaptive light-sheet microscopy. Nature Protocols. PMID 30367170 DOI: 10.1038/S41596-018-0043-4  0.749
2018 McDole K, Guignard L, Amat F, Berger A, Malandain G, Royer LA, Turaga SC, Branson K, Keller PJ. In Toto Imaging and Reconstruction of Post-Implantation Mouse Development at the Single-Cell Level. Cell. PMID 30318151 DOI: 10.1016/J.Cell.2018.09.031  0.47
2018 Wolff C, Tinevez JY, Pietzsch T, Stamataki E, Harich B, Guignard L, Preibisch S, Shorte S, Keller PJ, Tomancak P, Pavlopoulos A. Multi-view light-sheet imaging and tracking with the MaMuT software reveals the cell lineage of a direct developing arthropod limb. Elife. 7. PMID 29595475 DOI: 10.7554/Elife.34410  0.495
2018 Khairy K, Lemon W, Amat F, Keller PJ. A Preferred Curvature-Based Continuum Mechanics Framework for Modeling Embryogenesis. Biophysical Journal. 114: 267-277. PMID 29401426 DOI: 10.1016/J.Bpj.2017.11.015  0.723
2018 Wolff C, Tinevez J, Pietzsch T, Stamataki E, Harich B, Guignard L, Preibisch S, Shorte S, Keller PJ, Tomancak P, Pavlopoulos A. Author response: Multi-view light-sheet imaging and tracking with the MaMuT software reveals the cell lineage of a direct developing arthropod limb Elife. DOI: 10.7554/Elife.34410.031  0.452
2017 Grimm JB, Muthusamy AK, Liang Y, Brown TA, Lemon WC, Patel R, Lu R, Macklin JJ, Keller PJ, Ji N, Lavis LD. A general method to fine-tune fluorophores for live-cell and in vivo imaging. Nature Methods. PMID 28869757 DOI: 10.1038/Nmeth.4403  0.719
2017 Keller PJ. How to Make a Worm Twitch. Biophysical Journal. 112: 1737-1738. PMID 28494944 DOI: 10.1016/J.Bpj.2017.03.035  0.335
2017 McDole K, Guignard L, Clack N, Amat F, Keller P. Light-sheet imaging of early mouse development: from gastrulation to organogenesis Mechanisms of Development. 145: S18. DOI: 10.1016/J.Mod.2017.04.577  0.469
2017 Azizi A, Wan Y, Keller P, Harris W. Four-dimensional dense reconstruction of retinogenesis in zebrafish Mechanisms of Development. 145: S116. DOI: 10.1016/J.Mod.2017.04.312  0.641
2017 Guignard L, McDole K, Clack N, Amat F, Branson K, Keller P. The Digital Mouse Embryo – towards an atlas of cellular dynamics from gastrulation to early organogenesis Mechanisms of Development. 145: S70. DOI: 10.1016/J.Mod.2017.04.161  0.322
2016 Royer LA, Lemon WC, Chhetri RK, Wan Y, Coleman M, Myers EW, Keller PJ. Adaptive light-sheet microscopy for long-term, high-resolution imaging in living organisms. Nature Biotechnology. PMID 27798562 DOI: 10.1038/Nbt.3708  0.806
2016 Chhetri RK, Keller PJ. Imaging far and wide. Elife. 5. PMID 27661777 DOI: 10.7554/Elife.21072  0.454
2016 Paksa A, Bandemer J, Hoeckendorf B, Razin N, Tarbashevich K, Minina S, Meyen D, Biundo A, Leidel SA, Peyrieras N, Gov NS, Keller PJ, Raz E. Repulsive cues combined with physical barriers and cell-cell adhesion determine progenitor cell positioning during organogenesis. Nature Communications. 7: 11288. PMID 27088892 DOI: 10.1038/Ncomms11288  0.35
2016 Liu Z, Keller PJ. Emerging Imaging and Genomic Tools for Developmental Systems Biology. Developmental Cell. 36: 597-610. PMID 27003934 DOI: 10.1016/J.Devcel.2016.02.016  0.417
2016 Stegmaier J, Amat F, Lemon WC, McDole K, Wan Y, Teodoro G, Mikut R, Keller PJ. Real-Time Three-Dimensional Cell Segmentation in Large-Scale Microscopy Data of Developing Embryos. Developmental Cell. 36: 225-40. PMID 26812020 DOI: 10.1016/J.Devcel.2015.12.028  0.802
2016 Chhetri R, Amat F, Wan Y, Höckendorf B, Lemon WC, Keller PJ. Whole-animal imaging with high spatio-temporal resolution Proceedings of Spie. 9720. DOI: 10.1117/12.2212564  0.804
2015 Beerman RW, Matty MA, Au GG, Looger LL, Choudhury KR, Keller PJ, Tobin DM. Direct In Vivo Manipulation and Imaging of Calcium Transients in Neutrophils Identify a Critical Role for Leading-Edge Calcium Flux. Cell Reports. 13: 2107-17. PMID 26673320 DOI: 10.1016/J.Celrep.2015.11.010  0.316
2015 Chhetri RK, Amat F, Wan Y, Höckendorf B, Lemon WC, Keller PJ. Whole-animal functional and developmental imaging with isotropic spatial resolution. Nature Methods. PMID 26501515 DOI: 10.1038/Nmeth.3632  0.802
2015 Amat F, Höckendorf B, Wan Y, Lemon WC, McDole K, Keller PJ. Efficient processing and analysis of large-scale light-sheet microscopy data. Nature Protocols. 10: 1679-96. PMID 26426501 DOI: 10.1038/Nprot.2015.111  0.797
2015 Lemon WC, Pulver SR, Höckendorf B, McDole K, Branson K, Freeman J, Keller PJ. Whole-central nervous system functional imaging in larval Drosophila. Nature Communications. 6: 7924. PMID 26263051 DOI: 10.1038/Ncomms8924  0.733
2015 Keller PJ, Ahrens MB. Visualizing whole-brain activity and development at the single-cell level using light-sheet microscopy. Neuron. 85: 462-83. PMID 25654253 DOI: 10.1016/J.Neuron.2014.12.039  0.463
2015 Ingold E, Vom Berg-Maurer CM, Burckhardt CJ, Lehnherr A, Rieder P, Keller PJ, Stelzer EH, Greber UF, Neuhauss SC, Gesemann M. Proper migration and axon outgrowth of zebrafish cranial motoneuron subpopulations require the cell adhesion molecule MDGA2A. Biology Open. 4: 146-54. PMID 25572423 DOI: 10.1242/bio.20148482  0.489
2015 Keller PJ, Ahrens MB, Freeman J. Light-sheet imaging for systems neuroscience. Nature Methods. 12: 27-9. PMID 25549267 DOI: 10.1038/Nmeth.3214  0.4
2015 Khairy K, Lemon WC, Amat F, Keller PJ. Light sheet-based imaging and analysis of early embryogenesis in the fruit fly. Methods in Molecular Biology (Clifton, N.J.). 1189: 79-97. PMID 25245688 DOI: 10.1007/978-1-4939-1164-6_6  0.775
2015 Lemon WC, Keller PJ. Live imaging of nervous system development and function using light-sheet microscopy. Molecular Reproduction and Development. 82: 605-18. PMID 23996352 DOI: 10.1002/Mrd.22258  0.775
2015 Lemon WC, Pulver SR, Höckendorf B, McDole K, Branson K, Freeman J, Keller PJ. Whole-central nervous system functional imaging in larval Drosophila Nature Communications. 6. DOI: 10.1038/ncomms8924  0.72
2014 Lauri A, Brunet T, Handberg-Thorsager M, Fischer AH, Simakov O, Steinmetz PR, Tomer R, Keller PJ, Arendt D. Development of the annelid axochord: insights into notochord evolution. Science (New York, N.Y.). 345: 1365-8. PMID 25214631 DOI: 10.1126/Science.1253396  0.345
2014 Crespo CL, Vernieri C, Keller PJ, Garrè M, Bender JR, Wittbrodt J, Pardi R. The PAR complex controls the spatiotemporal dynamics of F-actin and the MTOC in directionally migrating leukocytes. Journal of Cell Science. 127: 4381-95. PMID 25179599 DOI: 10.1242/Jcs.146217  0.562
2014 Vladimirov N, Mu Y, Kawashima T, Bennett DV, Yang CT, Looger LL, Keller PJ, Freeman J, Ahrens MB. Light-sheet functional imaging in fictively behaving zebrafish. Nature Methods. 11: 883-4. PMID 25068735 DOI: 10.1038/Nmeth.3040  0.456
2014 Amat F, Lemon W, Mossing DP, McDole K, Wan Y, Branson K, Myers EW, Keller PJ. Fast, accurate reconstruction of cell lineages from large-scale fluorescence microscopy data. Nature Methods. 11: 951-8. PMID 25042785 DOI: 10.1038/Nmeth.3036  0.798
2014 Ichikawa T, Nakazato K, Keller PJ, Kajiura-Kobayashi H, Stelzer EH, Mochizuki A, Nonaka S. Live imaging and quantitative analysis of gastrulation in mouse embryos using light-sheet microscopy and 3D tracking tools. Nature Protocols. 9: 575-85. PMID 24525751 DOI: 10.1038/Nprot.2014.035  0.676
2013 Ichikawa T, Nakazato K, Keller PJ, Kajiura-Kobayashi H, Stelzer EH, Mochizuki A, Nonaka S. Live imaging of whole mouse embryos during gastrulation: migration analyses of epiblast and mesodermal cells. Plos One. 8: e64506. PMID 23861733 DOI: 10.1371/Journal.Pone.0064506  0.659
2013 Keller PJ. Imaging morphogenesis: technological advances and biological insights. Science (New York, N.Y.). 340: 1234168. PMID 23744952 DOI: 10.1126/Science.1234168  0.475
2013 Amat F, Keller PJ. Towards comprehensive cell lineage reconstructions in complex organisms using light-sheet microscopy. Development, Growth & Differentiation. 55: 563-78. PMID 23621671 DOI: 10.1111/Dgd.12063  0.497
2013 Ahrens MB, Orger MB, Robson DN, Li JM, Keller PJ. Whole-brain functional imaging at cellular resolution using light-sheet microscopy. Nature Methods. 10: 413-20. PMID 23524393 DOI: 10.1038/Nmeth.2434  0.326
2013 Keller PJ. In vivo imaging of zebrafish embryogenesis. Methods (San Diego, Calif.). 62: 268-78. PMID 23523701 DOI: 10.1016/J.Ymeth.2013.03.015  0.525
2013 Galbraith CG, Keller PJ, Nogales E. New technologies in imaging. Molecular Biology of the Cell. 24: 669. PMID 23486393 DOI: 10.1091/Mbc.E12-12-0867  0.528
2013 Amat F, Myers EW, Keller PJ. Fast and robust optical flow for time-lapse microscopy using super-voxels. Bioinformatics (Oxford, England). 29: 373-80. PMID 23242263 DOI: 10.1093/Bioinformatics/Bts706  0.381
2013 Tomer R, Khairy K, Keller PJ. Light sheet microscopy in cell biology. Methods in Molecular Biology (Clifton, N.J.). 931: 123-37. PMID 23027001 DOI: 10.1007/978-1-62703-056-4_7  0.518
2012 Khmelinskii A, Keller PJ, Bartosik A, Meurer M, Barry JD, Mardin BR, Kaufmann A, Trautmann S, Wachsmuth M, Pereira G, Huber W, Schiebel E, Knop M. Tandem fluorescent protein timers for in vivo analysis of protein dynamics. Nature Biotechnology. 30: 708-14. PMID 22729030 DOI: 10.1038/Nbt.2281  0.562
2012 Tomer R, Khairy K, Amat F, Keller PJ. Quantitative high-speed imaging of entire developing embryos with simultaneous multiview light-sheet microscopy. Nature Methods. 9: 755-63. PMID 22660741 DOI: 10.1038/Nmeth.2062  0.536
2012 Keller PJ, Dodt HU. Light sheet microscopy of living or cleared specimens. Current Opinion in Neurobiology. 22: 138-43. PMID 21925871 DOI: 10.1016/J.Conb.2011.08.003  0.517
2011 Kanodia JS, Kim Y, Tomer R, Khan Z, Chung K, Storey JD, Lu H, Keller PJ, Shvartsman SY. A computational statistics approach for estimating the spatial range of morphogen gradients. Development (Cambridge, England). 138: 4867-74. PMID 22007136 DOI: 10.1242/Dev.071571  0.333
2011 Keller PJ, Schmidt AD, Wittbrodt J, Stelzer EH. Digital scanned laser light-sheet fluorescence microscopy (DSLM) of zebrafish and Drosophila embryonic development. Cold Spring Harbor Protocols. 2011: 1235-43. PMID 21969622 DOI: 10.1101/Pdb.Prot065839  0.766
2011 Tomer R, Khairy K, Keller PJ. Shedding light on the system: studying embryonic development with light sheet microscopy. Current Opinion in Genetics & Development. 21: 558-65. PMID 21862314 DOI: 10.1016/J.Gde.2011.07.003  0.479
2011 Khairy K, Keller PJ. Reconstructing embryonic development. Genesis (New York, N.Y. : 2000). 49: 488-513. PMID 21140407 DOI: 10.1002/Dvg.20698  0.512
2010 Khmelinskii A, Keller PJ, Lorenz H, Schiebel E, Knop M. Segregation of yeast nuclear pores. Nature. 466: E1. PMID 20651645 DOI: 10.1038/Nature09255  0.553
2010 Keller PJ, Schmidt AD, Santella A, Khairy K, Bao Z, Wittbrodt J, Stelzer EH. Fast, high-contrast imaging of animal development with scanned light sheet-based structured-illumination microscopy. Nature Methods. 7: 637-42. PMID 20601950 DOI: 10.1038/Nmeth.1476  0.758
2010 Keller PJ, Stelzer EH. Digital scanned laser light sheet fluorescence microscopy. Cold Spring Harbor Protocols. 2010: pdb.top78. PMID 20439423 DOI: 10.1101/Pdb.Top78  0.692
2010 Brown KE, Keller PJ, Ramialison M, Rembold M, Stelzer EH, Loosli F, Wittbrodt J. Nlcam modulates midline convergence during anterior neural plate morphogenesis. Developmental Biology. 339: 14-25. PMID 20005219 DOI: 10.1016/J.Ydbio.2009.12.003  0.692
2009 Keller PJ, Knop M. Evolution of mutational robustness in the yeast genome: a link to essential genes and meiotic recombination hotspots. Plos Genetics. 5: e1000533. PMID 19557188 DOI: 10.1371/Journal.Pgen.1000533  0.524
2009 Keller PJ, Schmidt AD, Wittbrodt J, Stelzer EHK. The zebrafish digital embryo: In toto reconstruction of zebrafish early embryonic development with digital scanned laser light sheet fluorescence microscopy Progress in Biomedical Optics and Imaging - Proceedings of Spie. 7367. DOI: 10.1117/12.831496  0.573
2008 Keller PJ, Stelzer EH. Quantitative in vivo imaging of entire embryos with Digital Scanned Laser Light Sheet Fluorescence Microscopy. Current Opinion in Neurobiology. 18: 624-32. PMID 19375303 DOI: 10.1016/J.Conb.2009.03.008  0.668
2008 Keller PJ, Schmidt AD, Wittbrodt J, Stelzer EH. Reconstruction of zebrafish early embryonic development by scanned light sheet microscopy. Science (New York, N.Y.). 322: 1065-9. PMID 18845710 DOI: 10.1126/Science.1162493  0.743
2008 Keller PJ, Pampaloni F, Lattanzi G, Stelzer EH. Three-dimensional microtubule behavior in Xenopus egg extracts reveals four dynamic states and state-dependent elastic properties. Biophysical Journal. 95: 1474-86. PMID 18441022 DOI: 10.1529/Biophysj.107.128223  0.558
2007 Keller PJ, Pampaloni F, Stelzer EH. Three-dimensional preparation and imaging reveal intrinsic microtubule properties. Nature Methods. 4: 843-6. PMID 17828271 DOI: 10.1038/Nmeth1087  0.617
2006 Gordon O, Taxis C, Keller PJ, Benjak A, Stelzer EH, Simchen G, Knop M. Nud1p, the yeast homolog of Centriolin, regulates spindle pole body inheritance in meiosis. The Embo Journal. 25: 3856-68. PMID 16888627 DOI: 10.1038/Sj.Emboj.7601254  0.667
2006 Keller PJ, Pampaloni F, Stelzer EH. Life sciences require the third dimension. Current Opinion in Cell Biology. 18: 117-24. PMID 16387486 DOI: 10.1016/J.Ceb.2005.12.012  0.582
2005 Taxis C, Keller P, Kavagiou Z, Jensen LJ, Colombelli J, Bork P, Stelzer EH, Knop M. Spore number control and breeding in Saccharomyces cerevisiae: a key role for a self-organizing system. The Journal of Cell Biology. 171: 627-40. PMID 16286509 DOI: 10.1083/Jcb.200507168  0.674
2000 Pralle A, Keller P, Florin EL, Simons K, Hörber JK. Sphingolipid-cholesterol rafts diffuse as small entities in the plasma membrane of mammalian cells. The Journal of Cell Biology. 148: 997-1008. PMID 10704449 DOI: 10.1083/Jcb.148.5.997  0.61
Show low-probability matches.