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Author Title [ Type(Desc)] Year
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Conference Paper
Amat F, Keller PJ.  2013.  3D Haar-like elliptical features for object classification in microscopy.. International Symposium on Biomedical Imaging.
Li X, Zhou Z, Keller PJ, Zeng H, Liu T, Peng H.  2015.  Interactive exemplar-based segmentation toolkit for biomedical image analysis.. International Symposium on Biomedical Imaging.
Journal Article
Royer LA, Lemon WC, Chhetri RK, Wan Y, Coleman M, Myers EW, Keller PJ.  2016.  Adaptive light-sheet microscopy for long-term, high-resolution imaging in living organisms.. Nature Biotechnology. 34(12):1267-78.
Malin-Mayor C, Hirsch P, Guignard L, McDole K, Wan Y, Lemon WC, Kainmueller D, Keller PJ, Preibisch S, Funke J.  2022.  Automated reconstruction of whole-embryo cell lineages by learning from sparse annotations.. Nature Biotechnology.
Malin-Mayor C, Hirsch P, Guignard L, McDole K, Wan Y, Lemon WC, Kainmueller D, Keller PJ, Preibisch S, Funke J.  2023.  Automated reconstruction of whole-embryo cell lineages by learning from sparse annotations.. Nature Biotechnology. 41(1):44-49.
Vladimirov N, Wang C, Höckendorf B, Pujala A, Tanimoto M, Mu Y, Yang C-T, Wittenbach J, Freeman J, Preibisch S et al..  2018.  Brain-wide circuit interrogation at the cellular level guided by online analysis of neuronal function.. Nature Methods. 15(12):1117-1125.
Tyser RCV, Ibarra-Soria X, McDole K, Jayaram SA, Godwin J, van den Brand TAH, Miranda AMA, Scialdone A, Keller PJ, Marioni JC et al..  2021.  Characterization of a common progenitor pool of the epicardium and myocardium.. Science.
Kanodia JS, Kim Y, Tomer R, Khan Z, Chung K, Storey JD, Lu H, Keller PJ, Shvartsman SY.  2011.  A computational statistics approach for estimating the spatial range of morphogen gradients.. Development. 138(22):4867-74.
Lauri A, Brunet T, Handberg-Thorsager M, Fischer AHL, Simakov O, Steinmetz PRH, Tomer R, Keller PJ, Arendt D.  2014.  Development of the annelid axochord: insights into notochord evolution.. Science. 345(6202):1365-8.
Keller PJ, Stelzer EHK.  2010.  Digital scanned laser light sheet fluorescence microscopy.. Cold Spring Harbor Protocols. 2010(10):pdb.top78.
Keller PJ, Schmidt AD, Wittbrodt J, Stelzer EHK.  2011.  Digital scanned laser light-sheet fluorescence microscopy (DSLM) of zebrafish and Drosophila embryonic development.. Cold Spring Harbor Protocols. 2011(10):1235-43.
Beerman RW, Matty MA, Au GG, Looger LL, Choudhury KRoy, Keller PJ, Tobin DM.  2015.  Direct in vivo manipulation and imaging of calcium transients in neutrophils identify a critical role for leading-edge calcium flux.. Cell Reports. 13(10):2107-17.
Amat F, Höckendorf B, Wan Y, Lemon WC, McDole K, Keller PJ.  2015.  Efficient processing and analysis of large-scale light-sheet microscopy data.. Nature Protocols. 10(11):1679-96.
Liu Z, Keller PJ.  2016.  Emerging imaging and genomic tools for developmental systems biology.. Developmental Cell. 36(6):597-610.
Keller PJ, Knop M.  2009.  Evolution of mutational robustness in the yeast genome: a link to essential genes and meiotic recombination hotspots.. PLoS Genetics. 5(6):e1000533.
Amat F, Lemon W, Mossing DP, McDole K, Wan Y, Branson K, Myers EW, Keller PJ.  2014.  Fast, accurate reconstruction of cell lineages from large-scale fluorescence microscopy data.. Nature Methods. 11(9):951-8.
Amat F, Myers EW, Keller PJ.  2013.  Fast and robust optical flow for time-lapse microscopy using super-voxels.. Bioinformatics. 29(3):373-80.
Keller PJ, Schmidt AD, Santella A, Khairy K, Bao Z, Wittbrodt J, Stelzer EHK.  2010.  Fast, high-contrast imaging of animal development with scanned light sheet-based structured-illumination microscopy.. Nature Methods. 7(8):637-42.
Grimm JB, Muthusamy AK, Liang Y, Brown TA, Lemon WC, Patel R, Lu R, Macklin JJ, Keller PJ, Ji N et al..  2017.  A general method to fine-tune fluorophores for live-cell and in vivo imaging.. Nature Methods. 14(10):987-994.
Keller PJ.  2017.  How to make a worm twitch.. Biophysical Journal. 112(9):1737-1738.
Chhetri RK, Keller PJ.  2016.  Imaging far and wide.. eLife. 5:e21072.
Keller PJ.  2013.  Imaging morphogenesis: technological advances and biological insights.. Science. 340(6137):1234168.
McDole K, Guignard L, Amat F, Berger A, Malandain G, Royer LA, Turaga SC, Branson K, Keller PJ.  2018.  In toto imaging and reconstruction of post-implantation mouse development at the single-cell level.. Cell. 175(3):859-876.
Keller JP, Marvin JS, Lacin H, Lemon WC, Shea J, Kim S, Lee RT, Koyama M, Keller PJ, Looger LL.  2021.  In vivo glucose imaging in multiple model organisms with an engineered single-wavelength sensor.. Cell Reports. 35(12):109284.
Keller JP, Marvin JS, Lacin H, Lemon WC, Shea J, Kim S, Lee RT, Koyama M, Keller PJ, Looger LL.  2019.  In vivo glucose imaging in multiple model organisms with an engineered single-wavelength sensor.. bioRxiv.