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75Xiong F, Tentner AR, Nandagopal S, Hiscock TW, Huang P, Megason SG. (2024). Heterogeneity of Sonic Hedgehog response dynamics and fate specification in single neural progenitors. eLife,
74Kroll JB, Cha A, Oyler-Yaniv A, Lambert T, Swinburne IA, Murphy A, Megason SG. (2024). Tetrahedral serial multiview microscopy and image fusion for improved resolution and extent in stained zebrafish embryos. Dev. Dynamics, DOI: 10.1002/dvdy.683 PMID: 38131490linkBio
73Jia BZ, Yitong Q, Wong-Campos JD, Megason SG*, Cohen AE*. (2023). A bioelectrical phase transition patterns the first beats of a vertebrate heart. Nature, PMID: 37758945link,
Nature Video
72O’Brown N, Patel NB, Hartmann U, Klein AM, Gu C, Megason SG. (2023). The secreted neuronal signal Spock1 promotes blood-brain barrier development. Dev Cell, 58, 1534–1547. PMID: 37437574link, coverBio
71Cheng T, Xing YY, Liu C, Li YF, Huang Y, Liu X, Zhang YJ, Zhao GQ, Dong Y, Fu XX, Tian YM, Shu LP, Megason SG*, Xu PF*. (2023). “Nodal coordinates the anterior-posterior patterning of germ layers and induces head formation in zebrafish explants”, Cell Rep. 42(4):112351. PMID: 37018074linkBio
70Tsai T, Garner RM, Megason SG (2022). “Adhesion-based self-organization in tissue patterning”, Annu. Rev. Cell Dev. Biol., 38:6.1–6.26. PMID: 35562853linkBio
69Chugh M, Munjal A, Megason SG. (2022). “Hydrostatic pressure as a driver of cell and tissue morphogenesis”, Sem. Cell Dev. Biology, 131:134-145. PMID: 35534334linkBio
68Wang A, Zhang Q, Han Y, Megason S, Hormoz S, Mosaliganti KR, Lam JCK, Li VOK. (2022). “A novel deep learning-based 3D cell segmentation framework for future image-based disease detection.”
Sci Rep., 12(1):342. doi: 10.1038/s41598-021-04048-3.  PMID: 35013443
67Munjal A, Hanezzo E, Tsai TY, Mitchison TJ, Megason SG. (2021). “Extracellular hyaluronate pressure shaped by cellular tethers drives tissue morphogenesis”, Cell, 184(26):6313-25. PMID: 34942099link, coverBio
66Knudsen TB, Spielmann M, Megason SG, Faustman EM. (2021). “Single‐cell profiling for advancing birth defects research and prevention”, Birth Defects Res, doi: 10.1002/bdr2.1870. PMID: 33496083linkBio
65Tsai T, Sikora M, Xia P, Colak-Champollion T, Knaut H, Heisenberg CP*, Megason SG*. (2020). “An adhesion code ensures robust pattern formation during tissue morphogenesis”, Science, 370(6512):113-116. PMID: 33004519linkBio
64Mosaliganti KR, Swinburne IA, Chan CU, Obholzer ND, Green AA, Tanksale S, Mahadevan L*, Megason SG*. (2019). “Size Control of the Inner Ear Via Hydraulic Feedback”, eLife, 8:e39596. PMID: 31571582linkBio
63O’Brown N, Megason SG*, Gu C*. (2019). “Suppression of transcytosis regulates zebrafish blood-brain barrier function”, eLife, 8:e47326. PMID: 31429822linkBio
62O’Brown ZK, Boulias K, Wang J, Wang SY, O’Brown NM, Hao Z, Shibuya H, Fady PE, Shi Y, He C, Megason SG, Liu T, Greer EL. (2019). “Sources of artifact in measurements of 6mA and 4mC abundance in eukaryotic genomic DNA”, BMC Genomics. 20(1):445. PMID: 31159718linkBio
61Ishimatsu K, Cha A, Collins ZM, Megason SG. (2019). “Surgical Size Reduction of Zebrafish for the Study of Embryonic Pattern Scaling”, J. Vis. Exp. (147), e59434. PMID: 31107459linkBio
60Collins ZM, Ishimatsu K, Tsai T, Megason SG. (2018). “A Scube2-Shh feedback loop links morphogen release to morphogen signaling to enable scale invariant patterning of the ventral neural tube”, bioRxiv.bioRxivBio
59Megason SG (2018). “Train – Code Visually” A completely visual programming language for teaching anyone how to code.webEng
58Gao R, Asano SM, Upadhyayula S, Pisarev I, Milkie DE, Liu TL, Singh V, Graves A, Huynh GH, Zhao Y, Bogovic J, Colonell J, Ott CM, Zugates C, Tappan S, Rodriguez A, Mosaliganti KR, Megason SG, Lippincott-Schwartz J, Hantman A, Rubin GM, Kirchhausen T, Saalfeld S, Aso Y, Boyden ES*, Betzig E*. (2018). “Cortical Column and Whole Brain Imaging of Neural Circuits with Molecular Contrast and Nanoscale Resolution”, Science, 363 (6424). PMID: 30655415linkBio
57Swinburne IA, Mosaliganti KR, Upadhyayula S, Liu TL, Hildebrand DGC, Tsai T, Chen A, Al-Obeidi E, Fass A, Malhotra S, Engert E, Lichtman JW, Kirchhausen T, Betzig E, Megason SG. (2018). “Lamellar Barriers In The Endolymphatic Sac Act As A Relief Valve To Regulate Inner Ear Pressure”, eLife, 7:e37131. PMID: 29916365linkBio
56Ishimatsu K, Hiscock TW, Collins ZM, Sarib DWK, Lischer K, Richmond DL, Bessho Y, Matsui T, Megason SG. (2018). “Size-reduced embryos reveal a gradient scaling based mechanism for zebrafish somite formation”, Development 145(11). PMID: 29769221linkhighlightinterviewBio
55Hiscock TW, Miesfeld JB, Mosaliganti KR, Link BA, Megason SG. (2018). “Feedback between tissue packing and neurogenesis in the zebrafish neural tube”, Development 145(9). PMID: 29678815linkcoverhighlight, prelightBio
54Briggs JA, Weinreb C, Wagner DE, Megason SG, Peshkin L, Kirschner MW*, Klein AM*. (2018). “The dynamics of gene expression in vertebrate embryogenesis at single cell resolution”, Science, 360(6392):eaar5780. PMID: 29700227linkBio
53Wagner DE, Weinreb C, Collins ZM, Briggs JA, Megason SG*, Klein AM*. (2018). “Single-cell mapping of gene expression landscapes and lineage in the zebrafish embryo”, Science 360(6392):981-987. PMID: 29700229linkcoverScience previewScience perspectiveNature previewBio
52Liu YL, Upadhyayula S, Milkie DE, Singh V, Wang K, Swinburne IA, Mosaliganti KR,Collins ZM, Hiscock TW, Shea J, Kohrman AQ, Medwig TN, Dambournet D, Forster R, Cunniff B, Ruan Y, Yashiro H, Scholpp S, Meyerowitz EM, Hockemeyer D, Drubin DG, Martin BL, Matus DQ, Koyama M, Megason SG, Kirchhausen T, Betzig E. (2018). “Observing the Cell in Its Native State: Imaging Subcellular Dynamics in Multicellular Organisms”, Science, Apr 20;360(6386). pii: eaaq1392. doi: 10.1126/science.aaq1392. PMID: 29674564linkcoverBio
51Megason SG. (2018). “Dynamic Encoding in the Notch Pathway”, Dev Cell 44:411. PMID: 29486192linkPreview
50Green AA, Mosaliganti KR, Swinburne IA, Obholzer ND, Megason SG. (2017). “Recovery of shape and size in a developing organ pair” Developmental Dynamics 246(6):451-465. PMID: 28295855linkBio
49Aguet F, Upadhyayula S, Gaudin R, Chou YY, Cocucci E, He K, Chen BC, Mosaliganti K, Pasham M, Skillern W, Legant W, Liu TL, Findlay G, Marino E, Danuser G, Megason SG, Betzig E, Kirchhausen T. (2016). “Membrane dynamics of dividing cells imaged by lattice light sheet microscopy”. Mol Biol Cell Aug 17. PMID: 27535432linkBio
48Nissim S, Weeks O, Talbot JC, Hedgepeth JW, Wucherpfennig J, Schatzman-Bone S, Swinburne I, Cortes M, Alexa K, Megason S, North TE, Amacher SL, Goessling W. (2016). “Iterative use of nuclear receptor Nr5a2 regulates multiple stages of liver and pancreas development.” Dev Biol. 418(1):108-23. PMID: 27474396linkBio
47Lee SG, Huang M, Obholzer ND, Sun S, Li W, Petrillo M, Dai P, Zhou Y, Cotanche DA, Megason SG, Li H, Chen ZY. (2016). “Myc and Fgf Are Required for Zebrafish Neuromast Hair Cell Regeneration”, PLoS One 11(6):e0157768. PMID: 27351484linkBio
46Hiscock TW, Megason SG. (2015). “Orientation of Turing-like Patterns by Morphogen Gradients and Tissue Anisotropies”, Cell Systems 1(6), 408-416. PMID: 26771020linkBio
46Swinburne IA, Mosaliganti KR, Green AA, Megason SG. (2015). “Improved long-term imaging of embryos with genetically encoded α-bungarotoxin”, PLOS ONE 10(8):e0134005. PMID: 26244658linkBio
45Xiong F, Megason SG. (2015). “Abstracting the principles of development using imaging and modeling”, Integrative Biology, 7, 633 – 642. PMID: 25946995linkBio
44Xiong F, Obholzer ND, Noche RR, Megason SG. (2015). “Multibow: Digital Spectral Barcodes for Cell Tracing”, PLOS ONE 10(5):e0127822. PMID: 26010570linkBio
43Stooke-Vaughan GA, Obholzer ND, Baxendale S, Megason SG, Whitfield TT (2015). “Otolith tethering in the zebrafish otic vesicle requires Otogelin and α-Tectorin”, Development 142, 1137-45. PMID: 25758224linkBio
42Hiscock TW, Megason SG. (2015). “Mathematically guided approaches to distinguish models of periodic patterning”, Development 142, 409-419. PMID: 25605777linkBio
41Xiong F, Ma W, Hiscock TW, Mosaliganti KR, Tentner AR, Brakke KA, Rannou N, Gelas A, Souhait, Swinburne IA, Obholzer ND, Megason SG. (2014). “Interplay of cell shape and division orientation promotes robust morphogenesis of developing epithelia.” Cell, 159(2):415-427. PMID: 25303534link
40Mosaliganti KR, Gelas A, Megason SG. (2013). “An efficient, scalable, and adaptable framework for solving generic systems of level-set PDEs”, Frontier in Neuroinformatics 7:35. PMID: 24501592 .linkEng
39Xiong F, Tentner AR, Huang P, Gelas A, Mosaliganti KR, Souhait L, Rannou R, Swinburne IA, Obholzer ND, Cowgill PD, Schier AF, Megason SG (2013). “Specified Neural Progenitors Sort to Form Sharp Domains after Noisy Shh Signaling” , Cell, 153(3):550-561. PMID: 23622240linkPreviewPaperFlickF1000Bio
38Miller AC, Obholzer ND, Shah AN, Megason SG, Moens CB. (2013). “RNA-seq based mapping and candidate identification of mutations from forward genetic screens”. Genome Res. 23(4):679-86. PMID: 23299976linkBio
37Mosaliganti KR, Noche RR, Xiong F, Swinburne IA, Megason SG. (2012). “ACME: Automated Cell Morphology Extractor for Comprehensive Reconstruction of Cell Membranes”. PLoS Comput Biol 8(12):e1002780. PMID: 23236265linkEng
36Obholzer N*, Swinburne IA*, Schwab E, Nechiporuk AV, Nicolson T, Megason SG (2012). “Rapid Positional Cloning of Zebrafish Mutations by Linkage and Homozygosity Mapping Using Whole Genome Sequencing.” Development 139, 4280-4290. PMID: 23052906linkBio
35Shaheen R, Faqeih E, Shamseldin HE, Noche RR, Sunker A, Alshammari MJ, Al-Sheddi T, Adly N, Al-Dosari MS, Megason SG, Al-Husain M, Al-Mohanna F, Alkuraya FS. (2012). “POC1A Truncation Mutation Causes a Ciliopathy in Humans Characterized by Primordial Dwarfism.”, Am J Hum Genet 91(2):330-6. PMID: 22840364linkBio
34Huang P, Xiong F, Megason SG, Schier AF. (2012). “Attenuation of Notch and Hedgehog signaling is required for fate specification in the spinal cord.” PLoS Genet. 8(6):e1002762. PMID: 22685423linkBio
33Xu C, Fan ZP, Müller P, Fogley R, Dibiase A, Trompouki E, Unternaehrer J, Xiong F, Torregroza I, Evans T, Megason SG, Daley GQ, Schier AF, Young RA, Zon LI. (2012). “Nanog-like Regulates Endoderm Formation through the Mxtx2-Nodal Pathway.” Dev Cell. 22(3):625-38. PMID: 22421047linkBio
32Trinh LA, Hochgreb T, Graham M, Wu D, Ruf-Zamojski F, Jayasena CS, Saxena A, Hawk R, Gonzalez-Serricchio A, Dixson A, Chow E, Gonzales C, Leung HY, Solomon I, Bronner-Fraser M, Megason SG, and Fraser SE. (2011). “A versatile gene trap to visualize and interrogate the function of the vertebrate proteome”, Genes and Development 25:2306-2320PMID 22056673linkBio
31Megason SG, Srinivas S, Dickinson ME, Hadjantonakis AK. (2011). “Editorial Overview – Microscopy to mechanism across the scales of development”, Current Opinions in Genetics and Development 21:1-5 PMID 21996420linkBio
30Wühr M, Obholzer ND, Megason SG, Detrich HW 3rd, Mitchison TJ. (2011). “Live imaging of the cytoskeleton in early cleavage-stage zebrafish embryos.” Methods Cell Biol. 101:1-18. PMID:21550437linkBio
29Agapakis CM, Niederholtmeyer H, Noche RR, Lieberman TD, Megason SG, Way JC, Silver PA. (2011). “Towards a synthetic chloroplast.” PLoS One 6(4):e18877. PMID: 21533097linkBio
28Schwab E, Gelas A, Souhait L, Rannou N, Mosaliganti K, Megason S. (2011). “CTest Integration of Sikuli Automated GUI Testing” The MIDAS Journal.linkEng
27Mosaliganti KR, Janoos F, Gelas A, Noche R, Obholzer N, Machiraju R, Megason SG. (2010). “Anisotropic Plate Diffusion Filtering for Detection of Cell Membranes in 3D Microscopy Images”. IEEE International Symposium on Biomedical Imaging: From Nano to Macro, 2010. ISBI ’10, pp. 588-591. PMID: 21766060linkEng Conf
26Perrot-Audet A.; Mosaliganti K.; Gelas A.; Rannou N.; Souhait L.; Megason S. (2010). “A simple Qt based comparison program for ITK and VTK images.” Insight Journal.linkEng
25Megason SG. (2009). “In toto imaging of embryogenesis with confocal time-lapse microscopy”. Methods Mol Biol. 546:317-32. PMID: 19378112linkBio
24Mosaliganti K.; Gelas A.; Megason S. (2009). “An Adaptive Thresholding Image Filter” Insight Journal.linkEng
23Mosaliganti KR, Gelas A, Gouaillard A, Megason SG. (2009) “Microscopy Image Analysis: Blob Segmentation using Geodesic Active Contours”. Insight Journal.linkEng
22Mosaliganti KR, Smith B, Gelas A, Gouaillard A, Megason SG (2009) “Cell Tracking using Coupled Active Surfaces for Nuclei and Membranes”. Insight Journal.linkEng
21Mosaliganti KR, Gelas A, Gouaillard A, Megason SG. (2009) “Level Set Segmentation Using Coupled Active Surfaces”. Insight Journal.linkEng
20Mosaliganti KR, Smith B, Gelas A, Gouaillard A., Megason SG (2009) “Level Set Segmentation: Active Contours Without Edges”. Insight Journal.linkEng
19Mosaliganti KR, Gelas A, Cowgill P, Megason SG (2009) “An Optimized N-Dimensional Hough Filter for Detecting Spherical Image Objects”. Insight Journal.linkEng
18Gelas A, Gouaillard A, Megason SG. (2009) “Surface Mesh Smoothing”. Insight Journal.linkEng
17Mosaliganti KR, Gelas A, Megason SG (2009) “An Adaptive Thresholding Image Filter”. Insight Journal.linkEng
16Gelas A, Mosaliganti KR, Gouaillard A, Souhait L, Noche RR, Obholzer ND, Megason SG. (2009) “Variational Level-Set with Gaussian Shape Model for Cell Segmentation” In IEEE International Conference on Image Processing (ICIP’09)’s Proceedings, pp.1089-1092. PMID: 21738904linkEng Conf
15Gouaillard A, Mosaliganti KR, Gelas A, Souhait L, Obholzer ND, Megason SG (2009) “Streaming Level Set Algorithm for 3D Segmentation of Confocal Microscopy” International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC’09)’s Proceedings, pp.3621-3624. PMID: 19964083linkEng Conf
14Mosaliganti KR, Gelas A, Gouaillard A, Noche RR, Obholzer ND, and Megason SG (2009) “Detection of Spatially Correlated Objects in 3D Images using Appearance Models and Coupled Active Contours”. Proceedings of Conference on Medical Image Computing and Computer-Assisted Interventions (MICCAI 2009), volume 5762/2009, pp.641-648, PMID 20426166linkEng Conf
13Mosaliganti KR, Gelas A, Gouaillard A, and Megason SG (2009) “Tissue Level Segmentation and Biological Structures in Microscopic Images Based on Density Maps”. IEEE International Symposium on Biomedical Imaging: From Nano to Macro, 2009. ISBI ’09, pp.1354 – 1357. PMID: 21766061linkEng Conf
12Gelas A, Gouaillard A, Megason SG. (2008) “Mutable Priority Queue Container”. Insight Journal.linkEng
11Gelas A, Gouaillard A, Megason SG. (2008) “Surface Mesh Discrete Curvature Estimators”. Insight Journal.linkEng
10Gelas A, Gouaillard A, Megason SG. (2008) “Surface Mesh Normals Filter”. Insight Journal.linkEng
9Gelas A, Gouaillard A, Megason SG. (2008) “Surface Mesh Incremental Decimation Framework”. Insight Journal.linkEng
8Gelas A, Gouaillard A, Megason SG. (2008) “Triangular Mesh Delaunay Conforming Filter”. Insight Journal.linkEng
7Megason SG, Fraser SE. (2007). “Imaging in Systems Biology”. Cell, 130:784-795. PMID: 17803903linkBio
6Link BA, Megason SG. (2007) “Zebrafish as a model for development”, in Sourcebook of Models for Biomedical Research, edited by Conn, PM. Humana Press, ISBN: 978-1-58829-933-8.linkBio
5Cedilnik A, Baumes J, Ibanez L, Megason S, Wylie B. (2007). “Integration of information and volume visualization for analysis of cell lineage and gene expression during embryogenesis”. Proceedings of SPIE Vol. #6809.linkEng Conf
4Gouaillard A, Brown T, Bronner-Fraser M, Fraser SE, Megason SG. (2007). “GoFigure and The Digital Fish Project: Open tools and open data for an imaging based approach to system biology”. Insight Journal – special edition “2007 MICCAI Open Science Workshop”.linkEng Conf
3Megason SG, Amsterdam A, Hopkins N, LinS. (2006). “Uses of GFP in Transgenic Vertebrates” in Green Fluorescent Protein: Properties, Applications and Protocols, Second Edition, Edited by Martin Chalfie and Steven R. Kain. Wiley Press. PMID: 16335718linkBio
2Megason SG, Fraser SE. (2003) “Digitizing life at the level of the cell: high-performance laser-scanning microscopy and image analysis for in toto imaging of development.” Mech Dev. 2003 Nov;120(11):1407-20. PMID: 14623446linkBio
1Megason SG, McMahon AP. (2002) “A mitogen gradient of dorsal midline Wnts organizes growth in the CNS”. Development. 2002 May;129(9):2087-98. PMID: 11959819linkBio