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Quantitative Microscopy Reveals Stepwise Alteration of Chromatin Structure during Herpesvirus Infection.

Aho V, Mäntylä E, Ekman A, Hakanen S, Mattola S, Chen JH, Weinhardt V, Ruokolainen V, Sodeik B, Larabell C, Vihinen-Ranta M.

Viruses. 2019 Oct 11;11(10). pii: E935. doi: 10.3390/v11100935.


Soft X-ray tomography: virtual sculptures from cell cultures.

Guo J, Larabell CA.

Curr Opin Struct Biol. 2019 Oct;58:324-332. doi: 10.1016/ Epub 2019 Sep 6. Review.


Imaging cell morphology and physiology using X-rays.

Weinhardt V, Chen JH, Ekman A, McDermott G, Le Gros MA, Larabell C.

Biochem Soc Trans. 2019 Apr 30;47(2):489-508. doi: 10.1042/BST20180036. Epub 2019 Apr 5. Review.


Spontaneous driving forces give rise to protein-RNA condensates with coexisting phases and complex material properties.

Boeynaems S, Holehouse AS, Weinhardt V, Kovacs D, Van Lindt J, Larabell C, Van Den Bosch L, Das R, Tompa PS, Pappu RV, Gitler AD.

Proc Natl Acad Sci U S A. 2019 Apr 16;116(16):7889-7898. doi: 10.1073/pnas.1821038116. Epub 2019 Mar 29.


Regulation of Oxygenic Photosynthesis during Trophic Transitions in the Green Alga Chromochloris zofingiensis.

Roth MS, Gallaher SD, Westcott DJ, Iwai M, Louie KB, Mueller M, Walter A, Foflonker F, Bowen BP, Ataii NN, Song J, Chen JH, Blaby-Haas CE, Larabell C, Auer M, Northen TR, Merchant SS, Niyogi KK.

Plant Cell. 2019 Mar;31(3):579-601. doi: 10.1105/tpc.18.00742. Epub 2019 Feb 20.


Nuclear envelope expansion in budding yeast is independent of cell growth and does not determine nuclear volume.

Walters AD, Amoateng K, Wang R, Chen JH, McDermott G, Larabell CA, Gadal O, Cohen-Fix O.

Mol Biol Cell. 2019 Jan 1;30(1):131-145. doi: 10.1091/mbc.E18-04-0204. Epub 2018 Oct 31.


PSF correction in soft X-ray tomography.

Ekman A, Weinhardt V, Chen JH, McDermott G, Le Gros MA, Larabell C.

J Struct Biol. 2018 Oct;204(1):9-18. doi: 10.1016/j.jsb.2018.06.003. Epub 2018 Jun 13.


Chromatin organization regulates viral egress dynamics.

Aho V, Myllys M, Ruokolainen V, Hakanen S, Mäntylä E, Virtanen J, Hukkanen V, Kühn T, Timonen J, Mattila K, Larabell CA, Vihinen-Ranta M.

Sci Rep. 2017 Jun 16;7(1):3692. doi: 10.1038/s41598-017-03630-y.


Chromosome-level genome assembly and transcriptome of the green alga Chromochloris zofingiensis illuminates astaxanthin production.

Roth MS, Cokus SJ, Gallaher SD, Walter A, Lopez D, Erickson E, Endelman B, Westcott D, Larabell CA, Merchant SS, Pellegrini M, Niyogi KK.

Proc Natl Acad Sci U S A. 2017 May 23;114(21):E4296-E4305. doi: 10.1073/pnas.1619928114. Epub 2017 May 8.


AMPK and vacuole-associated Atg14p orchestrate μ-lipophagy for energy production and long-term survival under glucose starvation.

Seo AY, Lau PW, Feliciano D, Sengupta P, Gros MAL, Cinquin B, Larabell CA, Lippincott-Schwartz J.

Elife. 2017 Apr 10;6. pii: e21690. doi: 10.7554/eLife.21690.


Soft X-Ray Tomography Reveals Gradual Chromatin Compaction and Reorganization during Neurogenesis In Vivo.

Le Gros MA, Clowney EJ, Magklara A, Yen A, Markenscoff-Papadimitriou E, Colquitt B, Myllys M, Kellis M, Lomvardas S, Larabell CA.

Cell Rep. 2016 Nov 15;17(8):2125-2136. doi: 10.1016/j.celrep.2016.10.060.


Mesoscale imaging with cryo-light and X-rays: Larger than molecular machines, smaller than a cell.

Ekman AA, Chen JH, Guo J, McDermott G, Le Gros MA, Larabell CA.

Biol Cell. 2017 Jan;109(1):24-38. doi: 10.1111/boc.201600044. Epub 2016 Nov 14. Review.


Visualizing red blood cell sickling and the effects of inhibition of sphingosine kinase 1 using soft X-ray tomography.

Darrow MC, Zhang Y, Cinquin BP, Smith EA, Boudreau R, Rochat RH, Schmid MF, Xia Y, Larabell CA, Chiu W.

J Cell Sci. 2016 Sep 15;129(18):3511-7. doi: 10.1242/jcs.189225. Epub 2016 Aug 9.


HU multimerization shift controls nucleoid compaction.

Hammel M, Amlanjyoti D, Reyes FE, Chen JH, Parpana R, Tang HY, Larabell CA, Tainer JA, Adhya S.

Sci Adv. 2016 Jul 29;2(7):e1600650. doi: 10.1126/sciadv.1600650. eCollection 2016 Jul.


Herpes simplex virus 1 induces egress channels through marginalized host chromatin.

Myllys M, Ruokolainen V, Aho V, Smith EA, Hakanen S, Peri P, Salvetti A, Timonen J, Hukkanen V, Larabell CA, Vihinen-Ranta M.

Sci Rep. 2016 Jun 28;6:28844. doi: 10.1038/srep28844.


Population-based 3D genome structure analysis reveals driving forces in spatial genome organization.

Tjong H, Li W, Kalhor R, Dai C, Hao S, Gong K, Zhou Y, Li H, Zhou XJ, Le Gros MA, Larabell CA, Chen L, Alber F.

Proc Natl Acad Sci U S A. 2016 Mar 22;113(12):E1663-72. doi: 10.1073/pnas.1512577113. Epub 2016 Mar 7.


Progressive Chromatin Condensation and H3K9 Methylation Regulate the Differentiation of Embryonic and Hematopoietic Stem Cells.

Ugarte F, Sousae R, Cinquin B, Martin EW, Krietsch J, Sanchez G, Inman M, Tsang H, Warr M, Passegué E, Larabell CA, Forsberg EC.

Stem Cell Reports. 2015 Nov 10;5(5):728-740. doi: 10.1016/j.stemcr.2015.09.009. Epub 2015 Oct 17.


Analysis of ER-mitochondria contacts using correlative fluorescence microscopy and soft X-ray tomography of mammalian cells.

Elgass KD, Smith EA, LeGros MA, Larabell CA, Ryan MT.

J Cell Sci. 2015 Aug 1;128(15):2795-804. doi: 10.1242/jcs.169136. Epub 2015 Jun 22.


Imaging and characterizing cells using tomography.

Do M, Isaacson SA, McDermott G, Le Gros MA, Larabell CA.

Arch Biochem Biophys. 2015 Sep 1;581:111-21. doi: 10.1016/ Epub 2015 Jan 17. Review.


The yeast polo kinase Cdc5 regulates the shape of the mitotic nucleus.

Walters AD, May CK, Dauster ES, Cinquin BP, Smith EA, Robellet X, D'Amours D, Larabell CA, Cohen-Fix O.

Curr Biol. 2014 Dec 1;24(23):2861-7. doi: 10.1016/j.cub.2014.10.029. Epub 2014 Nov 20.


Quantitatively imaging chromosomes by correlated cryo-fluorescence and soft x-ray tomographies.

Smith EA, McDermott G, Do M, Leung K, Panning B, Le Gros MA, Larabell CA.

Biophys J. 2014 Oct 21;107(8):1988-1996. doi: 10.1016/j.bpj.2014.09.011.


Biological soft X-ray tomography on beamline 2.1 at the Advanced Light Source.

Le Gros MA, McDermott G, Cinquin BP, Smith EA, Do M, Chao WL, Naulleau PP, Larabell CA.

J Synchrotron Radiat. 2014 Nov;21(Pt 6):1370-7. doi: 10.1107/S1600577514015033. Epub 2014 Oct 1.


A 3D cellular context for the macromolecular world.

Patwardhan A, Ashton A, Brandt R, Butcher S, Carzaniga R, Chiu W, Collinson L, Doux P, Duke E, Ellisman MH, Franken E, Grünewald K, Heriche JK, Koster A, Kühlbrandt W, Lagerstedt I, Larabell C, Lawson CL, Saibil HR, Sanz-García E, Subramaniam S, Verkade P, Swedlow JR, Kleywegt GJ.

Nat Struct Mol Biol. 2014 Oct;21(10):841-5. doi: 10.1038/nsmb.2897. No abstract available.


Correlative cryogenic tomography of cells using light and soft x-rays.

Smith EA, Cinquin BP, Do M, McDermott G, Le Gros MA, Larabell CA.

Ultramicroscopy. 2014 Aug;143:33-40. doi: 10.1016/j.ultramic.2013.10.013. Epub 2013 Nov 7. Review.


Putting molecules in their place.

Cinquin BP, Do M, McDermott G, Walters AD, Myllys M, Smith EA, Cohen-Fix O, Le Gros MA, Larabell CA.

J Cell Biochem. 2014 Feb;115(2):209-16. doi: 10.1002/jcb.24658.


The influence of spatial variation in chromatin density determined by X-ray tomograms on the time to find DNA binding sites.

Isaacson SA, Larabell CA, Le Gros MA, McQueen DM, Peskin CS.

Bull Math Biol. 2013 Nov;75(11):2093-117. doi: 10.1007/s11538-013-9883-9. Epub 2013 Aug 17.


Correlative microscopy methods that maximize specimen fidelity and data completeness, and improve molecular localization capabilities.

Smith EA, Cinquin BP, McDermott G, Le Gros MA, Parkinson DY, Kim HT, Larabell CA.

J Struct Biol. 2013 Oct;184(1):12-20. doi: 10.1016/j.jsb.2013.03.006. Epub 2013 Mar 24.


Nuclear aggregation of olfactory receptor genes governs their monogenic expression.

Clowney EJ, LeGros MA, Mosley CP, Clowney FG, Markenskoff-Papadimitriou EC, Myllys M, Barnea G, Larabell CA, Lomvardas S.

Cell. 2012 Nov 9;151(4):724-737. doi: 10.1016/j.cell.2012.09.043.


Nanoimaging cells using soft X-ray tomography.

Parkinson DY, Epperly LR, McDermott G, Le Gros MA, Boudreau RM, Larabell CA.

Methods Mol Biol. 2013;950:457-81. doi: 10.1007/978-1-62703-137-0_25.


Visualizing and quantifying cell phenotype using soft X-ray tomography.

McDermott G, Fox DM, Epperly L, Wetzler M, Barron AE, Le Gros MA, Larabell CA.

Bioessays. 2012 Apr;34(4):320-7. doi: 10.1002/bies.201100125. Epub 2012 Jan 30. Review.


Visualizing cell architecture and molecular location using soft x-ray tomography and correlated cryo-light microscopy.

McDermott G, Le Gros MA, Larabell CA.

Annu Rev Phys Chem. 2012;63:225-39. doi: 10.1146/annurev-physchem-032511-143818. Epub 2012 Jan 10. Review.


Automatic alignment and reconstruction of images for soft X-ray tomography.

Parkinson DY, Knoechel C, Yang C, Larabell CA, Le Gros MA.

J Struct Biol. 2012 Feb;177(2):259-66. doi: 10.1016/j.jsb.2011.11.027. Epub 2011 Dec 2.


Soft X-ray microscopy analysis of cell volume and hemoglobin content in erythrocytes infected with asexual and sexual stages of Plasmodium falciparum.

Hanssen E, Knoechel C, Dearnley M, Dixon MW, Le Gros M, Larabell C, Tilley L.

J Struct Biol. 2012 Feb;177(2):224-32. doi: 10.1016/j.jsb.2011.09.003. Epub 2011 Sep 16.


Quantitative analysis of yeast internal architecture using soft X-ray tomography.

Uchida M, Sun Y, McDermott G, Knoechel C, Le Gros MA, Parkinson D, Drubin DG, Larabell CA.

Yeast. 2011 Mar;28(3):227-36. doi: 10.1002/yea.1834. Epub 2010 Dec 22.


Imaging cellular architecture with X-rays.

Larabell CA, Nugent KA.

Curr Opin Struct Biol. 2010 Oct;20(5):623-31. doi: 10.1016/ Epub 2010 Sep 24. Review.


Cryo transmission X-ray imaging of the malaria parasite, P. falciparum.

Hanssen E, Knoechel C, Klonis N, Abu-Bakar N, Deed S, LeGros M, Larabell C, Tilley L.

J Struct Biol. 2011 Jan;173(1):161-8. doi: 10.1016/j.jsb.2010.08.013. Epub 2010 Sep 6.


Soft X-ray tomography of phenotypic switching and the cellular response to antifungal peptoids in Candida albicans.

Uchida M, McDermott G, Wetzler M, Le Gros MA, Myllys M, Knoechel C, Barron AE, Larabell CA.

Proc Natl Acad Sci U S A. 2009 Nov 17;106(46):19375-80. doi: 10.1073/pnas.0906145106. Epub 2009 Oct 30.


Soft X-ray tomography and cryogenic light microscopy: the cool combination in cellular imaging.

McDermott G, Le Gros MA, Knoechel CG, Uchida M, Larabell CA.

Trends Cell Biol. 2009 Nov;19(11):587-95. doi: 10.1016/j.tcb.2009.08.005. Epub 2009 Oct 7. Review.


High-aperture cryogenic light microscopy.

Le Gros MA, McDermott G, Uchida M, Knoechel CG, Larabell CA.

J Microsc. 2009 Jul;235(1):1-8. doi: 10.1111/j.1365-2818.2009.03184.x.


TiO2 nanoparticles as a soft X-ray molecular probe.

Ashcroft JM, Gu W, Zhang T, Hughes SM, Hartman KB, Hofmann C, Kanaras AG, Kilcoyne DA, Le Gros M, Yin Y, Alivisatos AP, Larabell CA.

Chem Commun (Camb). 2008 Jun 7;(21):2471-3. doi: 10.1039/b801392f. Epub 2008 Mar 26.


Quantitative 3-D imaging of eukaryotic cells using soft X-ray tomography.

Parkinson DY, McDermott G, Etkin LD, Le Gros MA, Larabell CA.

J Struct Biol. 2008 Jun;162(3):380-6. doi: 10.1016/j.jsb.2008.02.003. Epub 2008 Mar 4.


Disruption of the dynamic sub-cellular localization of the Xenopus tumorhead protein causes embryonic lethality at the early gastrula transition.

Traverso EE, Cho MS, Wu CF, Sater AK, Larabell CA, Kloc M, Etkin LD.

Differentiation. 2007 Dec;75(10):947-56. Epub 2007 Apr 25.


X-ray tomography of Schizosaccharomyces pombe.

Gu W, Etkin LD, Le Gros MA, Larabell CA.

Differentiation. 2007 Jul;75(6):529-35. Epub 2007 Apr 25.


The maternally localized RNA fatvg is required for cortical rotation and germ cell formation.

Chan AP, Kloc M, Larabell CA, LeGros M, Etkin LD.

Mech Dev. 2007 May;124(5):350-63. Epub 2007 Feb 21.


Charge-associated effects of fullerene derivatives on microbial structural integrity and central metabolism.

Tang YJ, Ashcroft JM, Chen D, Min G, Kim CH, Murkhejee B, Larabell C, Keasling JD, Chen FF.

Nano Lett. 2007 Mar;7(3):754-60. Epub 2007 Feb 9.


Measuring cell motility using quantum dot probes.

Gu W, Pellegrino T, Parak WJ, Boudreau R, Le Gros MA, Alivisatos AP, Larabell CA.

Methods Mol Biol. 2007;374:125-31.


Semiconductor quantum rods as single molecule fluorescent biological labels.

Fu A, Gu W, Boussert B, Koski K, Gerion D, Manna L, Le Gros M, Larabell CA, Alivisatos AP.

Nano Lett. 2007 Jan;7(1):179-82.


X-ray tomography of whole cells.

Le Gros MA, McDermott G, Larabell CA.

Curr Opin Struct Biol. 2005 Oct;15(5):593-600. Review.


Semiconductor nanocrystals for biological imaging.

Fu A, Gu W, Larabell C, Alivisatos AP.

Curr Opin Neurobiol. 2005 Oct;15(5):568-75. Review.


Quantum dots as cellular probes.

Alivisatos AP, Gu W, Larabell C.

Annu Rev Biomed Eng. 2005;7:55-76. Review.


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