Links to Further Information About OPT Technology:

OPT Microscopy

Original Publications

• 2004
• 2005
• 2006
• 2007
• 2008
• 2009
• 2010

Review Articles

Related Links

Wellcome Award

Original publications about OPT technology;

• Optical Projection Tomography as a Tool for 3D Microscopy and Gene Expression Studies
  Science. 2002 Apr 19;296(5567):541-5.
  Sharpe J et al
• Correction of artefacts in optical projection tomography.
  Phys Med Biol. 2005 Oct 7;50(19):4645-65.
  Walls JR, Sled JG, Sharpe J, Henkelman RM.
• Resolution improvement in emission optical projection tomography
  Johnathon R Walls, John G Sled, James Sharpe, R Mark Henkelman
  Phys. Med. Biol. 52 2775-2790 2007
• In vitro whole-organ imaging: 4D quantification of growing mouse limb buds.
  Marit J Boot, C Henrik Westerberg, Juanjo Sanz-Ezquerro, James Cotterell, Ronen Schweitzer, Miguel Torres & James Sharpe
  Nature Methods - 5, 609 - 612 (2008)

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Original publications using OPT technology;

• Identification of SATB2 as the cleft palate gene on 2q32-q33.
  Hum Mol Genet. 2003 Oct 1;12(19):2491-501
  FitzPatrick et al
• Oriented clonal cell growth in the developing mouse myocardium underlies cardiac morphogenesis
  J Cell Biol. 2004 Jan 5;164(1):97-109
  Meilhac et al
• Bapx1 regulates patterning in the middle ear: altered regulatory role in the transition from the proximal jaw during vertebrate evolution.
  Development. 2004 Mar;131(6):1235-45
  Tucker et al
• Widespread tangential dispersion and extensive cell death during early neurogenesis in the mouse neocortex.
  Dev Biol 2004 Mar 1;267(1):109-18
  Wilkie AL et al.
• 3 dimensional modelling of early human brain development using optical projection tomography
  BMC Neurosci. 2004 Aug 6;5(1):27.
  Kerwin J et al.
• The extracellular matrix gene Frem1 is essential for the normal adhesion of the embryonic epidermis.
  Proc Natl Acad Sci. 2004 Sep 14;101(37):13560-5
  Smyth et al
• Foxh1 is essential for development of the anterior heart field.
  Dev Cell. 2004 Sep;7(3):331-45.
  von Both et al
• The splanchnic mesodermal plate directs spleen and pancreatic laterality, and is regulated by Bapx1/Nkx3.2.
  Development 2004 Oct;131(19):4665-75
  Hecksher-Sorensen et al
• Baf60c is essential for function of BAF chromatin remodelling complexes in heart development
  Nature 432, 107-112 (2004)
  Lickert, H et al

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• Foxg1 is required for specification of ventral telencephalon and region-specific regulation of dorsal telencephalic precursor proliferation and apoptosis.
  Dev Biol. 2005 Jul 1;283(1):113-27
  Martynoga et al
• Tbx20 dose-dependently regulates transcription factor networks required for mouse heart and motoneuron development
  Development 132, 2463-2474 (2005)
  Takeuchi JK et al
• 3D Modelling , gene expression mapping and post-mapping image analysis in the developing human brain
  Brain Research Bulletin 66, 449-453 (2005)
  Sarma S et al
• Anatomical and gene expression mapping of the ventral pallium in a three-dimensional model of developing human brain
  Neurscience 136, 625-632 (2005)
  Lindsay et al

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• Embryonic and neonatal phenotyping of genetically engineered mice.
  ILAR J. 2006;47(2):103-17.
  Kulandavelu S et al
• Molecular pathogenesis of autosomal dominant polycystic kidney disease.
  Expert Rev Mol Med. 2006 Jan 17;8(2):1-22.
  Yoder et al
  Link to movie http://www-ermm.cbcu.cam.ac.uk/06010453h.htm
• FGF signalling controls expression of vomeronasal receptors during embryogenesis.
  Mech Dev. 2006 Jan;123(1):17-23
  Oleg Lioubinski et al
• Cardiac malformations and midline skeletal defects in mice lacking filamin A
  Human Molecular Genetics 2006 15(16):2457-2467
  Alan W. Hart et al
• Spleen versus pancreas: strict control of organ interrelationship revealed by analyses of Bapx1^–/– mice
  Genes & Development 20:2208-2213, 2006
  Amir Asayesh, James Sharpe, Robert P. Watson, Jacob Hecksher-Sørensen, Nicholas D. Hastie, Robert E. Hill and Ulf Ahlgren
• Visualizing Plant Development and Gene Expression in Three Dimensions Using Optical Projection Tomography.
  Plant Cell. August 11, 2006; 10.1105/tpc.106.043042
  Karen Lee et al
• The Wnt/β-catenin pathway regulates Gli-mediated Myf5 expression during somitogenesis.
  Development 2006 133: p. 3723-3732
  Ugo Borello et al
• Hand1 regulates cardiomyocyte proliferation versus differentiation in the developing heart
  Development 2006 133: p. 4595-4606
  Risebro, C. A., Smart, N., Dupays, L., Breckenridge, R., Mohun, T.J., Riley, P. R.
• Pitx1 determines the morphology of muscle, tendon, and bones of the hindlimb.
  Dev Biol. 2006 Nov 1;299(1):22-34.
  DeLaurier A, Schweitzer R, Logan M.

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• Tomographic molecular imaging and 3D quantification within adult mouse organs.
  Nat Methods. 2007 Jan;4(1):31-3.
  Alanentalo T, Asayesh A, Morrison H, Loren CE, Holmberg D, Sharpe J, Ahlgren U.
• Expression of Plxdc2/TEM7R in the developing nervous system of the mouse.
  Gene Expr Patterns. 2007 Apr;7(5):635-44.
  Miller SF, Summerhurst K, Runker AE, Kerjan G, Friedel RH, Chedotal A, Murphy P, Mitchell KJ
• Pan-myocardial expression of Cre recombinase throughout mouse development.
  Genesis. 2007 Mar;45(3):135-44.
  Breckenridge R, Kotecha S, Towers N, Bennett M, Mohun T.
• Three-dimensional imaging of Drosophila melanogaster.
  McGurk L, Morrison H, Keegan LP, Sharpe J, O'Connell MA.
  PLoS ONE. 2007 Sep 5;2(9):e834.
• Visualizing expression patterns of Shh and Foxf1 genes in the foregut and lung buds by optical projection tomography
  Sato H, Murphy P, Giles S, Bannigan J, Takayasu H, Puri P.
  Pediatr Surg Int. 2007 Oct 26
• Cell tracing reveals a dorsoventral lineage restriction plane in the mouse limb bud mesenchyme
  Carlos G. Arques, Roisin Doohan, James Sharpe and Miguel Torres
  Development. 2007 Oct;134(20):3713-22. Epub 2007 Aug 22.
• A dynamic pattern of mechanical stimulation promotes ossification in avian embryonic long bones
  Nowlan NC , Murphy P, Prendergast PJ.
  J Biomech. 2007 Nov 13
• Wt1 and retinoic acid signaling are essential for stellate cell development and liver morphogenesis.
  Ijpenberg A, Pérez-Pomares JM, Guadix JA, Carmona R, Portillo-Sánchez V, Macías D, Hohenstein P, Miles CM, Hastie ND, Muñoz-Chápuli R.
  Dev Biol. 2007 Sep 18
• Cell tracing reveals a dorsoventral lineage restriction plane in the mouse limb bud mesenchyme .
  Carlos G. Arques, Roisin Doohan, James Sharpe and Miguel Torres
  Development. 2007 Oct;134(20):3713-22. Epub 2007 Aug 22
• Haemodynamics determined by a genetic programme govern asymmetric development of the aortic arch.
  Kenta Yashiro, Hidetaka Shiratori& Hiroshi Hamada
  Nature. 2007 Nov 8;450(7167):285-8.

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• EMAGE--Edinburgh Mouse Atlas of Gene Expression: 2008 update.
  Shanmugasundaram Venkataraman, Peter Stevenson, Yiya Yang, Lorna Richardson, Nicholas Burton, Thomas P. Perry, Paul Smith, Richard A. Baldock, Duncan R. Davidson and Jeffrey H. Christiansen
  Nucleic Acids Res. 2008 Jan;36(Database issue):D860-5
• Visualizing expression patterns of Shh and Foxf1 genes in the foregut and lung buds by optical projection tomography
  Sato H, Murphy P, Giles S, Bannigan J, Takayasu H, Puri P.
  Pediatr Surg Int. 2008 Jan;24(1):3-11
• Integrating technologies for comparing 3D gene expression domains in the developing chick limb.
  Malcolm E. Fisher, Allyson K. Clelland, Andrew Bain, Richard A. Baldock, Paula Murphy, Helen Downie, Cheryll Tickle, Duncan R. Davidson and Richard A. Buckland
  Dev Biol. 2008 Feb 7
• Localization and fate of Fgf10-expressing cells in the adult mouse brain implicate Fgf10 in control of neurogenesis.
  Mohammad K. Hajihosseini, Stijn De Langhe, Eva Lana-Elola, Harris Morrison, Neil Sparshott^a, Robert Kelly, James Sharpe, David Rice and Saverio Bellusci
  Mol Cell Neurosci. 2008 Apr;37(4):857-68.
• 3D representation of Wnt and Frizzled gene expression patterns in the mouse embryo at embryonic day 11.5 (Ts19)
  Kristen Summerhurst, Margaret Stark, James Sharpe, Duncan Davidson and Paula Murphy
  Gene Expr Patterns. 2008 May;8(5):331-48
• Integrating technologies for comparing 3D gene expression domains in the developing chick limb.
  Malcolm E. Fisher, Allyson K. Clelland, Andrew Bain, Richard A. Baldock, Paula Murphy, Helen Downie, Cheryll Tickle, Duncan R. Davidson and Richard A. Buckland
  Dev Biol. 2008 Feb 7 (Epub ahead of print)
• Optical imaging of mouse articular cartilage using the glycosaminoglycans binding property of fluorescent-labeled octaarginine.
  Inagawa K, Oohashi T, Nishida K, Minaguchi J, Tsubakishita T, Yaykasli KO, Ohtsuka A, Ozaki T, Moriguchi T, Ninomiya Y.
  Osteoarthritis Cartilage. 2009 Mar 24
• Human-Specific Gain of Function in a Developmental Enhancer
  Prabhakar S, Visel A, Akiyama JA, Shoukry M, Lewis KD, Holt A, Plajzer-Frick I, Morrison H, Fitzpatrick DR, Afzal V, Pennacchio LA, Rubin EM, Noonan JP.
  Science. 2008 Sep 5;321(5894):1346-50
• Three-Dimensional Analysis of Vascular Development in the Mouse Embryo
  Johnathon R. Walls, Leigh Coultas, Janet Rossant, and R. Mark Henkelman
  PLoS ONE. 2008 Aug 6;3(8):e2853.
• The Mouse LImb Anatomy Atlas: An interactive 3D tool for studying embryonic limb patterning
  Delaurier A, Burton N, Bennett M, Baldock R, Davidson D, Mohun TJ, Logan MP.
  BMC Dev Biol. 2008 Sep 15;8:83.
• High-resolution three-dimensional imaging of islet-infiltrate interactions based on optical projection tomography assessments of the intact adult mouse pancreas.
  Alanentalo T, Lorén CE, Larefalk A, Sharpe J, Holmberg D, Ahlgren U.
  J Biomed Opt. 2008 Sep-Oct;13(5):054070.
• Fluorescence lifetime optical projection tomography.
  McGinty J, Tahir KB, Laine R, Talbot CB, Dunsby C, Neil MA, Quintana L, Swoger J, Sharpe J, French PM.
  J Biophotonics. 2008 Oct;1(5):390-4

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• Normalized Born ratio for fluorescence optical projection tomography.
  Vinegoni C, Razansky D, Figueiredo JL, Nahrendorf M, Ntziachristos V, Weissleder R.
  Opt Lett. 2009 Feb 1;34(3):319-21.
• Analysis of early ventral telencephalic defects in mice lacking functional Gli3 protein.
  Yu T, Fotaki V, Mason JO, Price DJ.
  J Comp Neurol. 2009 Feb 10;512(5):613-27.
• Born normalization for fluorescence optical projection tomography for whole heart imaging.
  Vinegoni C, Razansky D, Figueiredo JL, Fexon L, Pivovarov M, Nahrendorf M, Ntziachristos V, Weissleder R.
  J Vis Exp. 2009 Jun 2;(28). pii: 1389
• Gene expression analysis of canonical Wnt pathway transcriptional regulators during early morphogenesis of the facial region in the mouse embryo.
  Vendrell V, Summerhurst K, Sharpe J, Davidson D, Murphy P.
  Gene Expr Patterns. 2009 Jun;9(5):296-305
• Genetic background influences embryonic lethality and the occurrence of neural tube defects in Men1 null mice: relevance to genetic modifiers.
  Lemos M, Harding B, Reed A, Jeyabalan J, Walls G, Bowl M, Sharpe J, Wedden S, Moss J, Ross A, Davidson D, Thakker R.
  J Endocrinol. 2009 Jul 8
• Sonic hedgehog gene expression in nitrofen induced hypoplastic lungs in mice.
  Sato H, Murphy P, Hajduk P, Takayasu H, Kitagawa H, Puri P.
  Pediatr Surg Int. 2009 Aug 19
• Fgf10 gene expression is delayed in the embryonic lung mesenchyme in the adriamycin mouse model.
  Hajduk P, Murphy P, Puri P.
  Pediatr Surg Int. 2009 Oct 24
• Dual-modal three-dimensional imaging of single cells with isometric high resolution using an optical projection tomography microscope.
  Miao Q, Rahn JR, Tourovskaia A, Meyer MG, Neumann T, Nelson AC, Seibel EJ.
  J Biomed Opt. 2009 Nov-Dec;14(6)
• High throughput transmission optical projection tomography using low cost graphics processing unit.
  Vinegoni C, Fexon L, Feruglio PF, Pivovarov M, Figueiredo JL, Nahrendorf M, Pozzo A, Sbarbati A, Weissleder R.
  Opt Express. 2009 Dec 7;17(25):22320-32

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• From spatial-data to 3D models of the developing human brain.
  Wang X, Lindsay S, Baldock R.
  Methods. 2010 Feb;50(2):96-104. Epub 2009 Oct 1

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Review articles about OPT technology;

• Optical projection tomography as a new tool for studying embryo anatomy
  J Anat. 2003 Feb;202(2):175-81.
  J Sharpe.
• Optical Projection Tomography
  Annu Rev Biomed Eng. 2004;6:209-28.
  J Sharpe
• Optical projection tomography for spatio-temporal analysis in the zebrafish.
  Methods Cell Biol. 2004;76:37-50.
  Bryson-Richardson RJ, Currie PD.
• Chapter 24 - “Optical Projection Tomography: Imaging 3D Organ Shapes and Gene Expression Patterns in Whole Vertebrate Embryos”
  James Sharpe
  Imaging in Neuroscience and Development (2005)
  Ed. Yuste & Konnerth, CSHL Press. ISBN 0-87969-692-3

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Review articles citing OPT technology;

• Molecular imaging of the embryonic heart: Fables and facts on 3D imaging of gene expression patterns.
  Birth Defects Res C Embryo Today. 2004 Sep;72(3):224-40. Review.
  Ruijter JM, Soufan AT, Hagoort J, Moorman AF.
• The contribution of chicken embryology to the understanding of vertebrate limb development.
  Mechanisms of Development 121 (2004) 1019-1029
  C Tickle.
• Imaging: The Big Picture
  Nature 2005; 437: 775- 779
  Lisa Melton
• MRC-Wellcome Trust Human Developmental Biology Resource: enabling studies of human developmental gene expression.
  Lindsay S, Copp AJ.
  Trends Genet. 2005 Nov;21(11):586-90. Epub 2005 Sep 9. Review.
• Endothelial cells and VEGF in vascular development.
  Nature. 2005 Dec 15;438(7070):937-45. Review.
  Coultas L, Chawengsaksophak K, Rossant J.
• The anatomy of organogenesis: Novel solutions to old problems.
  Prog Histochem Cytochem. 2006;40(3):165-76.
  Davies JA, Armstrong JE.
• Multimodal imaging of mouse development: Tools for the postgenomic era.
  Dev Dyn. 2006 Sep;235(9):2386-400.
  Dickinson, M.E.

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Related Topics

Edinburgh Mouse Atlas Project

Electronic Atlas of the Developing Human Brain

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