Bryan W. Jones

Bryan William Jones, Ph.D.



Personal site: Jonesblog

 

Publications

A. Woodell, B. Coughlin, K. Kunchithapautham, S. Casey, T. Williamson, W.D. Ferrell, C. Atkinson, B.W.Jones, B. Rohrer (2013). Alternative Complement Pathway Deficiency Amerliorates Chronic Smoked-Induced Functional And Morphological Ocular Injury. PLoS ONE.

Wang H, Yang Z, Jiang Y, Flannery JG, Hammond S, Kafri T, Vemuri SK, Jones B, Hartnett ME (2014). Quantitative Analyses of Retinal Vascular Area and Density after Different Methods to Reduce VEGF in a Rat Model of Retinopathy of Prematurity. Invest Ophthalmol Vis Sci.

V. Jagadeesh, J. Anderson, B.W. Jones, R.E. Marc, S. Fisher and B.S. Manjunath (2014). Synapse Classification and Localization in Electron Micrographs. Pattern Recognition Letters.

R.E. Marc, R. Pfeiffer, B.W. Jones (2014). Retinal Prosthetics, optogenetics, and chemical photoswitches. ACS Chem Neurosci.

Retinal Remodeling. B.W. Jones, M. Kondo, H. Terasaki, Y. Lin, M. McCall, R.E. Marc. Jpn J Ophthalmol. 2012 Jul;56(4):289-306. Epub 2012 May 30.

Quantitative Analyses of Retinal Vascular Area and Density after Different Methods to Reduce VEGF in a Rat Model of Retinopathy of Prematurity. Wang H, Yang Z, Jiang Y, Flannery JG, Hammond S, Kafri T, Vemuri SK, Jones B, Hartnett ME. Invest Ophthalmol Vis Sci. 2014 Jan 14. pii: iovs.13-13429v1. doi: 10.1167/iovs.13-13429.

Robust Segmentation based Tracking using an Adaptive Wrapper for Inducing Priors. Vignesh Jagadeesh, James Anderson, B.W.Jones, Robert E. Marc, Steven K Fisher and B.S Manjunath. IEEE Transactions Image Processing. Volume:22, Issue 12 2013

Retinal Connectomics: Towards Complete, Accurate Networks. Marc RE, Jones BW, Watt CB, C. Sigulinsky, Anderson JR, Lauritzen JS. 2013 Prog Ret Eye Res, 2013.Synapse classification and localization in Electron Micrographs. V Jagadeesh, J Anderson, B Jones, R Marc, S Fisher, BS Manjunath. Pattern Recognition Letters 7/18/2013

Alternative Complement Pathway Deficiency Amerliorates Chronic Smoked-Induced Functional And Morphological Ocular Injury. 2013. A. Woodell, B. Coughlin, K. Kunchithapautham, S. Casey, T. Williamson, W.D. Ferrell, C. Atkinson, B.W.Jones, B. Rohrer. PLoSOne 8(6), e67894

Restoration of Retinal Structure and Function After Selective Photocoagulation. A. Sher, B.W. Jones, P. Huie, Y. Paulus, L.S. Leung, H. Nomoto, R.E. Marc, D. Palanker. J. Neurosci. 2013 Apr 17;33(16):6800-8. doi: 10.1523/JNEUROSCI. 1044-12-2013.

The Role of ELOVL4 And Very Long Chain Polyunsaturated Fatty Acids In Mouse Models of Stargardt Type 3 Retinal Degeneration. P. Barabas, A. Liu, W. Xing, C-K. Jason Chen, Z. Tong, C. B. Watt, B.W. Jones, P. S Bernstein, D. Križaj. Proc Natl Acad Sci USA 2013. Mar 26;110(13):5181-6. doi: 10.1073/pnas 1214707110 Epub 2013 Mar 11.

ON cone bipolar cell axonal synapses in the OFF inner plexiform layer of the rabbit retina. Lauritzen JS, Anderson JR, Jones BW, Watt CB, Mohammed S, Hoang JV, Marc RE J Comp Neurol 2013 doi: 10.1002/cne.23244. [epub ahead of print]

Retinal Connectomics: A new era for connectivity analysis. Marc RE, Jones BW, Lauritzen JS, Watt CB, Anderson JR. 2013 New Visual Neurosciences. MIT Press. ISBN 9780262019163.

Building retinal connectomes. Marc RE, Anderson JR, Jones BW, Watt CB 2012 Current Opinion in Neurobiology 22:568-574.

Retinal Remodeling. B.W. Jones, M. Kondo, H. Terasaki, Y. Lin, M. McCall, R.E. Marc. Jpn J Ophthalmol. 2012 Jul;56(4):289-306. Epub 2012 May 30.

Computational molecular phenotyping of retinal sheet transplants to rats with retinal degeneration. Seiler MJ, Jones BW, Aramant RB, Yang PB, Keirstead HS, Marc RE. Eur J Neurosci. 2012 Jun;35(11):1692-704. Epub 2012 May 17.

Rapid glutamate receptor 2 trafficking during retinal degeneration. Lin Y, Jones BW, Liu A, Vazquéz-Chona FR, Lauritzen JS, Ferrell WD, Marc RE. Mol Neurodegener. 2012 Feb 10;7;7.

Dysmorphic Photoreceptors in a P23H Mutant Rhodopsin Model of Retinitis Pigmentosa are Metabolically Active and Capable of Regenerating to Reverse Retinal Degeneration. D. Lee, F.V-Chona, W. Ferrell, B. Tam, B.W. Jones, R.E. Marc, O. Moritz. 2011 J. Neurosci. 2012 Feb 8;32(6):2121-8.

Generation of an inbred miniature pig model of retinitis pigmentosa. Ross JW, Fernandez de Castro JP, Zhao J, Samuel M, Walters E, Rios C, Bray-Ward P, Jones BW, Marc RE, Wang W, Zhou L, Noel JM, McCall MA, DeMarco PJ, Prather RS, Kaplan HJ. Invest Ophthalmol Vis Sci. 2012 Jan 31;53(1):501-7.

Retinoid Receptors Trigger Neuritogenesis in Retinal Degenerations. Y. Lin, B.W. Jones, A. Liu, J.F. Tucker, K. Rapp, L. Luo, W. Baehr, P.S. Bernstein, C.B. Watt, J-H Yang, M.V. Shaw, R.E. Marc. FASEB J. 2011 Sep. 22. [epub ahead of publication]

Retinal Remodeling in the Tg P347L Rabbit, a Large-Eye Model of Retinal Degeneration. B.W. Jones, M. Kondo, H. Terasaki, C.B. Watt, K. Rapp, J. Anderson, Y. Lin, M.V. Shaw, J-H Yang, R.E. Marc. J Comp. Neurol. (Cover) 2011 Oct 1; 519(14):Spc1. doi: 10.1002/cne.22737.

Chapter: Retinal Remodeling and Visual Prosthetics. Visual Prosthetics. Elsevier Press. 2011.

Exploring the Retinal Connectome. JR Anderson, BW Jones, CB Watt, MV Shaw, J-H Yang, D DeMill, JS Lauritzen, Y Lin, K Rapp, D Mastronarde, P Koshevoy, B Grimm, T Tasdizen, R Whitaker, RE Marc. 2011 MolVis.

Automatic Mosaicking and Volume Assembly for High-Throughput Serial-Section Transmission Electron Microscopy. T Tasdizen, P Koshevoy, B Grimm, J Anderson, BW Jones, RT Whitaker, RE Marc. J Neurosci Methods. 2010 Aug 14.

Detection of Neuron Membranes in Electron Microscopy Images Using Auto-Context. Medical Image Analysis: E Jurrus, ARC Paiva, S Watanable, EM Jorgensen, JR Anderson, BW Jones, R Whitaker, RE Marc, T Tasdizen. 2010.

The Viking Viewer for Connectomics: Scalable Multi-User Annotation and Summarization of Large Volume Data Sets. JR Anderson, S Mohammed, B Grimm, BW Jones, P Koshevoy, T Tasdizen, R Whitaker, RE Marc. 2010. J Microscopy: [doi: 10.1111/j.1365-2818.2010.03402.x]

A computational framework for ultrastructural mapping of neural circuitry. Anderson JR, Jones BW, Yang J-H, Shaw MV, Watt CB, Koshevoy P, Spaltenstein J, Jurrus E, Kannan UV, Whitaker R, Mastronarde D, Tasdizen T, Marc R 2008 PLoS Biol 7(3): e1000074 [doi:10.1371/journal.pbio.1000074]. 8.6 Mb PDF

An Optimal-Path Approach for Neural Circuit Reconstruction. Jurrus E., Whitaker R., Jones BW., Marc R., Tasdizen T. 2009 Scientific Commons 44510622 [doi:10.1.1.140.3481].

Effect of shape and coating of a subretinal prosthesis on its integration with the retina. Experimental Eye Research Butterwick A, Huie P, Jones BW, Marmor MF, Marc RE, Palanker D. 2008. Experimental Eye Research. 2009 88(1):22-9

Extreme Retinal Remodeling Triggered by Light Damage: Implications for AMD. RE Marc, BW Jones, CB Watt, F. Vazquez-Chona, DK Vaughan, DT Organisciak. Molecular Vision 14:782-806. . PubMed 40 Mb full res PDF 3 Mb small PDF

Marc RE, BW Jones, JR Anderson, K Kinard, DW Marshak, JH Wilson, TG Wensel, RJ Lucas 2007 Neural reprogramming in retinal degenerations. Invest Ophthalmol Vis Sci. PubMed PDF

Review: Retinal Remodeling During Retinal Degeneration. Jones BW, Marc RE. Experimental Eye Research 2005, 81: 121-244. PubMed PDF

Excitation mapping with the organic cation AGB2+. Marc RE, M Kalloniatis, and BW Jones. 2005. Vision Research, 45: 3454-3468. PubMed PDF

Review: Retinal remodeling in retinal degenerations. Jones BW, CB Watt and RE Marc. 2005. Clinical and Experimental Optometry 88: 282-291. PubMed PDF

Chapter: Neural plasticity revealed by light-induced photoreceptor lesions. BW Jones, RE Marc, CB Watt, DK Vaughan, DT Organisciak. Retinal Degenerative Diseases, Springer, (New York), pp. 405-410. 2005.

Review: Retinal remodeling: Circuitry revisions triggered by photoreceptor degeneration. In Plasticity in the Visual system: Marc RE, BW Jones and CB Watt. 2005, From Genes to Circuits. Eds, Pinaud et al., Springer, pp. 33-54. 2005.

Retinal remodeling triggered by photoreceptor degenerations. Jones BW, Watt CB, Frederick JM, Baehr W, Chen CK, Levine EM, Milam AH, LaVail MM, Marc RE. Journal of Comparative Neurology pp. 1-16 Sep, 8;464(1) 2003 PubMed PDF

Neural Remodeling in Retinal Degeneration. Marc RE, BW Jones, CB Watt and E Strettoi. Progress in Retinal and Eye Research, pp. 607-655 Sep; 22(5) 2003. PubMed PDF

Retinal remodeling in inherited photoreceptor degenerations. Marc RE, BW Jones Molecular Neurobiology 28: 139-148 2003. PubMed PDF

Molecular phenotyping of retinal ganglion cells. RE Marc and BW Jones. The Journal of Neuroscience. pp 413-427 Jan, 15 22(2) 2002. PubMed PDF

Familial advanced sleep-phase syndrome: A short-period circadian rhythm variant in humans. pp 1062-1065 CR Jones, SS Campbell, SE Zone, F Cooper, A DeSano, PJ Murphy, B Jones, L Czajkowski & Louis J. Ptacek. Nature Medicine 2000 PubMed PDF

 

Technical Reports

Tolga Tasdizen, Ross Whitaker, Robert Marc and Bryan Jones, “Automatic Correction of Non-uniform Illumination in Transmission Electron Microscopy Images”, SCI Institute Technical Report, UUSCI-2005-008, University of Utah, September, 2005.