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Badrinath Roysam

TitleProfessor
InstitutionUniversity of Houston
DepartmentElectrical Engineering
Address4800 Calhoun Rd
Houston TX 77004
Phone713-743-4400
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    Collapse Research 
    Collapse research activities and funding
    R21RR014038     (ROYSAM, BADRINATH)May 1, 2000 - Apr 30, 2002
    NIH/NCRR
    3-D SPATIAL MAPPING AND RECKONING FOR SURGICAL DEVICES
    Role: Principal Investigator
    R01EB005157     (ROYSAM, BADRINATH)Jun 5, 2008 - May 31, 2013
    NIH/NIBIB
    Multi-dimensional Image Analysis Tools for Brain Tissue
    Role: Principal Investigator

    Collapse Bibliographic 
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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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    1. An X, Sendra VG, Liadi I, Ramesh B, Romain G, Haymaker C, Martinez-Paniagua M, Lu Y, Radvanyi LG, Roysam B, Varadarajan N. Single-cell profiling of dynamic cytokine secretion and the phenotype of immune cells. PLoS One. 2017; 12(8):e0181904. PMID: 28837583.
      View in: PubMed
    2. Megjhani M, Correa de Sampaio P, Leigh Carstens J, Kalluri R, Roysam B. Morphologically constrained spectral unmixing by dictionary learning for multiplex fluorescence microscopy. Bioinformatics. 2017 Jul 15; 33(14):2182-2190. PMID: 28334208.
      View in: PubMed
    3. Lee HC, Gaire J, Roysam B, Otto KJ. Placing Sites on the Edge of Planar Silicon Microelectrodes Enhances Chronic Recording Functionality. IEEE Trans Biomed Eng. 2017 Jun 15. PMID: 28641240.
      View in: PubMed
    4. Barton EA, Lu Y, Megjhani M, Maynard ME, Kulkarni PM, Roysam B, Leasure JL. Binge alcohol alters exercise-driven neuroplasticity. Neuroscience. 2017 Feb 20; 343:165-173. PMID: 27932309.
      View in: PubMed
    5. Merouane A, Rey-Villamizar N, Lu Y, Liadi I, Romain G, Lu J, Singh H, Cooper LJ, Varadarajan N, Roysam B. Automated profiling of individual cell-cell interactions from high-throughput time-lapse imaging microscopy in nanowell grids (TIMING). Bioinformatics. 2015 Oct 01; 31(19):3189-97. PMID: 26059718; PMCID: PMC4693004 [Available on 10/01/16].
      View in: PubMed, PubMed Central
    6. Kulkarni PM, Barton E, Savelonas M, Padmanabhan R, Lu Y, Trett K, Shain W, Leasure JL, Roysam B. Quantitative 3-D analysis of GFAP labeled astrocytes from fluorescence confocal images. J Neurosci Methods. 2015 May 15; 246:38-51. PMID: 25745860.
      View in: PubMed
    7. Liadi I, Singh H, Romain G, Rey-Villamizar N, Merouane A, Adolacion JR, Kebriaei P, Huls H, Qiu P, Roysam B, Cooper LJ, Varadarajan N. Individual Motile CD4(+) T Cells Can Participate in Efficient Multikilling through Conjugation to Multiple Tumor Cells. Cancer Immunol Res. 2015 May; 3(5):473-82. PMID: 25711538; PMCID: PMC4421910.
      View in: PubMed, PubMed Central
    8. Megjhani M, Rey-Villamizar N, Merouane A, Lu Y, Mukherjee A, Trett K, Chong P, Harris C, Shain W, Roysam B. Population-scale three-dimensional reconstruction and quantitative profiling of microglia arbors. Bioinformatics. 2015 Jul 01; 31(13):2190-8. PMID: 25701570; PMCID: PMC4481841.
      View in: PubMed, PubMed Central
    9. Kulkarni PM, Rey-Villamizar N, Merouane A, Sudheendran N, Wang S, Garcia M, Larina IV, Roysam B, Larin KV. Algorithms for improved 3-D reconstruction of live mammalian embryo vasculature from optical coherence tomography data. Quant Imaging Med Surg. 2015 Feb; 5(1):125-35. PMID: 25694962; PMCID: PMC4312302.
      View in: PubMed, PubMed Central
    10. Lu Y, Carin L, Coifman R, Shain W, Roysam B. Quantitative arbor analytics: unsupervised harmonic co-clustering of populations of brain cell arbors based on L-measure. Neuroinformatics. 2015 Jan; 13(1):47-63. PMID: 25086878.
      View in: PubMed
    11. Romain G, Senyukov V, Rey-Villamizar N, Merouane A, Kelton W, Liadi I, Mahendra A, Charab W, Georgiou G, Roysam B, Lee DA, Varadarajan N. Antibody Fc engineering improves frequency and promotes kinetic boosting of serial killing mediated by NK cells. Blood. 2014 Nov 20; 124(22):3241-9. PMID: 25232058; PMCID: PMC4239333.
      View in: PubMed, PubMed Central
    12. Rey-Villamizar N, Somasundar V, Megjhani M, Xu Y, Lu Y, Padmanabhan R, Trett K, Shain W, Roysam B. Large-scale automated image analysis for computational profiling of brain tissue surrounding implanted neuroprosthetic devices using Python. Front Neuroinform. 2014; 8:39. PMID: 24808857; PMCID: PMC4010742.
      View in: PubMed, PubMed Central
    13. Padmanabhan RK, Somasundar VH, Griffith SD, Zhu J, Samoyedny D, Tan KS, Hu J, Liao X, Carin L, Yoon SS, Flaherty KT, Dipaola RS, Heitjan DF, Lal P, Feldman MD, Roysam B, Lee WM. An active learning approach for rapid characterization of endothelial cells in human tumors. PLoS One. 2014; 9(3):e90495. PMID: 24603893; PMCID: PMC3946171.
      View in: PubMed, PubMed Central
    14. Peng H, Roysam B, Ascoli GA. Automated image computing reshapes computational neuroscience. BMC Bioinformatics. 2013 Oct 04; 14:293. PMID: 24090217; PMCID: PMC3853071.
      View in: PubMed, PubMed Central
    15. Isse K, Lesniak A, Grama K, Maier J, Specht S, Castillo-Rama M, Lunz J, Roysam B, Michalopoulos G, Demetris AJ. Preexisting epithelial diversity in normal human livers: a tissue-tethered cytometric analysis in portal/periportal epithelial cells. Hepatology. 2013 Apr; 57(4):1632-43. PMID: 23150208; PMCID: PMC3612393.
      View in: PubMed, PubMed Central
    16. Eliceiri KW, Berthold MR, Goldberg IG, Ibáñez L, Manjunath BS, Martone ME, Murphy RF, Peng H, Plant AL, Roysam B, Stuurman N, Stuurmann N, Swedlow JR, Tomancak P, Carpenter AE. Biological imaging software tools. Nat Methods. 2012 Jun 28; 9(7):697-710. PMID: 22743775; PMCID: PMC3659807.
      View in: PubMed, PubMed Central
    17. Mayerich D, Bjornsson C, Taylor J, Roysam B. NetMets: software for quantifying and visualizing errors in biological network segmentation. BMC Bioinformatics. 2012; 13 Suppl 8:S7. PMID: 22607549; PMCID: PMC3355337.
      View in: PubMed, PubMed Central
    18. Hogrebe L, Paiva AR, Jurrus E, Christensen C, Bridge M, Dai L, Pfeiffer RL, Hof PR, Roysam B, Korenberg JR, Tasdizen T. Serial section registration of axonal confocal microscopy datasets for long-range neural circuit reconstruction. J Neurosci Methods. 2012 Jun 15; 207(2):200-10. PMID: 22465678; PMCID: PMC4981587.
      View in: PubMed, PubMed Central
    19. Winter MR, Fang C, Banker G, Roysam B, Cohen AR. Axonal transport analysis using Multitemporal Association Tracking. Int J Comput Biol Drug Des. 2012; 5(1):35-48. PMID: 22436297; PMCID: PMC3380808.
      View in: PubMed, PubMed Central
    20. Winter M, Wait E, Roysam B, Goderie SK, Ali RA, Kokovay E, Temple S, Cohen AR. Vertebrate neural stem cell segmentation, tracking and lineaging with validation and editing. Nat Protoc. 2011 Nov 17; 6(12):1942-52. PMID: 22094730; PMCID: PMC3313840.
      View in: PubMed, PubMed Central
    21. Isse K, Lesniak A, Grama K, Roysam B, Minervini MI, Demetris AJ. Digital transplantation pathology: combining whole slide imaging, multiplex staining and automated image analysis. Am J Transplant. 2012 Jan; 12(1):27-37. PMID: 22053785; PMCID: PMC3627485.
      View in: PubMed, PubMed Central
    22. Wang Y, Narayanaswamy A, Tsai CL, Roysam B. A broadly applicable 3-D neuron tracing method based on open-curve snake. Neuroinformatics. 2011 Sep; 9(2-3):193-217. PMID: 21399937.
      View in: PubMed
    23. Luisi J, Narayanaswamy A, Galbreath Z, Roysam B. The FARSIGHT trace editor: an open source tool for 3-D inspection and efficient pattern analysis aided editing of automated neuronal reconstructions. Neuroinformatics. 2011 Sep; 9(2-3):305-15. PMID: 21487683.
      View in: PubMed
    24. Narayanaswamy A, Wang Y, Roysam B. 3-D image pre-processing algorithms for improved automated tracing of neuronal arbors. Neuroinformatics. 2011 Sep; 9(2-3):219-31. PMID: 21537877.
      View in: PubMed
    25. Al-Kofahi Y, Lassoued W, Grama K, Nath SK, Zhu J, Oueslati R, Feldman M, Lee WM, Roysam B. Cell-based quantification of molecular biomarkers in histopathology specimens. Histopathology. 2011 Jul; 59(1):40-54. PMID: 21771025; PMCID: PMC3142095.
      View in: PubMed, PubMed Central
    26. Choi SG, Ruf-Zamojski F, Pincas H, Roysam B, Sealfon SC. Characterization of a MAPK scaffolding protein logic gate in gonadotropes. Mol Endocrinol. 2011 Jun; 25(6):1027-39. PMID: 21436256; PMCID: PMC3100603.
      View in: PubMed, PubMed Central
    27. Tsai CL, Lister JP, Bjornsson CS, Smith K, Shain W, Barnes CA, Roysam B. Robust, globally consistent and fully automatic multi-image registration and montage synthesis for 3-D multi-channel images. J Microsc. 2011 Aug; 243(2):154-71. PMID: 21361958; PMCID: PMC3566673.
      View in: PubMed, PubMed Central
    28. Mukherjee A, Jenkins B, Fang C, Radke RJ, Banker G, Roysam B. Automated kymograph analysis for profiling axonal transport of secretory granules. Med Image Anal. 2011 Jun; 15(3):354-67. PMID: 21330183.
      View in: PubMed
    29. Isse K, Grama K, Abbott IM, Lesniak A, Lunz JG, Lee WM, Specht S, Corbitt N, Mizuguchi Y, Roysam B, Demetris AJ. Adding value to liver (and allograft) biopsy evaluation using a combination of multiplex quantum dot immunostaining, high-resolution whole-slide digital imaging, and automated image analysis. Clin Liver Dis. 2010 Nov; 14(4):669-85. PMID: 21055689.
      View in: PubMed
    30. Melichar HJ, Li O, Herzmark P, Padmanabhan RK, Oliaro J, Ludford-Menting MJ, Bousso P, Russell SM, Roysam B, Robey EA. Quantifying subcellular distribution of fluorescent fusion proteins in cells migrating within tissues. Immunol Cell Biol. 2011 May; 89(4):549-57. PMID: 20956985.
      View in: PubMed
    31. Padfield D, Rittscher J, Roysam B. Coupled minimum-cost flow cell tracking for high-throughput quantitative analysis. Med Image Anal. 2011 Aug; 15(4):650-68. PMID: 20864383.
      View in: PubMed
    32. Kokovay E, Goderie S, Wang Y, Lotz S, Lin G, Sun Y, Roysam B, Shen Q, Temple S. Adult SVZ lineage cells home to and leave the vascular niche via differential responses to SDF1/CXCR4 signaling. Cell Stem Cell. 2010 Aug 06; 7(2):163-73. PMID: 20682445; PMCID: PMC2916873.
      View in: PubMed, PubMed Central
    33. Seggio AM, Narayanaswamy A, Roysam B, Thompson DM. Self-aligned Schwann cell monolayers demonstrate an inherent ability to direct neurite outgrowth. J Neural Eng. 2010 Aug; 7(4):046001. PMID: 20489238.
      View in: PubMed
    34. Narayanaswamy A, Dwarakapuram S, Bjornsson CS, Cutler BM, Shain W, Roysam B. Robust adaptive 3-D segmentation of vessel laminae from fluorescence confocal microscope images and parallel GPU implementation. IEEE Trans Med Imaging. 2010 Mar; 29(3):583-97. PMID: 20199906; PMCID: PMC2852140.
      View in: PubMed, PubMed Central
    35. Cohen AR, Gomes FL, Roysam B, Cayouette M. Computational prediction of neural progenitor cell fates. Nat Methods. 2010 Mar; 7(3):213-8. PMID: 20139969.
      View in: PubMed
    36. Yuan X, Trachtenberg JT, Potter SM, Roysam B. MDL constrained 3-D grayscale skeletonization algorithm for automated extraction of dendrites and spines from fluorescence confocal images. Neuroinformatics. 2009 Dec; 7(4):213-32. PMID: 20012509; PMCID: PMC2844542.
      View in: PubMed, PubMed Central
    37. Al-Kofahi Y, Lassoued W, Lee W, Roysam B. Improved automatic detection and segmentation of cell nuclei in histopathology images. IEEE Trans Biomed Eng. 2010 Apr; 57(4):841-52. PMID: 19884070.
      View in: PubMed
    38. Cohen AR, Bjornsson CS, Temple S, Banker G, Roysam B. Automatic summarization of changes in biological image sequences using algorithmic information theory. IEEE Trans Pattern Anal Mach Intell. 2009 Aug; 31(8):1386-403. PMID: 19542574.
      View in: PubMed
    39. Mitra K, Wunder C, Roysam B, Lin G, Lippincott-Schwartz J. A hyperfused mitochondrial state achieved at G1-S regulates cyclin E buildup and entry into S phase. Proc Natl Acad Sci U S A. 2009 Jul 21; 106(29):11960-5. PMID: 19617534; PMCID: PMC2710990.
      View in: PubMed, PubMed Central
    40. Schaeffer M, Han SJ, Chtanova T, van Dooren GG, Herzmark P, Chen Y, Roysam B, Striepen B, Robey EA. Dynamic imaging of T cell-parasite interactions in the brains of mice chronically infected with Toxoplasma gondii. J Immunol. 2009 May 15; 182(10):6379-93. PMID: 19414791.
      View in: PubMed
    41. Roysam B, Shain W, Ascoli GA. The central role of neuroinformatics in the National Academy of Engineering's grandest challenge: reverse engineer the brain. Neuroinformatics. 2009; 7(1):1-5. PMID: 19140032; PMCID: PMC2726926.
      View in: PubMed, PubMed Central
    42. Frampton JP, Hynd MR, Vargun A, Roysam B, Shain W. An in vitro system for modeling brain reactive responses and changes in neuroprosthetic device impedance. Conf Proc IEEE Eng Med Biol Soc. 2009; 2009:7155-8. PMID: 19965268.
      View in: PubMed
    43. Padfield D, Rittscher J, Roysam B. Coupled minimum-cost flow cell tracking. Inf Process Med Imaging. 2009; 21:374-85. PMID: 19694278.
      View in: PubMed
    44. Ladi E, Schwickert TA, Chtanova T, Chen Y, Herzmark P, Yin X, Aaron H, Chan SW, Lipp M, Roysam B, Robey EA. Thymocyte-dendritic cell interactions near sources of CCR7 ligands in the thymic cortex. J Immunol. 2008 Nov 15; 181(10):7014-23. PMID: 18981121.
      View in: PubMed
    45. Chen Y, Ladi E, Herzmark P, Robey E, Roysam B. Automated 5-D analysis of cell migration and interaction in the thymic cortex from time-lapse sequences of 3-D multi-channel multi-photon images. J Immunol Methods. 2009 Jan 01; 340(1):65-80. PMID: 18992251; PMCID: PMC2646843.
      View in: PubMed, PubMed Central
    46. Shen Q, Wang Y, Kokovay E, Lin G, Chuang SM, Goderie SK, Roysam B, Temple S. Adult SVZ stem cells lie in a vascular niche: a quantitative analysis of niche cell-cell interactions. Cell Stem Cell. 2008 Sep 11; 3(3):289-300. PMID: 18786416; PMCID: PMC2747473.
      View in: PubMed, PubMed Central
    47. Padfield D, Rittscher J, Thomas N, Roysam B. Spatio-temporal cell cycle phase analysis using level sets and fast marching methods. Med Image Anal. 2009 Feb; 13(1):143-55. PMID: 18752984.
      View in: PubMed
    48. Tsai CL, Madore B, Leotta MJ, Sofka M, Yang G, Majerovics A, Tanenbaum HL, Stewart CV, Roysam B. Automated retinal image analysis over the internet. IEEE Trans Inf Technol Biomed. 2008 Jul; 12(4):480-7. PMID: 18632328.
      View in: PubMed
    49. Jun SB, Hynd MR, Dowell-Mesfin NM, Al-Kofahi Y, Roysam B, Shain W, Kim SJ. Modulation of cultured neural networks using neurotrophin release from hydrogel-coated microelectrode arrays. J Neural Eng. 2008 Jun; 5(2):203-13. PMID: 18477815; PMCID: PMC2767261.
      View in: PubMed, PubMed Central
    50. Narasimha-Iyer H, Mahadevan V, Beach JM, Roysam B. Improved detection of the central reflex in retinal vessels using a generalized dual-gaussian model and robust hypothesis testing. IEEE Trans Inf Technol Biomed. 2008 May; 12(3):406-10. PMID: 18693508.
      View in: PubMed
    51. Bjornsson CS, Lin G, Al-Kofahi Y, Narayanaswamy A, Smith KL, Shain W, Roysam B. Associative image analysis: a method for automated quantification of 3D multi-parameter images of brain tissue. J Neurosci Methods. 2008 May 15; 170(1):165-78. PMID: 18294697; PMCID: PMC2700351.
      View in: PubMed, PubMed Central
    52. Al-Kofahi Y, Dowell-Mesfin N, Pace C, Shain W, Turner JN, Roysam B. Improved detection of branching points in algorithms for automated neuron tracing from 3D confocal images. Cytometry A. 2008 Jan; 73(1):36-43. PMID: 18067123.
      View in: PubMed
    53. Roussel N, Morton CA, Finger FP, Roysam B. A computational model for C. elegans locomotory behavior: application to multiworm tracking. IEEE Trans Biomed Eng. 2007 Oct; 54(10):1786-97. PMID: 17926677.
      View in: PubMed
    54. Lin G, Chawla MK, Olson K, Barnes CA, Guzowski JF, Bjornsson C, Shain W, Roysam B. A multi-model approach to simultaneous segmentation and classification of heterogeneous populations of cell nuclei in 3D confocal microscope images. Cytometry A. 2007 Sep; 71(9):724-36. PMID: 17654650.
      View in: PubMed
    55. Ruf F, Hayot F, Park MJ, Ge Y, Lin G, Roysam B, Sealfon SC. Noise propagation and scaling in regulation of gonadotrope biosynthesis. Biophys J. 2007 Dec 15; 93(12):4474-80. PMID: 17720728; PMCID: PMC2098712.
      View in: PubMed, PubMed Central
    56. Narasimha-Iyer H, Can A, Roysam B, Tanenbaum HL, Majerovics A. Integrated analysis of vascular and nonvascular changes from color retinal fundus image sequences. IEEE Trans Biomed Eng. 2007 Aug; 54(8):1436-45. PMID: 17694864.
      View in: PubMed
    57. Narasimha-Iyer H, Beach JM, Khoobehi B, Roysam B. Automatic identification of retinal arteries and veins from dual-wavelength images using structural and functional features. IEEE Trans Biomed Eng. 2007 Aug; 54(8):1427-35. PMID: 17694863.
      View in: PubMed
    58. Tyrrell JA, di Tomaso E, Fuja D, Tong R, Kozak K, Jain RK, Roysam B. Robust 3-D modeling of vasculature imagery using superellipsoids. IEEE Trans Med Imaging. 2007 Feb; 26(2):223-37. PMID: 17304736.
      View in: PubMed
    59. Sutherland VL, Timlin JA, Nieman LT, Guzowski JF, Chawla MK, Worley PF, Roysam B, McNaughton BL, Sinclair MB, Barnes CA. Advanced imaging of multiple mRNAs in brain tissue using a custom hyperspectral imager and multivariate curve resolution. J Neurosci Methods. 2007 Feb 15; 160(1):144-8. PMID: 17049619; PMCID: PMC1815393.
      View in: PubMed, PubMed Central
    60. Ruf F, Park MJ, Hayot F, Lin G, Roysam B, Ge Y, Sealfon SC. Mixed analog/digital gonadotrope biosynthetic response to gonadotropin-releasing hormone. J Biol Chem. 2006 Oct 13; 281(41):30967-78. PMID: 16916798.
      View in: PubMed
    61. Bjornsson CS, Oh SJ, Al-Kofahi YA, Lim YJ, Smith KL, Turner JN, De S, Roysam B, Shain W, Kim SJ. Effects of insertion conditions on tissue strain and vascular damage during neuroprosthetic device insertion. J Neural Eng. 2006 Sep; 3(3):196-207. PMID: 16921203.
      View in: PubMed
    62. Narasimha-Iyer H, Can A, Roysam B, Stewart CV, Tanenbaum HL, Majerovics A, Singh H. Robust detection and classification of longitudinal changes in color retinal fundus images for monitoring diabetic retinopathy. IEEE Trans Biomed Eng. 2006 Jun; 53(6):1084-98. PMID: 16761836.
      View in: PubMed
    63. Al-Kofahi O, Radke RJ, Roysam B, Banker G. Automated semantic analysis of changes in image sequences of neurons in culture. IEEE Trans Biomed Eng. 2006 Jun; 53(6):1109-23. PMID: 16761838.
      View in: PubMed
    64. Al-Kofahi O, Radke RJ, Goderie SK, Shen Q, Temple S, Roysam B. Automated cell lineage construction: a rapid method to analyze clonal development established with murine neural progenitor cells. Cell Cycle. 2006 Feb; 5(3):327-35. PMID: 16434878.
      View in: PubMed
    65. Narasimha-Iyer H, Can A, Roysam B, Stern J. Automated change analysis from fluorescein angiograms for monitoring wet macular degeneration. Conf Proc IEEE Eng Med Biol Soc. 2006; 1:4714-7. PMID: 17947113.
      View in: PubMed
    66. Tyrrell JA, Mahadevan V, Tong RT, Brown EB, Jain RK, Roysam B. A 2-D/3-D model-based method to quantify the complexity of microvasculature imaged by in vivo multiphoton microscopy. Microvasc Res. 2005 Nov; 70(3):165-78. PMID: 16239015.
      View in: PubMed
    67. Guzowski JF, Timlin JA, Roysam B, McNaughton BL, Worley PF, Barnes CA. Mapping behaviorally relevant neural circuits with immediate-early gene expression. Curr Opin Neurobiol. 2005 Oct; 15(5):599-606. PMID: 16150584.
      View in: PubMed
    68. Abdul-Karim MA, Roysam B, Dowell-Mesfin NM, Jeromin A, Yuksel M, Kalyanaraman S. Automatic selection of parameters for vessel/neurite segmentation algorithms. IEEE Trans Image Process. 2005 Sep; 14(9):1338-50. PMID: 16190469.
      View in: PubMed
    69. Narasimha-Iyer H, Beach JM, Khoobehi B, Ning J, Kawano H, Roysam B. Algorithms for automated oximetry along the retinal vascular tree from dual-wavelength fundus images. J Biomed Opt. 2005 Sep-Oct; 10(5):054013. PMID: 16292973.
      View in: PubMed
    70. Lin G, Bjornsson CS, Smith KL, Abdul-Karim MA, Turner JN, Shain W, Roysam B. Automated image analysis methods for 3-D quantification of the neurovascular unit from multichannel confocal microscope images. Cytometry A. 2005 Jul; 66(1):9-23. PMID: 15934061.
      View in: PubMed
    71. Radke RJ, Andra S, Al-Kofahi O, Roysam B. Image change detection algorithms: a systematic survey. IEEE Trans Image Process. 2005 Mar; 14(3):294-307. PMID: 15762326.
      View in: PubMed
    72. Lin G, Chawla MK, Olson K, Guzowski JF, Barnes CA, Roysam B. Hierarchical, model-based merging of multiple fragments for improved three-dimensional segmentation of nuclei. Cytometry A. 2005; 63(1):20-33. PMID: 15584021.
      View in: PubMed
    73. Chawla MK, Lin G, Olson K, Vazdarjanova A, Burke SN, McNaughton BL, Worley PF, Guzowski JF, Roysam B, Barnes CA. 3D-catFISH: a system for automated quantitative three-dimensional compartmental analysis of temporal gene transcription activity imaged by fluorescence in situ hybridization. J Neurosci Methods. 2004 Oct 15; 139(1):13-24. PMID: 15351517.
      View in: PubMed
    74. Mahadevan V, Narasimha-Iyer H, Roysam B, Tanenbaum HL. Robust model-based vasculature detection in noisy biomedical images. IEEE Trans Inf Technol Biomed. 2004 Sep; 8(3):360-76. PMID: 15484442.
      View in: PubMed
    75. Dowell-Mesfin NM, Abdul-Karim MA, Turner AM, Schanz S, Craighead HG, Roysam B, Turner JN, Shain W. Topographically modified surfaces affect orientation and growth of hippocampal neurons. J Neural Eng. 2004 Jun; 1(2):78-90. PMID: 15876626.
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    76. Tyrrell JA, LaPre JM, Carothers CD, Roysam B, Stewart CV. Efficient migration of complex off-line computer vision software to real-time system implementation on generic computer hardware. IEEE Trans Inf Technol Biomed. 2004 Jun; 8(2):142-53. PMID: 15217259.
      View in: PubMed
    77. Tsai CL, Stewart CV, Tanenbaum HL, Roysam B. Model-based method for improving the accuracy and repeatability of estimating vascular bifurcations and crossovers from retinal fundus images. IEEE Trans Inf Technol Biomed. 2004 Jun; 8(2):122-30. PMID: 15217257.
      View in: PubMed
    78. Warner CM, Newmark JA, Comiskey M, De Fazio SR, O'Malley DM, Rajadhyaksha M, Townsend DJ, McKnight S, Roysam B, Dwyer PJ, DiMarzio CA. Genetics and imaging to assess oocyte and preimplantation embryo health. Reprod Fertil Dev. 2004; 16(7):729-41. PMID: 15740696.
      View in: PubMed
    79. Lin G, Stewart CV, Roysam B, Fritzsche K, Yang G, Tanenbaum HL. Predictive scheduling algorithms for real-time feature extraction and spatial referencing: application to retinal image sequences. IEEE Trans Biomed Eng. 2004 Jan; 51(1):115-25. PMID: 14723500.
      View in: PubMed
    80. Al-Kofahi KA, Can A, Lasek S, Szarowski DH, Dowell-Mesfin N, Shain W, Turner JN, Roysam B. Median-based robust algorithms for tracing neurons from noisy confocal microscope images. IEEE Trans Inf Technol Biomed. 2003 Dec; 7(4):302-17. PMID: 15000357.
      View in: PubMed
    81. Gee MS, Makonnen S, al-Kofahi K, Roysam B, Payvandi F, Man HW, Muller GW, Lee WM. Selective cytokine inhibitory drugs with enhanced antiangiogenic activity control tumor growth through vascular inhibition. Cancer Res. 2003 Dec 01; 63(23):8073-8. PMID: 14678955.
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    82. Lin G, Adiga U, Olson K, Guzowski JF, Barnes CA, Roysam B. A hybrid 3D watershed algorithm incorporating gradient cues and object models for automatic segmentation of nuclei in confocal image stacks. Cytometry A. 2003 Nov; 56(1):23-36. PMID: 14566936.
      View in: PubMed
    83. Stewart CV, Tsai CL, Roysam B. The dual-bootstrap iterative closest point algorithm with application to retinal image registration. IEEE Trans Med Imaging. 2003 Nov; 22(11):1379-94. PMID: 14606672.
      View in: PubMed
    84. Abdul-Karim MA, Al-Kofahi K, Brown EB, Jain RK, Roysam B. Automated tracing and change analysis of angiogenic vasculature from in vivo multiphoton confocal image time series. Microvasc Res. 2003 Sep; 66(2):113-25. PMID: 12935769.
      View in: PubMed
    85. He W, Hamilton TA, Cohen AR, Holmes TJ, Pace C, Szarowski DH, Turner JN, Roysam B. Automated three-dimensional tracing of neurons in confocal and brightfield images. Microsc Microanal. 2003 Aug; 9(4):296-310. PMID: 12901764.
      View in: PubMed
    86. Al-Kofahi O, Can A, Lasek S, Szarowski DH, Turner JN, Roysam B. Algorithms for accurate 3D registration of neuronal images acquired by confocal scanning laser microscopy. J Microsc. 2003 Jul; 211(Pt 1):8-18. PMID: 12839546.
      View in: PubMed
    87. Can A, Al-Kofahi O, Lasek S, Szarowski DH, Turner JN, Roysam B. Attenuation correction in confocal laser microscopes: a novel two-view approach. J Microsc. 2003 Jul; 211(Pt 1):67-79. PMID: 12839553.
      View in: PubMed
    88. Al-Kofahi KA, Lasek S, Szarowski DH, Pace CJ, Nagy G, Turner JN, Roysam B. Rapid automated three-dimensional tracing of neurons from confocal image stacks. IEEE Trans Inf Technol Biomed. 2002 Jun; 6(2):171-87. PMID: 12075671.
      View in: PubMed
    89. Shen H, Roysam B, Stewart CV, Turner JN, Tanenbaum HL. Optimal scheduling of tracing computations for real-time vascular landmark extraction from retinal fundus images. IEEE Trans Inf Technol Biomed. 2001 Mar; 5(1):77-91. PMID: 11300219.
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    90. Can A, Shen H, Turner JN, Tanenbaum HL, Roysam B. Rapid automated tracing and feature extraction from retinal fundus images using direct exploratory algorithms. IEEE Trans Inf Technol Biomed. 1999 Jun; 3(2):125-38. PMID: 10719494.
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    91. Mackin RW, Newton LM, Turner JN, Roysam B. Advances in high-speed, three-dimensional imaging and automated segmentation algorithms for thick and overlapped clusters in cytologic preparations. Application to cervical smears. Anal Quant Cytol Histol. 1998 Apr; 20(2):105-21. PMID: 9569968.
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    92. Mackin RW, Newton LM, Turner JN, Holmes TJ, Roysam B. Accuracy of nuclear classification in cervical smear images. Quantitative impact of computational deconvolution and 3-D feature computation. Anal Quant Cytol Histol. 1998 Apr; 20(2):77-91. PMID: 9569965.
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    93. Becker DE, Can A, Turner JN, Tanenbaum HL, Roysam B. Image processing algorithms for retinal montage synthesis, mapping, and real-time location determination. IEEE Trans Biomed Eng. 1998 Jan; 45(1):105-18. PMID: 9444845.
      View in: PubMed
    94. Ancin H, Roysam B, Dufresne TE, Chestnut MM, Ridder GM, Szarowski DH, Turner JN. Advances in automated 3-D image analyses of cell populations imaged by confocal microscopy. Cytometry. 1996 Nov 01; 25(3):221-34. PMID: 8914819.
      View in: PubMed
    95. Becker DE, Ancin H, Szarowski DH, Turner JN, Roysam B. Automated 3-D montage synthesis from laser-scanning confocal images: application to quantitative tissue-level cytological analysis. Cytometry. 1996 Nov 01; 25(3):235-45. PMID: 8914820.
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    96. Turner JN, Szarowski DH, Turner TJ, Ancin H, Lin WC, Roysam B, Holmes TJ. Three-dimensional imaging and image analysis of hippocampal neurons: confocal and digitally enhanced wide field microscopy. Microsc Res Tech. 1994 Nov 01; 29(4):269-78. PMID: 7841499.
      View in: PubMed
    97. Roysam B, Ancin H, Bhattacharjya AK, Chisti MA, Seegal R, Turner JN. Algorithms for automated characterization of cell populations in thick specimens from 3-D confocal fluorescence microscopy data. J Microsc. 1994 Feb; 173(Pt 2):115-26. PMID: 7909568.
      View in: PubMed
    98. Cohen AR, Roysam B, Turner JN. Automated tracing and volume measurements of neurons from 3-D confocal fluorescence microscopy data. J Microsc. 1994 Feb; 173(Pt 2):103-14. PMID: 8169949.
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    99. Bhattacharjya AK, Roysam B. Joint solution of low, intermediate, and high-level vision tasks by evolutionary optimization: Application to computer vision at low SNR. IEEE Trans Neural Netw. 1994; 5(1):83-95. PMID: 18267782.
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    100. Mackin RW, Roysam B, Holmes TJ, Turner JN. Automated three-dimensional image analysis of thick and overlapped clusters in cytologic preparations. Application to cytologic smears. Anal Quant Cytol Histol. 1993 Dec; 15(6):405-17. PMID: 8297431.
      View in: PubMed
    101. Willis B, Turner JN, Collins DN, Roysam B, Holmes TJ. Developments in three-dimensional stereo brightfield microscopy. Microsc Res Tech. 1993 Apr 01; 24(5):437-51. PMID: 8318726.
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    102. Willis B, Roysam B, Turner JN, Holmes TJ. Iterative, constrained 3-D image reconstruction of transmitted light bright-field micrographs based on maximum likelihood estimation. J Microsc. 1993 Mar; 169(Pt 3):347-61. PMID: 8478915.
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    103. Roysam B, Maffitt DR, Miller MI, Saffitz JE, Thomas LJ. A personal computer based implementation of the maximum-likelihood method of analysis of electron microscope autoradiographs. Microsc Res Tech. 1992 Jan 01; 20(1):73-86. PMID: 1611151.
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    104. Roysam B, Bhattacharjya AK. Hierarchically structured unit-simplex transformations for parallel distributed optimization problems. IEEE Trans Neural Netw. 1992; 3(1):108-14. PMID: 18276411.
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    105. Miller MI, Roysam B. Bayesian image reconstruction for emission tomography incorporating Good's roughness prior on massively parallel processors. Proc Natl Acad Sci U S A. 1991 Apr 15; 88(8):3223-7. PMID: 2014243; PMCID: PMC51418.
      View in: PubMed, PubMed Central
    106. Miller MI, Roysam B, Smith KR, O'Sullivan JA. Representing and computing regular languages on massively parallel networks. IEEE Trans Neural Netw. 1991; 2(1):56-72. PMID: 18276351.
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    107. Fuhrmann DR, Brown MA, Miller MI, Roysam B, Saffitz JE, Thomas LJ. Data acquisition system for maximum-likelihood analysis of electron microscopic autoradiographs. J Electron Microsc Tech. 1987 Nov; 7(3):199-204. PMID: 3504447.
      View in: PubMed
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