Publications

@article{Jaffe1996b,

title = {Three-dimensional swimming behavior of individual zooplankters: observations using the acoustical imaging system FishTV},

author = { D.E. McGehee and  Jules S. Jaffe},

url = {http://www.ingentaconnect.com/content/ap/jm/1996/00000053/00000002/art00050},

year  = {1996},

date = {1996-01-01},

journal = {ICES Journal of Marine Science},

volume = {53},

pages = {363-369(7)},

abstract = {
 There is increasing recognition that three-dimensional tracks of individual zoo-plankters are needed for studies in biological oceanography, including, for example, the role of individual behavior in patch formation and maintenance. The three-dimensional acoustical imaging system FishTV provides a means of non-invasively examining zooplankton swimming behavior. The system forms a set of 64 acoustic beams in an 8 by 8 pattern, each beam 2$#$&176; by 2$#$&176;, for a total coverage of 16$#$&176; by 16$#$&176;. The 8 by 8 beams form two dimensions of the image; range provides the third dimension. The system has 20 kHz of bandwidth and operates at a center frequency of 445 kHz. Observations of zooplankton swimming at 37 m depth were made from the research platform RP "FLIP" at a site in the San Diego Trough, 28 km south-west of San Diego, California, USA. In a 1-min-long sequence of 60 images, acquired at 2101 h, 24 March 1993, 314 plankters were tracked for lengths of time ranging from 2 to 13 s. The animals ranged from -83.0 dB re 1 m to -57.7 dB target strength. Movement of each animal was divided into directed and random components. The directed component was attributed to currents, waves and (possibly) a slight vertical migration. The random component was attributed to random behavior. Analysis of random velocities and turning behavior showed an inverse relationship between swimming speed and path curvature. Turning rates were approximately 1.2 rad s regardless of the size or speed of the animals. Mean swimming speeds were positively correlated with distance from a pair of bright lights (part of a video system), while mean path curvatures were negatively correlated. These observations are consistent with a model for swimming behavior that leads to aggregation.
},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Palowitch1995,

title = {Optical Serial Sectioned Chlorophyll-Alpha Microstructure},

author = { A. W. Palowitch and  Jules S. Jaffe},

issn = {0148-0227},

year  = {1995},

date = {1995-01-01},

journal = {Journal of Geophysical Research-Oceans},

volume = {100},

number = {C7},

pages = {13267-13278},

publisher = {AMER GEOPHYSICAL UNION},

address = {2000 FLORIDA AVE NW, WASHINGTON, DC 20009},

abstract = {An underwater serial sectioning tomography technique is shown capable of determining three-dimensional Chlorophyll a (Chl a) microstructure in phytoplankton distributions. The technique involves scanning a 457-nm illumination plane through a range of distances parallel to the imaging plane of a digital CCD camera. Images of induced fluorescence at 685 nm in the sequentially illuminated planes are recorded. A theoretical model of the imaging process in the form of i = In c + Ac + x shows that the image i is a function of a spatially varying c (Chi a) dependent absorption component A and a spatially invariant attenuation component x. A numerical inverse method, incorporating an environmentally dependent calibration constant, is used to calculate Chi a values from the image intensities for three-dimensional presentation. A stable reconstruction, not affected by noise-induced error propagation, is demonstrated.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Maffione1995,

title = {The average cosine due to an isotropic light source in the ocean},

author = { R.~A. Maffione and  Jules S. Jaffe},

year  = {1995},

date = {1995-01-01},

journal = {Journal of Geophysical Research},

volume = {100},

pages = {13179-13192},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Jaffe1995,

title = {FTV: a sonar for tracking macrozooplankton in three dimensions},

author = { Jules S. Jaffe and  Edward Reuss and  D.E. McGehee and  G. Chandran},

url = {http://www.sciencedirect.com/science/article/B6VGB-3YS8ND3-1M/2/dda34da7a1e67ed0adcabd840b6efedb},

issn = {0967-0637},

year  = {1995},

date = {1995-01-01},

journal = {Deep Sea Research Part I: Oceanographic Research Papers},

volume = {42},

number = {8},

pages = {1495 - 1512},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Jaffe1995a,

title = {Monte Carlo modeling of underwater-image formation: validity of the linear and small-angle approximations},

author = { Jules S. Jaffe},

url = {http://ao.osa.org/abstract.cfm?URI=ao-34-24-5413},

year  = {1995},

date = {1995-01-01},

journal = {Applied Optics},

volume = {34},

number = {24},

pages = {5413–5421},

publisher = {OSA},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{McGehee1995,

title = {Segmented transducer design using an optimum mean square quantizer approach},

author = { D.E. McGehee and  Jules S. Jaffe},

year  = {1995},

date = {1995-01-01},

journal = {Journal of the Acoustical Society of America},

volume = {97},

pages = {2316-2325},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Palowitch1994,

title = {3-Dimensional Ocean Chlopophyll Distributions from Underwater Serial-Sectioned Fluoresence Images},

author = { A. W. Palowitch and  Jules S. Jaffe},

issn = {0740-3224},

year  = {1994},

date = {1994-01-01},

journal = {Applied Optics},

volume = {33},

number = {14},

pages = {3023-3033},

publisher = {OPTICAL SOC AMER},

address = {2010 MASSACHUSETTS AVE NW, WASHINGTON, DC 20036},

abstract = {An underwater optical serial-sectioning technique is developed to measure in situ three-dimensional distributions of biological particles. The technique involves scanning of a thin plane of laser light through a range of distances parallel to the imaging plane of a digital CCD camera. Images of induced fluorescence in the sequentially illuminated planes are recorded. An inverse method is then used to reconstruct three-dimensional chlorophyll a distributions from the plane images. Computer simulations of the image formation and reconstruction process indicate that the underwater optical serial-sectioning technique is practical for in situ determination and analysis of chlorophyll a microstructures for concentrations as low as 0.1 mg of chlorophyll a per cubic meter in 1-m3 water volumes.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{McGehee1994,

title = {Beamforming with dense random arrays: The development of a spatially shaded polyvinylidene fluoride acoustic transducer},

author = { D.E. McGehee and  Jules S. Jaffe},

url = {http://link.aip.org/link/?JAS/95/318/1},

year  = {1994},

date = {1994-01-01},

journal = {Journal of the Acoustical Society of America},

volume = {95},

number = {1},

pages = {318-323},

publisher = {ASA},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Jaffe1993,

title = {A Simplified Derivation of the Performance of Edge-Connected Crossed-Electrode Arrays for Two-Dimensional Projection and Beamforming},

author = { Jules S. Jaffe},

issn = {1053-587X},

year  = {1993},

date = {1993-01-01},

journal = {IEEE Transactions on Signal Processing},

volume = {41},

number = {1},

pages = {446-},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Cobra1992,

title = {Geometric distortions in side-scan sonar images: a procedure for their estimation and correction},

author = { D.T. Cobra and  A.V. Oppenheim and  Jules S. Jaffe},

issn = {0364-9059},

year  = {1992},

date = {1992-01-01},

journal = {IEEE Journal of Oceanic Engineering},

volume = {17},

number = {3},

pages = {252-268},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Pretorius1992,

title = {3-dimensional sonographic analysis based on color flow Doppler and gray scale image data: a preliminary report},

author = { D. H. Pretorius and  T. R. Nelson and  Jules S. Jaffe},

url = {http://www.jultrasoundmed.org/cgi/content/abstract/11/5/225},

year  = {1992},

date = {1992-01-01},

journal = {Journal of Ultrasound in Medicine},

volume = {11},

number = {5},

pages = {225-232},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Sutton1992,

title = {Acoustic bedload velocity estimates using a broadband pulse-pulse time correlation technique},

author = { D.~W. Sutton and  Jules S. Jaffe},

year  = {1992},

date = {1992-01-01},

journal = {Acoustical Society of America Journal},

volume = {92},

pages = {1692-1698},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Jaffe1990b,

title = {Limited angle reconstruction using stabilized algorithms},

author = { Jules S. Jaffe},

issn = {0278-0062},

year  = {1990},

date = {1990-01-01},

journal = {IEEE Transactions on Medical Imaging},

volume = {9},

number = {3},

pages = {338-344},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Jaffe1900a,

title = {Code design and performance characterization for code multiplexed imaging},

author = { Jules S. Jaffe and  PM Cassereau and  D.J. Glassbrenner},

issn = {0096-3518},

year  = {1990},

date = {1990-01-01},

journal = {IEEE Transactions on Acoustics, Speech and Signal Processing},

volume = {38},

number = {8},

pages = {1321-1329},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Jaffe1990,

title = {Computer Modeling and the Design of Optimal Underwater Imaging-Systems},

author = { Jules S. Jaffe},

issn = {0364-9059},

year  = {1990},

date = {1990-01-01},

journal = {IEEE Journal of Oceanic Engineering},

volume = {15},

number = {2},

pages = {101-111},

publisher = {IEEE-INST ELECTRICAL ELECTRONICS ENGINEERS INC},

address = {345 E 47TH ST, NEW YORK, NY 10017-2394},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Olson1990,

title = {An explanation of the effects of Squashing in limited angle tomography.},

author = { T. Olson and  Jules S. Jaffe},

issn = {0278-0062},

year  = {1990},

date = {1990-01-01},

journal = {IEEE Transactions on Medical Imaging},

volume = {9},

number = {3},

pages = {242-6},

abstract = {The effects of Squashing, an algorithm introduced by J.A. Reeds and L.A. Shepp (see ibid., vol.MI-6, no.2, p.89-97, June 1987), are described. It is proven that Squashing induces a weight function upon the projections. Intuitive and numerical evidence is presented showing that this weight function is not desirable at limited angles. A method to counteract the effects of the weight function and extend the usefulness of the algorithm to 120 degrees is proposed.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{JAFFE1988,

title = {Multibeam imaging using spatially variant insonification},

author = { Jules S. Jaffe and  PM Cassereau},

issn = {0001-4966},

year  = {1988},

date = {1988-01-01},

journal = {Journal of the Acoustical Society of America},

volume = {83},

number = {4},

pages = {1458-1464},

publisher = {AMER INST PHYSICS},

address = {CIRCULATION FULFILLMENT DIV, 500 SUNNYSIDE BLVD, WOODBURY, NY 11797-2999},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Jaffe1987,

title = {Constrained reconstruction of complex waveforms},

author = { Jules S. Jaffe and  Robert Fricke},

url = {http://josaa.osa.org/abstract.cfm?URI=josaa-4-1-216},

year  = {1987},

date = {1987-01-01},

journal = {J. Opt. Soc. Am. A},

volume = {4},

number = {1},

pages = {216–220},

publisher = {OSA},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Jaffe1987a,

title = {Difference Fourier analysis of surface features of bacteriorhodopsin using glucose-embedded and frozen-hydrated purple membrane},

author = { Jules S. Jaffe and  R. M. Glaeser},

url = {http://www.sciencedirect.com/science/article/B6TW1-46V5HK0-4/2/3306dd10ff0f177bd5c1ddaf348051f9},

issn = {0304-3991},

year  = {1987},

date = {1987-01-01},

journal = {Ultramicroscopy},

volume = {23},

number = {1},

pages = {17 - 28},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{45,

title = {Preparation Of Frozen-Hydrated Specimens For High-Resolution Electron-Microscopy},

author = { Jules S. Jaffe and  R. M. Glaeser},

year  = {1984},

date = {1984-01-01},

journal = {Ultramicroscopy},

volume = {13},

pages = {373-377},

chapter = {373},

keywords = {},

pubstate = {published},

tppubtype = {article}

}