A Primer for Black Hole Quantum Physics

The mechanisms which give rise to Hawking radiation are revealed by analyzing in detail pair production in the presence of horizons. In preparation for the black hole problem, three preparatory problems are dwelt with at length: pair production in an external electric field, thermalization of a uniformly accelerated detector and accelerated mirrors. In the light of these examples, the black hole evaporation problem is then presented. The leitmotif is the singular behavior of modes on the horizon which gives rise to a steady rate of production. Special emphasis is put on how each produced particle contributes to the mean albeit arising from a particular vacuum fluctuation. It is the mean which drives the semiclassical back reaction. This aspect is analyzed in more detail than heretofore and in particular its drawbacks are emphasized. It is the semiclassical theory which gives rise to Hawking's famous equation for the loss of mass of the black hole due to evaporation $dM/dt \simeq -1/M^2$. Black hole thermodynamics is derived from the evaporation process whereupon the reservoir character of the black hole is manifest. The relation to the thermodynamics of the eternal black hole through the Hartle--Hawking vacuum and the Killing identity are displayed. It is through the analysis of the fluctuations of the field configurations which give rise to a particular Hawking photon that the dubious character of the semiclassical theory is manifest. The present frontier of research revolves around this problem and is principally concerned with the fact that one calls upon energy scales that are greater than Planckian and the possibility of a non unitary evolution as well. These last subjects are presented in qualitative fashion only, so that this review stops at the threshold of quantum gravity.Comment: An old review article on black hole evaporation and black hole thermodynamics, put on the archive following popular demand, 178 pages, 21 figures (This text differs in slightly from the published version

Multipath variability due to the Gulf Stream

Also published as: Journal of the Acoustical Society of America 69 (1981): 982-988A phase-coded signal with 64-ms resolution was transmitted at 10-min intervals for a 19-day period over two ~300-km ranges. The acoustic source was moored at 2000-m depth northwest of Bermuda. One receiver was moored at 2000-m depth to the northeast of the source and the other receiver was bottom mounted at ~1000- m depth near Bermuda. The large (~0.6 s) travel time change at the Bermuda receiver is probably due in large part to motion of the source mooring in the presence of currents. The multipath arrival pattern at the moored receiver undergoes significant modification due to the presence of a southern meander of the Gulf Stream which intersects this transmission path.Prepared for the Office of Naval Research under Contract N00014-77-C-0196 and NORDA contract N00014-79-C-0071

Intercenter reliability and validity of the rhesus macaque GeneChip

BACKGROUND: The non-human primate (NHP) research community has been intensely interested in obtaining whole-genome expression arrays for their work. Recently, novel approaches were used to generate the DNA sequence information for a rhesus GeneChip. To test the reliability of the rhesus GeneChip across different centers, RNA was isolated from five sources: cerebral cortex, pancreas, thymus, testis, and an immortalized fibroblast cell line. Aliquots of this RNA were sent to each of three centers: Yerkes National Primate Research Center, Oregon National Primate Research Center and the University of Nebraska Medical Center. Each center labeled the samples and hybridized them with two rhesus macaque GeneChips. In addition, rhesus samples were hybridzed with human GeneChips to compare with samples hybridized with the rhesus GeneChip. RESULTS: The results indicate that center effects were minimal and the rhesus GeneChip appears highly reliable. To test the validity of the rhesus GeneChip, five of the most differentially expressed genes among tissues identified in the reliability experiments were chosen for analysis with Quantitative PCR. For all 5 genes, the qPCR and GeneChip results were in agreement with regard to differential expression between tissues. Significantly more probesets were called present when rhesus samples were hybridized with the rhesus GeneChip than when these same samples were hybridized with a human GeneChip. CONCLUSION: The rhesus GeneChip is both a reliable and a valid tool for examining gene expression and represents a significant improvement over the use of the human GeneChip for rhesus macaque gene expression studies

Sound channel propagation through eddies southeast of the Gulf Stream

Also published as: Journal of the Acoustical Society of America 68 (1980): 1750-1767Acoustical signals at 270 Hz from SOFAR floats drifting in the region southeast of the Gulf Stream were recorded during most of 1975 from a near axis sound channel hydrophone near Bermuda. The amplitude levels received exhibit a large increase (12–18 dB) commencing about 24 July, following a long period (March to July) of relatively lower peak level amplitudes. A major part of the increase can be attributed to the influence of a large cyclonic eddy (Gulf Stream ring) that passed slowly between the SOFAR floats and Bermuda. Such an eddy produces a large sound speed anomaly that extends to depths below the axis of the sound channel. On 24 July, two SOFAR floats were known to have approximately the same sound transmission path through the edge of the large eddy. The sound transmission peaks occur when no ocean eddy is between the SOFAR floats and the receiver. Their spacing shows they occur at regular refraction caustics in the sound channel. When the sound transmission path passes through an eddy, these transmission focal distances are shifted to greater range and the signal level may be greatly enhanced. The decrease of caustic peak intensities with range is 5 dB per double distance, and this agrees with theory. Several different levels of peak acoustic intensity occur and these result from two float depths and oceanic thermocline oscillations.Prepared for the Office of Naval Research under Contract N00014-74-C-0262; NR 083-004·

An acoustic navigation system

This report describes a system for underwater acoustic navigation developed, and in use, at the Woods Hole Oceanographic Institution. It includes a brief discussion of the electronic components, operation, mathematical analysis, and available computer programs. There is a series of supplementary Technical Memoranda containing more information on various aspects of the system. We believe that this kind of documentation is more flexible and better meets the needs of potential users than including all technical details in one large volume. These are not final or definitive reports; acoustic navigation capabilities will continue to evolve at W.H.O.I. for some time. Acoustic navigation provides a method of tracking a ship, and an underwater vehicle or instrument package (‘fish’), in the deep ocean. Acoustic devices attached to the ship and fish measure the length of time it takes a sound pulse to travel to acoustic transponders moored on the ocean floor. If the transponder positions and the average speed of sound are known, the ship or fish position can be found.Prepared for the Office of Naval Research under Contracts N00014-71-C0284; NR 293-008 N00014-70-C0205; NR 263-103 and the National Science Foundation/International Decade of Ocean Exploration Grant GX-36024 and the Applied Physics Laboratory of The Johns Hopkins University Contract 372111

Optimizing Two-Color Semiconductor Nanocrystal Immunoassays in Single Well Microtiter Plate Formats

The simultaneous detection of two analytes, chicken IgY (IgG) and Staphylococcal enterotoxin B (SEB), in the single well of a 96-well plate is demonstrated using luminescent semiconductor quantum dot nanocrystal (NC) tracers. The NC-labeled antibodies were prepared via sulfhydryl-reactive chemistry using a facile protocol that took <3 h. Dose response curves for each target were evaluated in a single immunoassay format and compared to Cy5, a fluorophore commonly used in fluorescent immunoassays, and found to be equivalent. Immunoassays were then performed in a duplex format, demonstrating multiplex detection in a single well with limits of detection equivalent to the single assay format: 9.8 ng/mL chicken IgG and 7.8 ng/mL SEB

Leveraging human genomic information to identify nonhuman primate sequences for expression array development

BACKGROUND: Nonhuman primates (NHPs) are essential for biomedical research due to their similarities to humans. The utility of NHPs will be greatly increased by the application of genomics-based approaches such as gene expression profiling. Sequence information from the 3' end of genes is the key resource needed to create oligonucleotide expression arrays. RESULTS: We have developed the algorithms and procedures necessary to quickly acquire sequence information from the 3' end of nonhuman primate orthologs of human genes. To accomplish this, we identified terminal exons of over 15,000 human genes by aligning mRNA sequences with genomic sequence. We found the mean length of complete last exons to be approximately 1,400 bp, significantly longer than previous estimates. We designed primers to amplify genomic DNA, which included at least 300 bp of the terminal exon. We cloned and sequenced the PCR products representing over 5,500 Macaca mulatta (rhesus monkey) orthologs of human genes. This sequence information has been used to select probes for rhesus gene expression profiling. We have also tested 10 sets of primers with genomic DNA from Macaca fascicularis (Cynomolgus monkey), Papio hamadryas (Baboon), and Chlorocebus aethiops (African green monkey, vervet). The results indicate that the primers developed for this study will be useful for acquiring sequence from the 3' end of genes for other nonhuman primate species. CONCLUSION: This study demonstrates that human genomic DNA sequence can be leveraged to obtain sequence from the 3' end of NHP orthologs and that this sequence can then be used to generate NHP oligonucleotide microarrays. Affymetrix and Agilent used sequences obtained with this approach in the design of their rhesus macaque oligonucleotide microarrays

Single nucleotide polymorphisms (SNPs) distinguish Indian-origin and Chinese-origin rhesus macaques (Macaca mulatta)

BACKGROUND: Rhesus macaques serve a critical role in the study of human biomedical research. While both Indian and Chinese rhesus macaques are commonly used, genetic differences between these two subspecies affect aspects of their behavior and physiology, including response to simian immunodeficiency virus (SIV) infection. Single nucleotide polymorphisms (SNPs) can play an important role in both establishing ancestry and in identifying genes involved in complex diseases. We sequenced the 3' end of rhesus macaque genes in an effort to identify gene-based SNPs that could distinguish between Indian and Chinese rhesus macaques and aid in association analysis. RESULTS: We surveyed the 3' end of 94 genes in 20 rhesus macaque animals. The study included 10 animals each of Indian and Chinese ancestry. We identified a total of 661 SNPs, 457 of which appeared exclusively in one or the other population. Seventy-nine additional animals were genotyped at 44 of the population-exclusive SNPs. Of those, 38 SNPs were confirmed as being population-specific. CONCLUSION: This study demonstrates that the 3' end of genes is rich in sequence polymorphisms and is suitable for the efficient discovery of gene-linked SNPs. In addition, the results show that the genomic sequences of Indian and Chinese rhesus macaque are remarkably divergent, and include numerous population-specific SNPs. These ancestral SNPs could be used for the rapid scanning of rhesus macaques, both to establish animal ancestry and to identify gene alleles that may contribute to the phenotypic differences observed in these populations

Single Nucleotide Polymorphisms (SNPs) Distinguish Indian-Origin and Chinese-Origin Rhesus Macaques (Macaca Mulatta)

BACKGROUND: Rhesus macaques serve a critical role in the study of human biomedical research. While both Indian and Chinese rhesus macaques are commonly used, genetic differences between these two subspecies affect aspects of their behavior and physiology, including response to simian immunodeficiency virus (SIV) infection. Single nucleotide polymorphisms (SNPs) can play an important role in both establishing ancestry and in identifying genes involved in complex diseases. We sequenced the 3\u27 end of rhesus macaque genes in an effort to identify gene-based SNPs that could distinguish between Indian and Chinese rhesus macaques and aid in association analysis. RESULTS: We surveyed the 3\u27 end of 94 genes in 20 rhesus macaque animals. The study included 10 animals each of Indian and Chinese ancestry. We identified a total of 661 SNPs, 457 of which appeared exclusively in one or the other population. Seventy-nine additional animals were genotyped at 44 of the population-exclusive SNPs. Of those, 38 SNPs were confirmed as being population-specific. CONCLUSION: This study demonstrates that the 3\u27 end of genes is rich in sequence polymorphisms and is suitable for the efficient discovery of gene-linked SNPs. In addition, the results show that the genomic sequences of Indian and Chinese rhesus macaque are remarkably divergent, and include numerous population-specific SNPs. These ancestral SNPs could be used for the rapid scanning of rhesus macaques, both to establish animal ancestry and to identify gene alleles that may contribute to the phenotypic differences observed in these populations

Long-term Observations in Acoustics - the Ocean Acoustic Observatory Federation

The Ocean Acoustic Observatory Federation (OAOF) includes several laboratories and universities: the Institute of Geophysics and Planetary Physics (IGPP) and the Marine Physical Laboratory (MPL) at the Scripps Institution of Oceanography, the Pacific Meteorological and Environmental Laboratory (PMEL) of NOAA, the Naval Postgraduate School (NPS), and the Applied Physics Laboratory at the University of Washington (UW/APL)