A large-amplitude meander of the shelfbreak front during summer south of New England : observations from the Shelfbreak PRIMER experiment

Author Posting. © American Geophysical Union, 2004. This article is posted here by permission of American Geophysical Union for personal use, not for redistribution. The definitive version was published in Journal of Geophysical Research 109 (2004): C03006, doi:10.1029/2002JC001468.In order to examine spatial and temporal variability of the shelfbreak front during peak stratification, repeated surveys using a towed undulating vehicle (SeaSoar) are used to describe the evolution of shelfbreak frontal structure during 26 July to 1 August 1996 south of New England. Spatial correlation (e-folding) scales for the upper 60 m of the water column were generally between 8 and 15 km for temperature, salinity, and velocity. Temporal correlation scales were about 1 day. The frontal variability was dominated by the passage of a westward propagating meander that had a wavelength of 40 km, a propagation speed of 0.11 m s−1, and an amplitude of 15 km (30 km from crest to trough). Along-front geostrophic velocities (referenced to a shipboard acoustic Doppler current profilers) were as large as 0.45 m s−1, although subject to significant along-front variations. The relative vorticity within the jet was large, with a maximum 0.6 of the local value of the Coriolis parameter. Seaward of the front, a small detached eddy consisting of shelf water was present with a diameter of approximately 15 km. Ageostrophic contributions to the velocity field are estimated to be as large as 0.3 m s−1 in regions of sharp curvature within the meander. These observations strongly suggest that during at least some time periods, shelfbreak exchange is nonlinear (large Rossby number) and dominated by features on a horizontal scale of order 10 km.This work was performed under grants N-00014-95-1-0575 and N-00014-98-1-0059. as part of the ONR Shelfbreak PRIMER Initiative. Some additional analysis and writing was done under ONR grants N-00014-00-1-0931 and N-00014-01-1-0247

A large genome-wide association study of age-related macular degeneration highlights contributions of rare and common variants.

This is the author accepted manuscript. The final version is available from Nature Publishing Group via http://dx.doi.org/10.1038/ng.3448Advanced age-related macular degeneration (AMD) is the leading cause of blindness in the elderly, with limited therapeutic options. Here we report on a study of >12 million variants, including 163,714 directly genotyped, mostly rare, protein-altering variants. Analyzing 16,144 patients and 17,832 controls, we identify 52 independently associated common and rare variants (P < 5 × 10(-8)) distributed across 34 loci. Although wet and dry AMD subtypes exhibit predominantly shared genetics, we identify the first genetic association signal specific to wet AMD, near MMP9 (difference P value = 4.1 × 10(-10)). Very rare coding variants (frequency <0.1%) in CFH, CFI and TIMP3 suggest causal roles for these genes, as does a splice variant in SLC16A8. Our results support the hypothesis that rare coding variants can pinpoint causal genes within known genetic loci and illustrate that applying the approach systematically to detect new loci requires extremely large sample sizes.We thank all participants of all the studies included for enabling this research by their participation in these studies. Computer resources for this project have been provided by the high-performance computing centers of the University of Michigan and the University of Regensburg. Group-specific acknowledgments can be found in the Supplementary Note. The Center for Inherited Diseases Research (CIDR) Program contract number is HHSN268201200008I. This and the main consortium work were predominantly funded by 1X01HG006934-01 to G.R.A. and R01 EY022310 to J.L.H

Finishing the euchromatic sequence of the human genome

The sequence of the human genome encodes the genetic instructions for human physiology, as well as rich information about human evolution. In 2001, the International Human Genome Sequencing Consortium reported a draft sequence of the euchromatic portion of the human genome. Since then, the international collaboration has worked to convert this draft into a genome sequence with high accuracy and nearly complete coverage. Here, we report the result of this finishing process. The current genome sequence (Build 35) contains 2.85 billion nucleotides interrupted by only 341 gaps. It covers ∼99% of the euchromatic genome and is accurate to an error rate of ∼1 event per 100,000 bases. Many of the remaining euchromatic gaps are associated with segmental duplications and will require focused work with new methods. The near-complete sequence, the first for a vertebrate, greatly improves the precision of biological analyses of the human genome including studies of gene number, birth and death. Notably, the human enome seems to encode only 20,000-25,000 protein-coding genes. The genome sequence reported here should serve as a firm foundation for biomedical research in the decades ahead

Semantic domains, Injective spaces and monads:Extended abstract

Many categories of semantic domains can be considered from an order-theoretic point of view and from a topological point of view via the Scott topology. The topological point of view is particularly fruitful for considerations of computability in classical spaces such as the Euclidean real line. When one embeds topological spaces into domains, one requires that the Scott continuous maps between the host domains fully capture the continuous maps between the guest topological spaces. This property of the host domains is known as injectivity. For example, the continuous Scott domains are characterized as the injective spaces over dense subspace embeddings (Dana Scott, 1972, 1980). From a third point of view, the continuous Scott domains arise as the algebras of a monad (Wyler, 1985). The topological characterization by injectivity turns out to follow from the algebraic characterization and general category theory (Escardó 1998). In this paper we systematically consider monads that arise in semantics and topology, obtaining new proofs and discovering new characterizations of semantic domains and topological spaces by injectivity.</p

Semantic domains, injective spaces and monads (Extended Abstract)

Many categories of semantic domains can be considered from an order-theoretic point of view and from a topological point of view via the Scott topology. The topological point of view is particularly fruitful for considerations of computability in classical spaces such as the Euclidean real line. When one embeds topological spaces into domains, one requires that the Scott continuous maps between the host domains fully capture the continuous maps between the guest topological spaces. This property of the host domains is known as injectivity. For example, the continuous Scott domains are characterized as the injective spaces over dense subspace embeddings (Dana Scott, 1972, 1980). From a third point of view, the continuous Scott domains arise as the algebras of a monad (Wyler, 1985). The topological characterization by injectivity turns out to follow from the algebraic characterization and general category theory (Escard&apos;o 1998). In this paper we systematically consider monads that arise ..