A Climate-Data Record of the "Clear-Sky" Surface Temperature of the Greenland Ice Sheet

We are developing a climate-data record (CDR of daily "clear-sky" ice-surface temperature (IST) of the Greenland Ice Sheet, from 1982 to the present using Advanced Very High Resolution Radiometer (AVHRR) (1982 - present) and Moderate-Resolution Imaging Spectroradiometer (MODIS) data (2000 - present) at a resolution of approximately 5 km. The CDR will be continued in the National Polar-orbiting Operational Environmental Satellite System Visible/Infrared Imager Radiometer Suite era. Two algorithms remain under consideration. One algorithm under consideration is based on the split-window technique used in the Polar Pathfinder dataset (Fowler et al., 2000 & 21007). Another algorithm under consideration, developed by Comiso (2006), uses a single channel of AVHRR data (channel 4) in conjunction with meteorological-station data to account for atmospheric effects and drift between AVHRR instruments. Known issues being addressed in the production of the CDR are: tune-series bias caused by cloud cover (surface temperatures can be different under clouds vs. clear areas) and cross-calibration in the overlap period between AVHRR instruments, and between AVHRR and MODIS instruments. Because of uncertainties, mainly due to clouds (Stroeve & Steffen, 1998; Wang and Key, 2005; Hall et al., 2008 and Koenig and Hall, submitted), time-series of satellite 1S'1" do not necessarily correspond to actual surface temperatures. The CDR will be validated by comparing results with automatic-,",eather station (AWS) data and with satellite-derived surface-temperature products. Regional "clear-sky" surface temperature increases in the Arctic, measured from AVHRR infrared data, range from 0.57+/-0.02 deg C (Wang and Key, 2005) to 0.72+/-0.10 deg C (Comiso, 2006) per decade since the early 1980s. Arctic warming has important implications for ice-sheet mass balance because much of the periphery of the Greenland Ice Sheet is already near 0 deg C during the melt season, and is thus vulnerable to rapid melting if temperatures continue to increase. Reference

PROBER: oligonucleotide FISH probe design software

PROBER is an oligonucleotide primer design software application that designs multiple primer pairs for generating PCR probes useful for fluorescence in situ hybridization (FISH). PROBER generates Tiling Oligonucleotide Probes (TOPs) by masking repetitive genomic sequences and delineating essentially unique regions that can be amplified to yield small (100-2000 bp) DNA probes that in aggregate will generate a single, strong fluorescent signal for regions as small as a single gene. TOPs are an alternative to bacterial artificial chromosomes (BACs) that are commonly used for FISH but may be unstable, unavailable, chimeric, or non-specific to small (10-100 kb) genomic regions. PROBER can be applied to any genomic locus, with the limitation that the locus must contain at least 10 kb of essentially unique blocks. To test the software, we designed a number of probes for genomic amplifications and hemizygous deletions that were initially detected by Representational Oligonucleotide Microarray Analysis of breast cancer tumors. AVAILABILITY: http://prober.cshl.ed

‘Not a big deal’? exploring the accounts of adult children of lesbian, gay and trans parents

© 2016 Taylor & Francis. Most literature on lesbian, gay, bisexual and trans families has focused on the psychological and social well-being of school aged children with lesbian, gay and trans (LGT) parents. The aim of the present study was to explore how the adult children of LGT parents make sense of their families. The study focused both on recollections of childhood and on current feelings and experiences. Thirteen women and 1 man completed either an email interview or an online qualitative survey; the data were analysed using thematic analysis. The participants’ accounts were protective of their parents and often drew on the normalizing discourses evident in pro-gay rhetoric about LGT parenting to minimize the significance of their parents’ sexuality/gender identity and the ‘taint of difference’ associated with LGT families. At the same time, the participants strongly challenged heterosexist and homophobic/transphobic assumptions about LGT families and viewed the source of any difficulties they and their parents experienced as resulting from a hetero/cisnormative social context that prevented LGT people and their families from living openly and authentically without fear of discrimination. The results highlight the continuing micro impacts of hetero/cisnormativity in the lives of LGT people and their families

Inferring tumor progression from genomic heterogeneity

Cancer progression in humans is difficult to infer because we do not routinely sample patients at multiple stages of their disease. However, heterogeneous breast tumors provide a unique opportunity to study human tumor progression because they still contain evidence of early and intermediate subpopulations in the form of the phylogenetic relationships. We have developed a method we call Sector-Ploidy-Profiling (SPP) to study the clonal composition of breast tumors. SPP involves macro-dissecting tumors, flow-sorting genomic subpopulations by DNA content, and profiling genomes using comparative genomic hybridization (CGH). Breast carcinomas display two classes of genomic structural variation: (1) monogenomic and (2) polygenomic. Monogenomic tumors appear to contain a single major clonal subpopulation with a highly stable chromosome structure. Polygenomic tumors contain multiple clonal tumor subpopulations, which may occupy the same sectors, or separate anatomic locations. In polygenomic tumors, we show that heterogeneity can be ascribed to a few clonal subpopulations, rather than a series of gradual intermediates. By comparing multiple subpopulations from different anatomic locations, we have inferred pathways of cancer progression and the organization of tumor growth. © 2010 by Cold Spring Harbor Laboratory Press

A Blended Global Snow Product using Visible, Passive Microwave and Scatterometer Satellite Data

A joint U.S. Air Force/NASA blended, global snow product that utilizes Earth Observation System (EOS) Moderate Resolution Imaging Spectroradiometer (MODIS), Advanced Microwave Scanning Radiometer for EOS (AMSR-E) and QuikSCAT (Quick Scatterometer) (QSCAT) data has been developed. Existing snow products derived from these sensors have been blended into a single, global, daily, user-friendly product by employing a newly-developed Air Force Weather Agency (AFWA)/National Aeronautics and Space Administration (NASA) Snow Algorithm (ANSA). This initial blended-snow product uses minimal modeling to expeditiously yield improved snow products, which include snow cover extent, fractional snow cover, snow water equivalent (SWE), onset of snowmelt, and identification of actively melting snow cover. The blended snow products are currently 25-km resolution. These products are validated with data from the lower Great Lakes region of the U.S., from Colorado during the Cold Lands Processes Experiment (CLPX), and from Finland. The AMSR-E product is especially useful in detecting snow through clouds; however, passive microwave data miss snow in those regions where the snow cover is thin, along the margins of the continental snowline, and on the lee side of the Rocky Mountains, for instance. In these regions, the MODIS product can map shallow snow cover under cloud-free conditions. The confidence for mapping snow cover extent is greater with the MODIS product than with the microwave product when cloud-free MODIS observations are available. Therefore, the MODIS product is used as the default for detecting snow cover. The passive microwave product is used as the default only in those areas where MODIS data are not applicable due to the presence of clouds and darkness. The AMSR-E snow product is used in association with the difference between ascending and descending satellite passes or Diurnal Amplitude Variations (DAV) to detect the onset of melt, and a QSCAT product will be used to map areas of snow that are actively melting

Novel Insights Into Breast Cancer Copy Number Genetic Heterogeneity Revealed by Single-Cell Genome Sequencing

Copy number alterations (CNAs) play an important role in molding the genomes of breast cancers and have been shown to be clinically useful for prognostic and therapeutic purposes. However, our knowledge of intra-tumoral genetic heterogeneity of this important class of somatic alterations is limited. Here, using single-cell sequencing, we comprehensively map out the facets of copy number alteration heterogeneity in a cohort of breast cancer tumors. Ou/var/www/html/elife/12-05-2020/backup/r analyses reveal: genetic heterogeneity of non-tumor cells (i.e. stroma) within the tumor mass; the extent to which copy number heterogeneity impacts breast cancer genomes and the importance of both the genomic location and dosage of sub-clonal events; the pervasive nature of genetic heterogeneity of chromosomal amplifications; and the association of copy number heterogeneity with clinical and biological parameters such as polyploidy and estrogen receptor negative status. Our data highlight the power of single-cell genomics in dissecting, in its many forms, intra-tumoral genetic heterogeneity of CNAs, the magnitude with which CNA heterogeneity affects the genomes of breast cancers, and the potential importance of CNA heterogeneity in phenomena such as therapeutic resistance and disease relapse

Syntaxin 16 is a master recruitment factor for cytokinesis

Recently it was shown that both recycling endosome and endosomal sorting complex required for transport (ESCRT) components are required for cytokinesis, in which they are believed to act in a sequential manner to bring about secondary ingression and abscission, respectively. However, it is not clear how either of these complexes is targeted to the midbody and whether their delivery is coordinated. The trafficking of membrane vesicles between different intracellular organelles involves the formation of soluble N-ethylmalei­mide–sensitive factor attachment protein receptor (SNARE) complexes. Although membrane traffic is known to play an important role in cytokinesis, the contribution and identity of intracellular SNAREs to cytokinesis remain unclear. Here we demonstrate that syntaxin 16 is a key regulator of cytokinesis, as it is required for recruitment of both recycling endosome–associated Exocyst and ESCRT machinery during late telophase, and therefore that these two distinct facets of cytokinesis are inextricably linked

Skyrmion Quantization and the Decay of the Delta

We present the complete solution to the so-called ``Yukawa problem'' of the Skyrme model. This refers to the perceived difficulty of reproducing---purely from soliton physics---the usual pseudovector pion-nucleon coupling, echoed by pion coupling to the higher spin/isospin baryons $(I=J=3/2 , 5/2 , \cdots , N_c/2 )$ in a manner fixed by large-$N_c$ group theory. The solution involves surprisingly elegant interplay between the classical and quantum properties of a new configuration, the ``new improved skyrmion''. This is the near-hedgehog obtained by minimizing the usual skyrmion mass functional augmented by an all-important isorotational kinetic term. The numerics are pleasing: a $\Delta$ decay width within a few MeV of its measured value, and furthermore, the higher-spin baryons $(I=J \ge 5/2 )$ with widths so large ($\Gamma > 800 MeV$) that these undesirable large-$N_c$ artifacts effectively drop out of the spectrum, and pose no phenomenological problem. Beyond these specific results, we ground the Skyrme model in the Feynman Path Integral, and set up a transparent collective coordinate formalism that makes maximal use of the $1/N_c$ expansion. This approach elucidates the connection between skyrmions on the one hand, and Feynman diagrams in an effective field theory on the other.Comment: This TeX file inputs the macropackage harvmac.tex . Choose the ``b'' (big) option or equations will overrun

Thoracic and Lumbar Vertebral Bone Mineral Density Changes in a Natural Occurring Dog Model of Diffuse Idiopathic Skeletal Hyperostosis

Ankylosing spinal disorders can be associated with alterations in vertebral bone mineral density (BMD). There is however controversy about vertebral BMD in patients wuse idiopathic skeletal hyperostosis (DISH). DISH in Boxer dogs has been considered a natural occurring disease model for DISH in people. The purpose of this study was to compare vertebral BMD between Boxers with and without DISH. Fifty-nine Boxers with (n=30) or without (n=29) DISH that underwent computed tomography were included. Vertebral BMD was calculated for each thoracic and lumbar vertebra by using an earlier reported and validated protocol. For each vertebral body, a region of interest was drawn on the axial computed tomographic images at three separate locations: immediately inferior to the superior end plate, in the middle of the vertebral body, and superior to the inferior end plate. Values from the three axial slices were averaged to give a mean Hounsfield Unit value for each vertebral body. Univariate statistical analysis was performed to identify factors to be included in a multivariate model. The multivariate model including all dogs demonstrated that vertebral DISH status (Coefficient 24.63; 95% CI 16.07 to 33.19; p <0.001), lumbar vertebrae (Coefficient -17.25; 95% CI -23.42 to -11.09; p < 0.01), and to a lesser extent higher age (Coefficient -0.56; 95% CI -1.07 to -0.05; p = 0.03) were significant predictors for vertebral BMD. When the multivariate model was repeated using only dogs with DISH, vertebral DISH status (Coefficient 20.67; 95% CI, 10.98 to 30.37; p < 0.001) and lumbar anatomical region (Coefficient -38.24; 95% CI, -47.75 to -28.73; p < 0.001) were again predictors for vertebral BMD but age was not. The results of this study indicate that DISH can be associated with decreased vertebral BMD. Further studies are necessary to evaluate the clinical importance and pathophysiology of this finding

Pion-Nucleon Scattering in a Large-N Sigma Model

We review the large-N_c approach to meson-baryon scattering, including recent interesting developments. We then study pion-nucleon scattering in a particular variant of the linear sigma-model, in which the couplings of the sigma and pi mesons to the nucleon are echoed by couplings to the entire tower of I=J baryons (including the Delta) as dictated by large-N_c group theory. We sum the complete set of multi-loop meson-exchange \pi N --> \pi N and \pi N --> \sigma N Feynman diagrams, to leading order in 1/N_c. The key idea, reviewed in detail, is that large-N_c allows the approximation of LOOP graphs by TREE graphs, so long as the loops contain at least one baryon leg; trees, in turn, can be summed by solving classical equations of motion. We exhibit the resulting partial-wave S-matrix and the rich nucleon and Delta resonance spectrum of this simple model, comparing not only to experiment but also to pion-nucleon scattering in the Skyrme model. The moral is that much of the detailed structure of the meson-baryon S-matrix which hitherto has been uncovered only with skyrmion methods, can also be described by models with explicit baryon fields, thanks to the 1/N_c expansion.Comment: This LaTeX file inputs the ReVTeX macropackage; figures accompany i