2,289 research outputs found
Using phenocams to monitor our changing earth: Toward a global phenocam network
Rapid changes to the biosphere are altering ecological processes worldwide. Developing informed policies for mitigating the impacts of environmental change requires an exponential increase in the quantity, diversity, and resolution of field-collected data, which, in turn, necessitates greater reliance on innovative technologies to monitor ecological processes across local to global scales. Automated digital time-lapse cameras – “phenocams” – can monitor vegetation status and environmental changes over long periods of time. Phenocams are ideal for documenting changes in phenology, snow cover, fire frequency, and other disturbance events. However, effective monitoring of global environmental change with phenocams requires adoption of data standards. New continental-scale ecological research networks, such as the US National Ecological Observatory Network (NEON) and the European Union's Integrated Carbon Observation System (ICOS), can serve as templates for developing rigorous data standards and extending the utility of phenocam data through standardized ground-truthing. Open-source tools for analysis, visualization, and collaboration will make phenocam data more widely usable
Mechanical design and development of TES bolometer detector arrays for the Advanced ACTPol experiment
The next generation Advanced ACTPol (AdvACT) experiment is currently underway
and will consist of four Transition Edge Sensor (TES) bolometer arrays, with
three operating together, totaling ~5800 detectors on the sky. Building on
experience gained with the ACTPol detector arrays, AdvACT will utilize various
new technologies, including 150mm detector wafers equipped with multichroic
pixels, allowing for a more densely packed focal plane. Each set of detectors
includes a feedhorn array of stacked silicon wafers which form a spline profile
leading to each pixel. This is then followed by a waveguide interface plate,
detector wafer, back short cavity plate, and backshort cap. Each array is
housed in a custom designed structure manufactured from high purity copper and
then gold plated. In addition to the detector array assembly, the array package
also encloses cryogenic readout electronics. We present the full mechanical
design of the AdvACT high frequency (HF) detector array package along with a
detailed look at the detector array stack assemblies. This experiment will also
make use of extensive hardware and software previously developed for ACT, which
will be modified to incorporate the new AdvACT instruments. Therefore, we
discuss the integration of all AdvACT arrays with pre-existing ACTPol
infrastructure.Comment: 9 pages, 5 figures, SPIE Astronomical Telescopes and Instrumentation
conference proceeding
End-to-End Modeling of the TDM Readout System for CMB-S4
The CMB-S4 experiment is developing next-generation ground-based microwave
telescopes to observe the Cosmic Microwave Background with unprecedented
sensitivity. This will require an order of magnitude increase in the 100 mK
detector count, which in turn increases the demands on the readout system. The
CMB-S4 readout will use time division multiplexing (TDM), taking advantage of
faster switches and amplifiers in order to achieve an increased multiplexing
factor. To facilitate the design of the new readout system, we have developed a
model that predicts the bandwidth and noise performance of this circuity and
its interconnections. This is then used to set requirements on individual
components in order to meet the performance necessary for the full system. We
present an overview of this model and compare the model results to the
performance of both legacy and prototype readout hardware.Comment: This manuscript was submitted to the Journal of Low Temperature
Physics as part of the special issue "LTD20", supporting the conference
contribution RP-00
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The Differentiation and Stress Response Factor XBP-1 Drives Multiple Myeloma Pathogenesis
Multiple myeloma (MM) evolves from a highly prevalent premalignant condition termed MGUS. The factors underlying the malignant transformation of MGUS are unknown. We report a MGUS/MM phenotype in transgenic mice with Eμ-directed expression of the XBP-1 spliced isoform (XBP-1s), a factor governing unfolded protein/ER stress response and plasma-cell development. Eμ-XBP-1s elicited elevated serum Ig and skin alterations. With age, Eμ-xbp-1s transgenics develop features diagnostic of human MM, including bone lytic lesions and subendothelial Ig deposition. Furthermore, transcriptional profiles of Eμ-xbp-1s lymphoid and MM cells show aberrant expression of known human MM dysregulated genes. The similarities of this model with the human disease, coupled with documented frequent XBP-1s overexpression in human MM, serve to implicate XBP-1s dysregulation in MM pathogenesis
Developing Engineering Model Cobra fiber positioners for the Subaru Telescope's Prime Focus Spectrometer
The Cobra fiber positioner is being developed by the California Institute of Technology (CIT) and the Jet Propulsion Laboratory (JPL) for the Prime Focus Spectrograph (PFS) instrument that will be installed at the Subaru Telescope on Mauna Kea, Hawaii. PFS is a fiber fed multi-object spectrometer that uses an array of Cobra fiber positioners to rapidly reconfigure 2394 optical fibers at the prime focus of the Subaru Telescope that are capable of positioning a fiber to within 5μm of a specified target location. A single Cobra fiber positioner measures 7.7mm in diameter and is 115mm tall. The Cobra fiber positioner uses two piezo-electric rotary motors to move a fiber optic anywhere in a 9.5mm diameter patrol area. In preparation for full-scale production of 2550 Cobra positioners an Engineering Model (EM) version was developed, built and tested to validate the design, reduce manufacturing costs, and improve system reliability. The EM leveraged the previously developed prototype versions of the Cobra fiber positioner. The requirements, design, assembly techniques, development testing, design qualification and performance evaluation of EM Cobra fiber positioners are described here. Also discussed is the use of the EM build and test campaign to validate the plans for full-scale production of 2550 Cobra fiber positioners scheduled to begin in late-2014
The Simons Observatory: Magnetic Sensitivity Measurements of Microwave SQUID Multiplexers
The Simons Observatory (SO) will be a cosmic microwave background (CMB)
survey experiment with three small-aperture telescopes and one large-aperture
telescope, which will observe from the Atacama Desert in Chile. In total, SO
will field 70,000 transition-edge sensor (TES) bolometers in six spectral
bands centered between 27 and 280 GHz in order to achieve the sensitivity
necessary to measure or constrain numerous cosmological quantities. The SO
Universal Focal Plane Modules (UFMs) each contain a 150 mm diameter TES
detector array, horn or lenslet optical coupling, cold readout components, and
magnetic shielding. SO will use a microwave SQUID multiplexing (MUX)
readout at an initial multiplexing factor of 1000; the cold (100 mK)
readout components are packaged in a MUX readout module, which is part of
the UFM, and can also be characterized independently. The 100 mK stage TES
bolometer arrays and microwave SQUIDs are sensitive to magnetic fields, and
their measured response will vary with the degree to which they are
magnetically shielded. We present measurements of the magnetic pickup of test
microwave SQUID multiplexers as a study of various shielding configurations for
the Simons Observatory. We discuss how these measurements motivated the
material choice and design of the UFM magnetic shielding.Comment: 5 pages, 6 figures, conference proceedings submitted to IEEE
Transactions on Applied Superconductivit
Pan-Cancer Analysis of lncRNA Regulation Supports Their Targeting of Cancer Genes in Each Tumor Context
Long noncoding RNAs (lncRNAs) are commonly dys-regulated in tumors, but only a handful are known toplay pathophysiological roles in cancer. We inferredlncRNAs that dysregulate cancer pathways, onco-genes, and tumor suppressors (cancer genes) bymodeling their effects on the activity of transcriptionfactors, RNA-binding proteins, and microRNAs in5,185 TCGA tumors and 1,019 ENCODE assays.Our predictions included hundreds of candidateonco- and tumor-suppressor lncRNAs (cancerlncRNAs) whose somatic alterations account for thedysregulation of dozens of cancer genes and path-ways in each of 14 tumor contexts. To demonstrateproof of concept, we showed that perturbations tar-geting OIP5-AS1 (an inferred tumor suppressor) andTUG1 and WT1-AS (inferred onco-lncRNAs) dysre-gulated cancer genes and altered proliferation ofbreast and gynecologic cancer cells. Our analysis in-dicates that, although most lncRNAs are dysregu-lated in a tumor-specific manner, some, includingOIP5-AS1, TUG1, NEAT1, MEG3, and TSIX, synergis-tically dysregulate cancer pathways in multiple tumorcontexts
Spatial Organization and Molecular Correlation of Tumor-Infiltrating Lymphocytes Using Deep Learning on Pathology Images
Beyond sample curation and basic pathologic characterization, the digitized H&E-stained images
of TCGA samples remain underutilized. To highlight this resource, we present mappings of tumorinfiltrating lymphocytes (TILs) based on H&E images from 13 TCGA tumor types. These TIL
maps are derived through computational staining using a convolutional neural network trained to
classify patches of images. Affinity propagation revealed local spatial structure in TIL patterns and
correlation with overall survival. TIL map structural patterns were grouped using standard
histopathological parameters. These patterns are enriched in particular T cell subpopulations
derived from molecular measures. TIL densities and spatial structure were differentially enriched
among tumor types, immune subtypes, and tumor molecular subtypes, implying that spatial
infiltrate state could reflect particular tumor cell aberration states. Obtaining spatial lymphocytic
patterns linked to the rich genomic characterization of TCGA samples demonstrates one use for
the TCGA image archives with insights into the tumor-immune microenvironment
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