97 research outputs found
Optical scattering methods applicable to drops and bubbles
An overview of optical scattering properties of drops and bubbles is presented. The properties lead to unconventional methods for optically monitoring the size or shape of a scatterer and are applicable to acoustically levitated objects. Several of the methods are applicable to the detection and measurement of small amplitude oscillations. Relevant optical phenomena include: (1) rainbows; (2) diffraction catastrophes from spheroids; (3) critical angle scattering; (4) effects of coatings; (5) glory scattering; and (6) optical levitation
Glory in optical backscattering from air bubbles
Observations of light backscattered from air bubbles in a viscous liquid demonstrate an enhancement due to axial focusing. A physical-optics approximation for the cross-polarized scattering correctly describes the spacing of regular features observed. The non-cross polarized scattering is not adequately described by a single class of rays
Failures of the classical optical theorem under arbitrary-shaped beam incidence in electromagnetism, acoustics, and quantum mechanics: motivation and a review
The classical optical theorem states that for a wave propagating in a lossless medium and incident on a finite scatterer, the extinction cross section is proportional to the real part of the scattering amplitude in the forward direction. When developing a light scattering theory known as the generalized Lorenz–Mie theory, it has been a surprise to observe that in 1982, the optical theorem failed when the scatterer was illuminated by an arbitrary-shaped beam. The extremely simple reason for that failure has been understood only in 2014 and published in 2016. This represents a more than three-decade-long story, which is called a “wow” story for reasons that will be mentioned in this paper. The opportunity of this story which pertains to both the history and philosophy of sciences is considered to provide a review of the optical theorem under arbitrary-shaped beam incidence in electromagnetism, acoustics, and quantum mechanics
Optical Glory of Small Freely Rising Gas Bubbles in Water: Observed and Computed Cross-Polarized Backscatter Patterns
Light scattered from spherical bubbles in water manifests an enhancement in the backward direction analogous to the well-known optical glory of a drop. Unlike the glory for water drops, in which the rays travel partially on the drop's surface, the glory for bubbles is due to rays that are refracted and multiply reflected within the scatterer and is an example of a transmitted wave glory. Photographs of glory scattering for freely rising air bubbles in water are displayed for bubbles having diameters of less than 300 ym. A physical-optics model for backscattering is developed for spherical bubbles. Computed glory patterns from both Mie-series calculations and the physicaloptics model agree with the observed patterns. The patterns of freely rising air bubbles having a diameter of S300 ,am are essentially those predicted for a spherical scatterer. The interference of different classes of glory rays is more clearly seen for bubbles in water than for the previously studied case of bubbles in oil
The Balloon-Borne Large Aperture Submillimeter Telescope (BLAST) 2005: A 10 deg^2 Survey of Star Formation in Cygnus X
We present Cygnus X in a new multi-wavelength perspective based on an
unbiased BLAST survey at 250, 350, and 500 micron, combined with rich datasets
for this well-studied region. Our primary goal is to investigate the early
stages of high mass star formation. We have detected 184 compact sources in
various stages of evolution across all three BLAST bands. From their
well-constrained spectral energy distributions, we obtain the physical
properties mass, surface density, bolometric luminosity, and dust temperature.
Some of the bright sources reaching 40 K contain well-known compact H II
regions. We relate these to other sources at earlier stages of evolution via
the energetics as deduced from their position in the luminosity-mass (L-M)
diagram. The BLAST spectral coverage, near the peak of the spectral energy
distribution of the dust, reveals fainter sources too cool (~ 10 K) to be seen
by earlier shorter-wavelength surveys like IRAS. We detect thermal emission
from infrared dark clouds and investigate the phenomenon of cold ``starless
cores" more generally. Spitzer images of these cold sources often show stellar
nurseries, but these potential sites for massive star formation are ``starless"
in the sense that to date there is no massive protostar in a vigorous accretion
phase. We discuss evolution in the context of the L-M diagram. Theory raises
some interesting possibilities: some cold massive compact sources might never
form a cluster containing massive stars; and clusters with massive stars might
not have an identifiable compact cold massive precursor.Comment: 42 pages, 31 Figures, 6 table
Smc5/6 coordinates formation and resolution of joint molecules with chromosome morphology to ensure meiotic divisions
During meiosis, Structural Maintenance of Chromosome (SMC) complexes underpin two fundamental features of meiosis: homologous recombination and chromosome segregation. While meiotic functions of the cohesin and condensin complexes have been delineated, the role of the third SMC complex, Smc5/6, remains enigmatic. Here we identify specific, essential meiotic functions for the Smc5/6 complex in homologous recombination and the regulation of cohesin. We show that Smc5/6 is enriched at centromeres and cohesin-association sites where it regulates sister-chromatid cohesion and the timely removal of cohesin from chromosomal arms, respectively. Smc5/6 also localizes to recombination hotspots, where it promotes normal formation and resolution of a subset of joint-molecule intermediates. In this regard, Smc5/6 functions independently of the major crossover pathway defined by the MutLγ complex. Furthermore, we show that Smc5/6 is required for stable chromosomal localization of the XPF-family endonuclease, Mus81-Mms4Eme1. Our data suggest that the Smc5/6 complex is required for specific recombination and chromosomal processes throughout meiosis and that in its absence, attempts at cell division with unresolved joint molecules and residual cohesin lead to severe recombination-induced meiotic catastroph
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
Genomic, Pathway Network, and Immunologic Features Distinguishing Squamous Carcinomas
This integrated, multiplatform PanCancer Atlas study co-mapped and identified distinguishing
molecular features of squamous cell carcinomas (SCCs) from five sites associated with smokin
Pan-cancer Alterations of the MYC Oncogene and Its Proximal Network across the Cancer Genome Atlas
Although theMYConcogene has been implicated incancer, a systematic assessment of alterations ofMYC, related transcription factors, and co-regulatoryproteins, forming the proximal MYC network (PMN),across human cancers is lacking. Using computa-tional approaches, we define genomic and proteo-mic features associated with MYC and the PMNacross the 33 cancers of The Cancer Genome Atlas.Pan-cancer, 28% of all samples had at least one ofthe MYC paralogs amplified. In contrast, the MYCantagonists MGA and MNT were the most frequentlymutated or deleted members, proposing a roleas tumor suppressors.MYCalterations were mutu-ally exclusive withPIK3CA,PTEN,APC,orBRAFalterations, suggesting that MYC is a distinct onco-genic driver. Expression analysis revealed MYC-associated pathways in tumor subtypes, such asimmune response and growth factor signaling; chro-matin, translation, and DNA replication/repair wereconserved pan-cancer. This analysis reveals insightsinto MYC biology and is a reference for biomarkersand therapeutics for cancers with alterations ofMYC or the PMN
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
- …