Advanced techniques for high resolution spectroscopic observations of cosmic gamma-ray sources

An advanced gamma-ray spectrometer that is currently in development is described. It will obtain a sensitivity of 0.0001 ph/sq cm./sec in a 6 hour balloon observation and uses innovative techniques for background reduction and source imaging

Irrigating Alfalfa in South Dakota

Alfalfa performs admirably an irrigated crop in South Dakota-so well that it is often neglected. When given attention, it can realistically maintain irrigated yields of 6 to 7 TIA each year in most of South Dakota where 1 to 2 T are produced on dryland. Irrigated land that will produce 100-130 bu corn will produce 5-7 T alfalfa. On poorer irrigated land that produces 50-70 hu corn, one can expect 3-5 T alfalfa. Alfalfa has higher water requirements for peak yields than most other crops. It may not reach its full potential yield in any part of the stale without irrigation. Alfalfa is produced on 2.2 million acres dryland and irrigated land combined) in every county in South Dakota. By contrast, even when corn is irrigated, it is adapted to only about two thirds of the slate. If the marketing problems of transportation and fluctuating prices are overcome, alfalfa could become the state\u27s number one irrigated crop

Charge Collection Physics in Semiconductor Detectors

This research was sponsored by the National Science Foundation Grant NSF PHY-931478

Formation of Re-Aggregated Neonatal Porcine Islet Clusters Improves In Vitro Function and Transplantation Outcome

Neonatal porcine islet-like cell clusters (NPICCs) are a promising source for islet cell transplantation. Excellent islet quality is important to achieve a cure for type 1 diabetes. We investigated formation of cell clusters from dispersed NPICCs on microwell cell culture plates, evaluated the composition of re-aggregated porcine islets (REPIs) and compared in vivo function by transplantation into diabetic NOD-SCID IL2rγ−/− (NSG) mice with native NPICCs. Dissociation of NPICCs into single cells and re-aggregation resulted in the formation of uniform REPI clusters. A higher prevalence of normoglycemia was observed in diabetic NSG mice after transplantation with a limited number (n = 1500) of REPIs (85.7%) versus NPICCs (n = 1500) (33.3%) (p < 0.05). Transplanted REPIs and NPICCs displayed a similar architecture of endocrine and endothelial cells. Intraperitoneal glucose tolerance tests revealed an improved beta cell function after transplantation of 1500 REPIs (AUC glucose 0–120 min 6260 ± 305.3) as compared to transplantation of 3000 native NPICCs (AUC glucose 0–120 min 8073 ± 536.2) (p < 0.01). Re-aggregation of single cells from dissociated NPICCs generates cell clusters with excellent functionality and improved in vivo function as compared to native NPICCs

Spectra of GRB 970228 from the Transient Gamma-Ray Spectrometer

Visible afterglow counterparts have now been detected for two GRBs (970228 and 970508) but are absent, with $L_{opt}/L_{\gamma}$ ratios at least two orders of magnitude lower, for other GRBs, e.g., 970828. The causes of this variation are unknown. Any correspondence which could be discovered between the gamma-ray properties of a GRB and its $L_{opt}/L_{\gamma}$ would be useful, both in determining the GRB mechanisms, and in allocating resources for counterpart searches and studies. This paper presents the gamma-ray spectra of GRB 970228 as measured by the Transient Gamma-Ray Spectrometer and comments on characteristics of this GRB compared to others that do and do not have observable counterparts.Comment: To appear in "Gamma-Ray Bursts", Proceedings of the 4th Huntsville Symposium, 1997, eds. C. Meegan, R. Preece, and T. Koshut, 5 pages, LaTeX (aipproc.sty incl.), 3 figs. (epsfig.sty

TGRS Observation of the Galactic Center Annihilation Line

The TGRS (Transient Gamma-Ray Spectrometer) experiment is a high-resolution germanium detector launched on the WIND satellite on Nov. 1, 1994. Although primarily intended to study gamma-ray bursts and solar flares, TGRS also has the capability of studying slower transients (e.g. x-ray novae) and certain steady sources. We present here results on the narrow 511 keV annihilation line from the general direction of the Galactic Center accumulated over the period Jan. 1995 through Oct. 1995. These results were obtained from the TGRS occultation mode, in which a lead absorber occults the Galactic Center region for 1/4 of each spacecraft rotation, thus chopping the 511 keV signal. The occulted region is a band in the sky of width 16 degrees that passes through the Galactic Center. We detect the narrow annihilation line from the galactic center with flux = $(1.64\pm0.09)\times10^{-3} {photons} {cm}^{-2} {s}^{-1}$. The data are consistent with a single point source at the galactic center, but a distributed source of extent up to ~30 degrees cannot be ruled out. No evidence for temporal variability on time scales longer than 1 month was found.Comment: 11 pages + 5 Postscript figure

Analysing cerebrospinal fluid with explainable deep learning: From diagnostics to insights

Aim Analysis of cerebrospinal fluid (CSF) is essential for diagnostic workup of patients with neurological diseases and includes differential cell typing. The current gold standard is based on microscopic examination by specialised technicians and neuropathologists, which is time-consuming, labour-intensive and subjective. Methods We, therefore, developed an image analysis approach based on expert annotations of 123,181 digitised CSF objects from 78 patients corresponding to 15 clinically relevant categories and trained a multiclass convolutional neural network (CNN). Results The CNN classified the 15 categories with high accuracy (mean AUC 97.3%). By using explainable artificial intelligence (XAI), we demonstrate that the CNN identified meaningful cellular substructures in CSF cells recapitulating human pattern recognition. Based on the evaluation of 511 cells selected from 12 different CSF samples, we validated the CNN by comparing it with seven board-certified neuropathologists blinded for clinical information. Inter-rater agreement between the CNN and the ground truth was non-inferior (Krippendorff's alpha 0.79) compared with the agreement of seven human raters and the ground truth (mean Krippendorff's alpha 0.72, range 0.56–0.81). The CNN assigned the correct diagnostic label (inflammatory, haemorrhagic or neoplastic) in 10 out of 11 clinical samples, compared with 7–11 out of 11 by human raters. Conclusions Our approach provides the basis to overcome current limitations in automated cell classification for routine diagnostics and demonstrates how a visual explanation framework can connect machine decision-making with cell properties and thus provide a novel versatile and quantitative method for investigating CSF manifestations of various neurological diseases.Peer Reviewe

Genes That Influence Swarming Motility and Biofilm Formation in Variovorax paradoxus EPS

Variovorax paradoxus is an aerobic soil bacterium associated with important biodegradative processes in nature. We use V. paradoxus EPS to study multicellular behaviors on surfaces.We recovered flanking sequence from 123 clones in a Tn5 mutant library, with insertions in 29 different genes, selected based on observed surface behavior phenotypes. We identified three genes, Varpa_4665, Varpa_4680, and Varpa_5900, for further examination. These genes were cloned into pBBR1MCS2 and used to complement the insertion mutants. We also analyzed expression of Varpa_4680 and Varpa_5900 under different growth conditions by qPCR.The 29 genes we identified had diverse predicted functions, many in exopolysaccharide synthesis. Varpa_4680, the most commonly recovered insertion site, encodes a putative N-acetyl-L-fucosamine transferase similar to WbuB. Expression of this gene in trans complemented the mutant fully. Several unique insertions were identified in Varpa_5900, which is one of three predicted pilY1 homologs in the EPS genome. No insertions in the two other putative pilY1 homologs present in the genome were identified. Expression of Varpa_5900 altered the structure of the wild type swarm, as did disruption of the chromosomal gene. The swarming phenotype was complemented by expression of Varpa_5900 from a plasmid, but biofilm formation was not restored. Both Varpa_4680 and Varpa_5900 transcripts were downregulated in biofilms and upregulated during swarming when compared to log phase culture. We identified a putative two component system (Varpa_4664-4665) encoding a response regulator (shkR) and a sensor histidine kinase (shkS), respectively. Biofilm formation increased and swarming was strongly delayed in the Varpa_4665 (shkS) mutant. Complementation of shkS restored the biofilm phenotype but swarming was still delayed. Expression of shkR in trans suppressed biofilm formation in either genetic background, and partially restored swarming in the mutant.The data presented here point to complex regulation of these surface behaviors

The genomic and transcriptional landscape of primary central nervous system lymphoma

Primary lymphomas of the central nervous system (PCNSL) are mainly diffuse large B-cell lymphomas (DLBCLs) confined to the central nervous system (CNS). Molecular drivers of PCNSL have not been fully elucidated. Here, we profile and compare the whole-genome and transcriptome landscape of 51 CNS lymphomas (CNSL) to 39 follicular lymphoma and 36 DLBCL cases outside the CNS. We find recurrent mutations in JAK-STAT, NFkB, and B-cell receptor signaling pathways, including hallmark mutations in MYD88 L265P (67%) and CD79B (63%), and CDKN2A deletions (83%). PCNSLs exhibit significantly more focal deletions of HLA-D (6p21) locus as a potential mechanism of immune evasion. Mutational signatures correlating with DNA replication and mitosis are significantly enriched in PCNSL. TERT gene expression is significantly higher in PCNSL compared to activated B-cell (ABC)-DLBCL. Transcriptome analysis clearly distinguishes PCNSL and systemic DLBCL into distinct molecular subtypes. Epstein-Barr virus (EBV)+ CNSL cases lack recurrent mutational hotspots apart from IG and HLA-DRB loci. We show that PCNSL can be clearly distinguished from DLBCL, having distinct expression profiles, IG expression and translocation patterns, as well as specific combinations of genetic alterations

CT imaging of small animals using monochromatized synchrotron x rays

Rats and chicken embryos were imaged in vivo with a prototype Multiple Energy Computed Tomography (MECT) system using monochromatized x rays from the X17 superconducting wiggler at the National Synchrotron Light Source. The CT configuration coated of a horizontal low-divergence, fan-shaped beam, 70 mm wide and 0.5 mm high, and a subject rotating about a vertical aids. A linear-array high-purity Ge detector with 140 elements, each 0.5 mm wide and 6 mm thick, was used with a data acquisition system that provides a linear response over almost six orders of magnitude of detector current. The dual photon absorptiometry (DPA) algorithm was applied to images of the rat head acquired at 20 and 45 keV to obtain two new images, one representing the low-Z, and the other the intermediate-Z clement group. The results indicate that the contrast resolution and the quantification accuracy of the images improve stepwise; first, with the monochromatic beam and, second, the DPA method. The system is a prototype for a brain scanner