gebhart/patrepeval huggingface dataset:
Systematic review and meta-analysis of interstitial lung disease transcriptomics (2022)

<b>Background:</b>&nbsp;Interstitial lung diseases (ILDs), which encompass &gt;200 diseases involving excess deposition of extracellular matrix (ECM) in the lung, have been extensively characterized by whole genome expression sequencing (transcriptomics). However, a consensus of molecular aberrations in ILD has yet to be determined. We aimed to identify a molecular signature of ILD subtypes through integration of data obtained from transcriptomic-profiled lung samples. <b>Methods:</b> A literature search was conducted in two databases (MEDLINE and EMBASE) to identify 5,337 publications, which were then screened to keep 18 studies involving ILD transcriptomics. Microarray and RNA-seq data from these studies were obtained from the Gene Expression Omnibus and integrated via the Multivariate INTegration (MINT) framework. <b>Results:</b> We identified 17 studies examining lung samples from subjects with the ILD subtype idiopathic pulmonary fibrosis (IPF). Gene expression data was integrated via MINT and used to develop an IPF classification model (Figure 1; 14 datasets) consisting of 30 genes (e.g. <i>MMP7</i>, <i>COL3A1</i>, <i>CXCL14</i>), which was validated on 4 test datasets with an AUC of 0.96. Similar models were developed for hypersensitivity pneumonitis (HP; 3 datasets; 99 genes) and systemic sclerosis-associated ILD (SSc-ILD; 2 datasets; 11 genes). <b>Conclusion:</b> We derived molecular signatures of 3 ILD subtypes, which may be used to improve diagnostic and therapeutic approaches.
64.3: A Single Panel LCOS Engine with a Rotating Drum and a Wide Color Gamut (2005)

Abstract A single panel LCoS projector with a wide color gamut and a rotating multi‐primary drum intended for RPTV HDTV systems was developed by Philips and Genoa Color Technologies prior to termination of all LCoS development. Design of the drum engine and design trade‐offs will be discussed. Measured colorimetry data from a preproduction system will be presented. This system was designed around a single 0.87″ diagonal 1280 × 720 pixel panel, which will also be described. While all work at Philips has ceased on LCoS engines and imagers, the system provides a promising approach for future multi‐primary wide color gamut systems.
Humans and mites: A love story (2016)

Genomics![Figure][1] 

Mites and humans have a long evolutionary history

PHOTO: ANDREW SYRED/SCIENCE SOURCE

Like it or not, skin mites can inhabit our skin. They live—mostly harmlessly—deep in our pores and sebaceous glands. To better understand their genetic diversity, Palopoli et al. took skin samples from 70 people living in the United States with a variety of ancestries. Genetic sequencing of their mitochondria allowed the scientists to calculate the rate of the mites' evolution. This revealed an evolutionary timeline for the mite variants and, therefore, of their human hosts. The results show that mites have been associates of humans since we evolved. Specifically, people of African descent have the greatest mite strain variance and those of European descent, the least, with a range of distinct geographically distributed variants in between.

Proc. Natl. Acad. Sci. U.S.A. 112 , 15958 (2015).

 [1]: pending:yes
The Natural History of Hepatic Metastases from Colorectal Cancer (1984)

Five-year survival after resection of hepatic metastases from colorectal cancer is 25%. Although resection palliates some patients who do not live that long, 50% of patients so treated are not helped at all. Until ignorance of a cancer's real stage is resolved by improved techniques, the evaluation and choice of therapy can be based only upon knowledge of the natural history of untreated metastases and determinants of prognosis derived from treated patients. Analysis of the survival rates of 252 patients who had biopsy proven, unresected hepatic metastases that were the only evidence of residual disease shows the extent to which natural history, rather than resection, may determine length of survival-- and indicates the need for critical analysis of 2- and 3-year survival rates reported after any therapy. Study of 141 patients who had hepatic metastases resected shows that the stage of the primary lesion, being female, and the absence of extrahepatic metastases are significant determinants of favorable prognosis after resection of hepatic metastases.
A RECURRENT NEURAL NETWORK USING TRI-STATE HIDDEN NEURONS TO ORTHOGONALIZE THE MEMORY SPACE (1989)

This paper describes a process for adding hidden neurons to a fully recurrent Hopfield neural network in such a way as to optimize the orthogonality of the memory space. The process uses the network itself, operating with a "reverse update rule" to assign optimal values to the hidden neurons for each memory. The outer product rule is used to modify synaptic strengths as each new memory is added. As in a standard Hopfield network this is a fast process because it is noniterative. Tri-state hidden neurons, initially set to zero, are used in the recovery of memories. Simulations indicate that the storage capacity of the network for uncorrelated memories, and the radius of attraction of each memory, are significantly better than those of the standard Hopfield network. The use of hidden neurons permits flexibility in the network capacity for memories of a given length. The network is able to solve second-order hetero-associative problems, as illustrated with solutions to the XOR set of associations.
Annealing Behavior of FeNi Alloy Processed by High-Pressure Torsion (2010)

An Fe-50at %Ni alloy was processed by high-pressure torsion (HPT) and annealed at lower homologous temperatures. Vickers microhardness and microstructural evolutions were examined with respect to the annealing time. Disks with 10 mm diameters having 0.85 mm thicknesses were subjected to HPT under a pressure of 6 GPa for 1-10 revolutions at a rotation speed of 1 rpm. The annealing after the HPT processing was conducted at homologous temperatures of ~0.3 for up to 40 days. The hardness increases with straining and saturates to a constant level of ~400 Hv at large equivalent strain. Microstructure analysis using XRD revealed that there was a peak corresponding to an α (Fe, Ni) phase.
Simultaneous mapping of compartment-specific T2 and T2* with Diffusion-PEPTIDE imaging (2023)

Inspired by recent developments in combined relaxometry-diffusion imaging and growing interests in T2* imaging, this study achieves simultaneous compartmental T2 and T2* mapping for the first time. We take advantage of the recently developed diffusion-PEPTIDE imaging technique, which allows for efficient acquisition of diffusion datasets with varying T2/T2* contrast. A relaxometry-diffusion combined microstructure model and a robust multi-stage fitting approach are developed to enable compartmental T2 and T2* mapping. This technique could be a new tool for future neuroimaging studies benefiting from quantification of T2-T2*-diffusion, such as studying iron content related development and pathology.
Empiric antimicrobial therapy for ventilator-associated pneumonia after brain injury (2016)

Issues regarding recommendations on empiric antimicrobial therapy for ventilator-associated pneumonia (VAP) have emerged in specific populations.To develop and validate a score to guide empiric therapy in brain-injured patients with VAP, we prospectively followed a cohort of 379 brain-injured patients in five intensive care units. The score was externally validated in an independent cohort of 252 brain-injured patients and its extrapolation was tested in 221 burn patients.The multivariate analysis for predicting resistance (incidence 16.4%) showed two independent factors: preceding antimicrobial therapy ≥48 h (p<0.001) and VAP onset ≥10 days (p<0.001); the area under the receiver operating characteristic curve (AUC) was 0.822 (95% CI 0.770-0.883) in the learning cohort and 0.805 (95% CI 0.732-0.877) in the validation cohort. The score built from the factors selected in multivariate analysis predicted resistance with a sensitivity of 83%, a specificity of 71%, a positive predictive value of 37% and a negative predictive value of 96% in the validation cohort. The AUC of the multivariate analysis was poor in burn patients (0.671, 95% CI 0.596-0.751).Limited-spectrum empirical antimicrobial therapy has low risk of failure in brain-injured patients presenting with VAP before day 10 and when prior antimicrobial therapy lasts <48 h.
Inspired CO2and O2in sleeping infants rebreathing from bedding: relevance for sudden infant death syndrome (2001)

Some infants sleep facedown for long periods with no ill effects, whereas others become hypoxemic. Rebreathing of expired air has been determined by CO(2) measurement; however, O(2) levels under such conditions have not been determined. To evaluate this and other factors influencing inspired gas concentrations, we studied 21 healthy infants during natural sleep while facedown on soft bedding. We measured gas exchange with the environment and bedding, ventilatory response to rebreathing, and concentrations of inspired CO(2) and O(2). Two important factors influencing inspired gas concentrations were 1) a variable seal between bedding and infants' faces and 2) gas gradients in the bedding beneath the infants, with O(2)-poor and CO(2)-rich air nearest to the face, fresher air distal to the face, and larger tidal volumes being associated with fresher inspired air. Minute ventilation increased significantly while rebreathing because of an increase in tidal volume, not frequency. The measured drop in inspired O(2) was significantly greater than the accompanying rise in inspired CO(2). This appears to be due to effects of the respiratory exchange ratio and differential tissue solubilities of CO(2) and O(2) during unsteady conditions.
Characterization of arsenide/phosphide heterostructure interfaces grown by gas-source molecular beam epitaxy (1995)

We have used cross-sectional scanning tunneling microscopy to study interface structure in arsenide/phosphide heterostructures grown by gas-source molecular beam epitaxy. High-resolution images of a sample grown at 550 °C by interrupting the growth of GaAs at 200 Å intervals with a 40 s P2 flux reveal phosphide interlayers of widths as large as 30 Å with lateral variations in structure over &amp;lt;100 Å length scales. Images of a similar sample grown at 450 °C exhibit narrower interlayers and a lower level of phosphorus incorporation. These samples have also been characterized by high-resolution x-ray diffraction and reflection high-energy electron diffraction. Together, these studies provide direct information about nanometer-scale grading and lateral nonuniformity of interfaces that can occur under these growth conditions.
Multidimensional Stationary Time Series: Dimension Reduction and Prediction (2021)

"This book gives a brief survey of the theory of multidimensional (multivariate), weakly stationary time series, with emphasis on dimension reduction and prediction. Understanding the covered material requires a certain mathematical maturity, a degree of knowledge in probability theory, linear algebra, and also in real, complex and functional analysis. For this, the cited literature and the Appendix contain all necessary material. The main tools of the book include harmonic analysis, some abstract algebra, and state space methods: linear time-invariant filters, factorization of rational spectral densities, and methods that reduce the rank of the spectral density matrix"--
An optimized international vehicle monitor (1997)

The security plans for many DOE facilities require the monitoring of pedestrians and vehicles to control the movement of special nuclear material (SNM). Vehicle monitors often provide the outer-most barrier against the theft of SNM. Automatic monitors determine the presence of SNM by comparing the gamma-ray and neutron intensity while occupied, to the continuously updated background radiation level which is measured while the unit is unoccupied. The most important factors in choosing automatic vehicle monitors are sensitivity, cost and in high traffic applications total monitoring time. The two types of automatic vehicle monitors presently in use are the vehicle monitoring station and the drive-through vehicle monitor. These two types have dramatically different cost and sensitivities. The vehicle monitoring station has a worst-case detection sensitivity of 40 g of highly enriched uranium, HEU, and a cost approximately $180k. This type of monitor is very difficult to install and can only be used in low traffic flow locations. The drive-through vehicle portal has a worst-case detection sensitivity of 1 kg of HEU and a cost approximately $20k. The world`s political situation has created a pressing need to prevent the diversion of SNM from FSU nuclear facilities and across international borders. Drive-through vehicle monitors would be an effective and practical nuclear material proliferation deterrent if their sensitivity can be improved to a sufficient level. The goal of this project is to evaluate different detector configurations as a means of improving the sensitivity of these instruments to achieve a vehicle monitor that is economical, practical to install, and has adequate sensitivity to be an effective barrier to illegal transportation of SNM.
Exciton Relaxation in Highly Rigid Conjugated Polymers: Correlating Radiative Dynamics with Structural Heterogeneity and Wavefunction Delocalization (2017)

Conjugated polymers are promising materials for solar cells and other electronic applications due to facile charge and electronic energy migration along the conjugated backbone. Torsional defects due to rotation around single bonds on the backbone are known to decrease the effective conjugation length of these materials, limiting their ability to shuttle charge and electronic energy. We investigated the radiative emission dynamics of a recently synthesized rigid conjugated ladder polymer (LP1) and nonrigid control (CP1) with a similar carbazole backbone moiety. LP1 was prepared using a recently reported synthesis under thermodynamic control, leading to a low backbone defect density. We find that the singlet emission lifetime of LP1 is longer than that of any previously reported ladder conjugated polymer, which we attribute to its low defect density. Further, the emission contains a large-amplitude long component with a lifetime that lasts as long as 5 ns. Our results imply that careful control of defects at the synthesis level can lead to processable polymers with large electronic wavefunction delocalization and correspondingly long fluorescence lifetimes. This indicates an avenue to further tune the rapid solid-state energy transport rate along the polymer backbone.
A highly efficient SiGe differential power amplifier using an envelope-tracking technique for 3GPP LTE applications (2010)

This paper presents a highly-efficient polar transmitter (TX) system that adopts the envelope-tacking (ET) technique with a differential SiGe power amplifier (PA) for 3GPP Long Term Evolution (LTE) applications. The differential PA was designed using a cascode topology, reaching power-added efficiency (PAE) of 50% at output power of 22dBm in continuous wave (CW) mode. The experimental data also shows that the proposed ET-based polar TX system with the cascode PA delivers 21dBm average output power with 33.6% PAE at 1.42 GHz, while also meeting the LTE 16QAM linearity specs for both error vector magnitude (EVM) and TX emission mask without the need of PA predistortion.
Recent Developments in Ionosphere-Thermosphere Modeling with an Emphasis on Solar Variability (2004)

Abstract The Utah State University modeling developments have led to new results in several areas of ionospheric research. This review will present the most recent of these results and their synergisms with both ground-based and satellite-based observations. Particular attention is given to new results associated with solar variability, a central theme to the TIGER program. The effect on the ionosphere of differences in solar X-EUV spectra will be demonstrated by studies using the time-dependent ionospheric model, while their effect on the coupled thermosphere–ionosphere system will be shown using a new model, the global average ionosphere thermosphere model. How the dayside solar-produced plasma contributes to sub auroral polarization streams, storm enhanced densities, tongues of ionization, plasma patches, polar wind jets, and polar cap scintillations, will be described via recent modeling results from a variety of coupled or driven thermosphere, ionosphere, and magnetosphere models. The review will indicate the need for improved solar output specification, whether via observations or models. These improvements need to be over the flare through solar cycle time scale, with particular attention to the short wavelength end of the spectrum.
Melatonin’s stimulatory effect on adult hippocampal neurogenesis in mice persists after ovariectomy (2011)

In this study, we examined whether melatonin treatment would increase new cell formation in the hippocampus in ovariectomized (OVX) mice. Chronic exogenous melatonin administration increased bromodeoxyuridine (BrdU) (OVX-sham 72 ± 3.2 versus OVX-mel 122 ± 12.0; P < 0.05) and doublecortin (DCX) (OVX-sham 88 ± 3.1 versus OVX-mel 176 ± 9.9; P < 0.05) immunoreactive cells in the hippocampus of ovariectomized mice. This neuronal development was correlated with synaptic plasticity, identified using the Golgi impregnation method to quantify dendritic spines in mouse dentate gyrus (DG). Finally, the antidepressant-like state of the animals was evaluated by the tail suspension test. The results indicate that melatonin acts on birth, survival, and differentiation of new neurons in the hippocampus, stimulates maturation of spines, and exerts an antidepressant-like action under estrogen-deprived conditions, in both a strain- and gender-independent manner, suggesting that this indoleamine may be useful in improving brain functions.
Long‐term outcome after radiotherapy alone for lymphocyte‐predominant Hodgkin lymphoma (2005)

The current data suggested that RT potentially may be curative for patients with Stage I-II LPHL and raise the possibility that limited-field RT may be used without loss of treatment efficacy. Involved-field RT warrants further investigation for patients with early-stage LPHL.
The Accumulation of Oleosins Determines the Size of Seed Oilbodies in Arabidopsis (2006)

We investigated the role of the oilbody proteins in developing and germinating Arabidopsis thaliana seeds. Seed oilbodies are simple organelles comprising a matrix of triacylglycerol surrounded by a phospholipid monolayer embedded and covered with unique proteins called oleosins. Indirect observations have suggested that oleosins maintain oilbodies as small single units preventing their coalescence during seed desiccation. To understand the role of oleosins during seed development or germination, we created lines of Arabidopsis in which a major oleosin is ablated or severely attenuated. This was achieved using RNA interference techniques and through the use of a T-DNA insertional event, which appears to interrupt the major (18 kD) seed oleosin gene of Arabidopsis and results in ablation of expression. Oleosin suppression resulted in an aberrant phenotype of embryo cells that contain unusually large oilbodies that are not normally observed in seeds. Changes in the size of oilbodies caused disruption of storage organelles, altering accumulation of lipids and proteins and causing delay in germination. The aberrant phenotypes were reversed by reintroducing a recombinant oleosin. Based on this direct evidence, we have shown that oleosins are important proteins in seed tissue for controlling oilbody structure and lipid accumulation.
Generalized sampling expansion (1977)

It is shown that a band-limited function <tex xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">f(t)</tex> is uniquely determined in terms of the samples <tex xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">g_k(nT)</tex> of the responses <tex xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">g_k(t)</tex> of <tex xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">m</tex> linear systems with input <tex xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">f(t)</tex> , sampled at <tex xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">1/m</tex> the Nyquist rate. Various known extensions of the sampling theorem follow as special cases of the resulting generalized sampling expansion of <tex xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">f(t)</tex> .
Aviate, Navigate: Functional Visualizations of Asymmetric Flight Envelope Limits (2017)

Current aircraft flight deck interfaces do not provide information on how a performance-altering failure constrains the aircraft's flight envelope. As a result, it is difficult for flight crews to plan an emergency landing trajectory. This study presents the results of the conceptual development of novel constraint-based interface symbology that aims to solve this issue. As no fully functional on-line flight envelope prediction system implementations currently exist, a simplified dynamical model with an asymmetric flight envelope was developed to overcome this limitation. The proposed interface symbology integrates with the existing primary flight display and navigation display. A human-in-the-loop experiment was conducted to validate the effectiveness of the used symbology. The results lend credibility to the belief that presenting flight envelope constraints in terms of reachable navigation states may improve short-term tactical planning and reduce the pilot's mental workload during emergency situations.
NF-Y Is Associated with the Histone Acetyltransferases GCN5 and P/CAF (1998)

The ubiquitous transcription factor, NF-Y, plays a pivotal role in the cell cycle regulation of the mammalian cyclin A, cdc25C, and cdc2 genes, in the S-phase activation of the ribonucleotide reductase R2 gene, in addition to its critical role as a key proximal promoter factor in the transcriptional regulation of the albumin, collagen, lipoprotein lipase, major histocompatibility complex class II, and a variety of other eukaryotic and viral genes. In this report, the NF-Y complex has been shown to possess histone acetyltransferase activity through physical association with the related histone acetyltransferase enzymes, human GCN5 and P/CAF in vivo. The assembled NF-YA:B:C complex, and the NF-YB:YC, NF-YB:YC (DNA binding-subunit interaction domain), and NF-YC:YB (DNA binding-subunit interaction domain) heterodimers were sufficient to support stable interaction with human GCN5 in vitro, suggesting that these histone acetyltransferases interact with a unique surface in the ancient YB:YC histone-fold motif. Deletion of either N- or C-terminal regions in human GCN5 disrupted interaction with NF-Y in vitro. In addition, human GCN5 was observed to activate NF-Y in transient transfections in vivo using a natural alpha 2(I) collagen promoter. These results suggest that these associated histone acetyltransferases may serve to modulate NF-Y transactivation potential by aiding disruption of local chromatin structure thereby facilitating NF-Y access to its CCAAT box DNA binding sites.
Distribuzione e appropriatezza dei ricoveri ed utilizzo di risorse<BR>nelle unità di terapia intensiva cardiologica italiane. Lo studio BLITZ-3 (2011)

The results of the BLITZ-3 study should lead the Italian cardiological community to reflect upon the needed number of ICCUs, the role of Spoke centers for their integration in the interhospital network, and inappropriate hospital admissions for low-risk conditions.