gebhart/patrepeval huggingface dataset:
Mantle Cell Lymphoma: Outcomes after Hematopoietic Stem Cell Transplantation (2015)

Mantle cell lymphoma (MCL) is a B-cell Non-Hodgkin's lymphoma (NHL) comprising 7% of adult NHL in the US with an incidence of 4-8 cases per million persons per year. Initial therapy of MCL includes a regimen with R-CHOP or Hyper-CVAD. The best data for long term survival includes cytarabine based therapy followed by autologous hematopoietic stem cell transplantation (HSCT). In the refractory/relapsed setting, allogeneic HSCT has been used successfully. Barriers to allogeneic HSCT include lack of donors and potential toxicities. Haploidentical donors broaden the donor pool. To our knowledge, there is no published data on outcomes with haploidentical HSCT in MCL. A retrospective chart review examining outcomes in patients with MCL who underwent either autologous or allogeneic peripheral blood HSCT at Thomas Jefferson University Hospital from January 2007 to January 2013. A total of 12 patients with MCL underwent HSCT between 2007 to 2012. Nine of 12 patients were males. Median age at transplant was 58 years (range 38 - 72). Median time from diagnosis to HSCT was 9.5 months. Five of 12 patients (4 haploidentical & 1 matched unrelated donor) underwent allogeneic HSCT and 7of 12 patients underwent autologous HSCT. In the allogeneic HSCT group, median number of prior therapies was 2. One of 5 patients had residual disease prior to HSCT. Two of 5 patients had a myeloablative regimen; 3 had reduced intensity regimen. There were no relapses or deaths in the allogeneic HSCT group. Median progression free survival (PFS) as well as median overall survival (OS) in this group was 35 months. Major complications in allogeneic HSCT were acute skin GVHD (3/5), CMV reactivation(1/5), HHV6 viremia(1/5), and acute renal failure (1/5) requiring short term dialysis. In the autologous HSCT group, the median number of prior therapies was 1. Two of 7 patients had refractory disease prior to autologous HSCT. Post autologous HSCT 2/7 patients relapsed and 2/7 died. Major complications in this group were DVT (2/7), enterocolitis (2/7), and CHF (1/7). Median PFS and OS were 40 and 47 months respectively. Our patients who underwent autologous HSCT were transplanted earlier (08/2007 - 09/2010) than our patients who underwent allogeneic HSCT (01/2008 - 02/2012), leading to the difference in survival times. Haploidentical HSCT offers a promising curative treatment for patients with MCL with expected and manageable toxicities. Although a small number of patients, this review of our data provides the background for further study of the use of haploidentical HSCT in this group of patients.
Four-foci slanted axis Fresnel lens for planar optical perfect shuffle (1993)

Planar optical technology offers a promising compact and robust approach for performing complex optical interconnects for silicon VLSI and WSI circuits.
Early computational detection of potential high-risk SARS-CoV-2 variants (2023)

The ongoing COVID-19 pandemic is leading to the discovery of hundreds of novel SARS-CoV-2 variants daily. While most variants do not impact the course of the pandemic, some variants pose an increased risk when the acquired mutations allow better evasion of antibody neutralisation or increased transmissibility. Early detection of such high-risk variants (HRVs) is paramount for the proper management of the pandemic. However, experimental assays to determine immune evasion and transmissibility characteristics of new variants are resource-intensive and time-consuming, potentially leading to delays in appropriate responses by decision makers. Presented herein is a novel in silico approach combining spike (S) protein structure modelling and large protein transformer language models on S protein sequences to accurately rank SARS-CoV-2 variants for immune escape and fitness potential. Both metrics were experimentally validated using in vitro pseudovirus-based neutralisation test and binding assays and were subsequently combined to explore the changing landscape of the pandemic and to create an automated Early Warning System (EWS) capable of evaluating new variants in minutes and risk-monitoring variant lineages in near real-time. The system accurately pinpoints the putatively dangerous variants by selecting on average less than 0.3% of the novel variants each week. The EWS flagged all 16 variants designated by the World Health Organization (WHO) as variants of interest (VOIs) if applicable or variants of concern (VOCs) otherwise with an average lead time of more than one and a half months ahead of their designation as such.
Visual quality assessment of the liver graft by the transplanting surgeon predicts postreperfusion syndrome after liver transplantation: a retrospective cohort study (2018)

Patients receiving ECD liver grafts are especially prone to PRS. Anesthesiologists should keep these newly described risk factors in mind when preparing for reperfusion in patients receiving high-risk organs.
Supplementary Table 2 from Brain Tumor Cells in Circulation Are Enriched for Mesenchymal Gene Expression (2023)

&lt;p&gt;Tumor genotypes and CTC frequency&lt;/p&gt;
Decoration of Carbon Nanohorns with Palladium and Platinum Nanoparticles (2009)

Carbon nanohorns (CNHs) have been decorated with palladium and platinum nanoparticles, which are prepared in-situ, with the aid of sodium dodecyl sulphate (SDS), by the self-regulated reduction of palladium acetate and chloroplatinic acid, respectively. The latter acts as a reducing agent for the metal ions, while at the same time, aids the solubilisation of CNHs. The soluble in polar media nanoPd-CNH and nanoPt-CNH hybrid materials have been characterised and morphologically evaluated by complementary microscopy, thermal and analytical techniques such as transmission electron microscopy, energy dispersive X-ray spectroscopy, dynamic light scattering, thermogravimetric analysis, UV-VIS-NIR and Raman spectroscopy. Finally, the nanoPd-CNH and nanoPt-CNH hybrid materials have been tested in catalysis toward the formation of carbon-carbon bond in Heck, Suzuki and Stille reactions.
Molecular quantification of tissue disease burden is a new biomarker and independent predictor of survival in mastocytosis (2019)

A high allele burden of the <i>KIT</i> D816V mutation in peripheral blood or bone marrow aspirates indicates multi-lineage hematopoietic involvement and has been associated with an aggressive clinical course of systemic mastocytosis. Since mast cells are substantially underrepresented in these liquid specimens, their mutation burden likely underestimates the tumor burden of the disease. We used a novel previously validated digital polymerase chain reaction (PCR) method for <i>KIT</i> D816V analysis to systematically analyze the mutation burden in formalin-fixed, paraffin-embedded bone marrow tissue sections of 116 mastocytosis patients (91 with indolent and 25 with advanced systemic mastocytosis), and to evaluate for the first time the clinical value of the tissue mutation burden as a novel biomarker. The <i>KIT</i> D816V mutation burden in the tissue was significantly higher and correlated better with bone marrow mast cell infiltration (r=0.68 <i>vs</i> 0.48) and serum tryptase levels (r=0.68 <i>vs</i> 0.58) compared to that in liquid specimens. Furthermore, the <i>KIT</i> D816V tissue mutation burden was: (i) significantly higher in advanced than in indolent systemic mastocytosis (<i>P</i>=0.001); (ii) predicted survival of patients in multivariate analyses independently; and (iii) was significantly reduced after response to cytoreductive therapy. Finally, digital PCR was more sensitive in detecting <i>KIT</i> D816V in bone marrow sections of indolent systemic mastocytosis patients than melting curve analysis after peptide nucleic acid-mediated PCR clamping (97% <i>vs</i> 89%; <i>P</i><0.05). In summary, digital PCR-based measurement of <i>KIT</i> D816V mutation burden in the tissue represents a novel biomarker with independent prognostic significance that can also be employed for monitoring disease progression and treatment response in systemic mastocytosis.
Energy Storage in a Fluidized Bed (1989)

An experimental study was performed to investigate the possible use of a compound that undergoes solid-to-solid phase transformation for energy storage in a fluidized bed configuration, and to determine the heat transfer characteristics of this system. It was shown that the heat transfer coefficients from a surface immersed in the fluidized bed are a function of the bed temperature and of the temperature of the immersed surface. The heat transfer process is enhanced by the phase transformation by as much as a factor of four relative to the heat transfer in the same material without phase transformation. The experimental results suggest the possible existence of a thermal resistance between the surface immersed in the fluidized bed and the particles, which is responsible for the particular experimentally observed thermal behavior.
Sorption of trace organics and engineered nanomaterials onto wetland plant material (2012)

Wastewater treatment plant (WWTP) effluents are sources for emerging pollutants, including organic compounds and engineered nanomaterials (ENMs), which then flow into aquatic systems. In this article, natural attenuation of pollutants by constructed wetland plants was investigated using lab-scale microcosm and batch sorption studies. The microcosms were operated at varying hydraulic residence times (HRTs) and contained decaying plant materials. Representative organic compounds and ENMs were simultaneously spiked into the microcosm influent, along with a conservative tracer (bromide), and then monitored in the effluent over time. It was observed that a more hydrophobic compound-natural estrogen achieved better removal than a polar organic compound – para-chlorobenzoic acid (pCBA), which mimics the behaviour of the tracer. Batch sorption experiments showed that estrogen has higher sorption affinity than pCBA, highlighting the importance of sorption to the plant materials as a removal process for the organic contaminants in the microcosms. Wetland plants were also found a potential sorbent for ENMs. Two different ENMs (nano-silver and aqueous fullerenes) were included in this study, both of which experienced comparable removal in the microcosms. Relative to the tracer, the highest removal of ENMs and trace organics was 60% and 70%, respectively. A more than two-fold increase in HRT increased the removal efficiency of the contaminants in the range of 20–60%. The outcome of this study supports that plant materials of wetlands can play an important role in removing emerging pollutants from WWTP effluent.
Synchrotron x-ray diffraction studies of the lattice and magnetic structure of epitaxial Dy films in LaF3/Dy/LaF3 sandwiches (1991)

Lattice and magnetic x-ray diffraction from a 2000 Å thick film of Dy, sandwiched by LaF3 films on a GaAs(111) substrate, are reported. The structure was grown by molecular beam epitaxy with the c axis of the Dy parallel to the LaF3 c axis and GaAs [111] axis. We find that the c-axis lattice constant of the Dy has a similar temperature dependence to bulk Dy from room temperature to about 110 K, but below this, the film is different from bulk. The transition to ferromagnetic ordering at ∼86 K exhibits temperature hysteresis which is also evident in the magnetic x-ray scattering and SQUID magnetometry data. This hysteresis may arise from a combination of the strain-energy barrier accompanying the transition and magnetic inhomogeneities in the film. The temperature dependence of the magnetic wave vector is qualitatively similar to bulk, although a weaker dependence is observed below ∼110 K, which is possibly caused by magnetoelastic effects. The magnetic coherence length (310 Å) is significantly shorter than the structural coherence length (730 Å).
In-Flight Acoustic Emission Research (1981)

The detection of crack growth in aircraft structures through the use of acoustic emission techniques has been demonstrated to be feasible in recent years. Numerous problems still remain to be overcome, but a new DARPA program will address the most critical areas and build a flyable acoustic emission monitor demonstrating the new technology. A history of the field and a program overview are given.
Impact of the TCR Signal on Regulatory T Cell Homeostasis, Function, and Trafficking (2009)

Signaling through the T cell antigen receptor (TCR) is important for the homeostasis of naïve and memory CD4(+) T cells. The significance of TCR signaling in regulatory T (Treg) cells has not been systematically addressed. Using an Ox40-cre allele that is prominently expressed in Treg cells, and a conditional null allele of the gene encoding p56(Lck), we have examined the importance of TCR signaling in Treg cells. Inactivation of p56(Lck) resulted in abnormal Treg homeostasis characterized by impaired turnover, preferential redistribution to the lymph nodes, loss of suppressive function, and striking changes in gene expression. Abnormal Treg cell homeostasis and function did not reflect the involvement of p56(Lck) in CD4 function because these effects were not observed when CD4 expression was inactivated by Ox40-cre.The results make clear multiple aspects of Treg cell homeostasis and phenotype that are dependent on a sustained capacity to signal through the TCR.
Expression of major histocompatibility complex class I antigens in the demyelinating twitcher CNS and PNS (1997)

The expression of the major histocompatibility complex Class I antigens (Class I) was investigated in the nervous system of twitcher (C57BL/6J-twi), a murine model of Krabbe disease in humans. Class I mRNA expression was low in wild type and in twitcher mice prior to the onset of demyelination. However, immunoreactivity for Class I antigens was demonstrated in the spindle-shaped cells in the sciatic nerve and in ramified microglia, endothelial cells and Bergmann glia. In twitcher, transcription of Class I mRNA increased significantly with the progression of demyelination and Mac-1+ macrophages/microglia express Class I immunoreactivity. Class I immunoreactivity was also found in CD3+ T-cells that were scattered in demyelinating lesions. CD8+ or CD4+ cells were also found in the demyelinating area. The results of this study indicate that immunoreactivity to Class I antigens is detected in certain cells even in the wild-type mice and that Class I expression is enhanced in the twitcher nervous system paralleling the progression of demyelination. Expression of MHC molecules in non-immunological demyelinating disease such as twitcher may suggest a role of Class I molecules in the progression of demyelination. Alternatively, the expression may be a non-specific cellular response to the breakdown of myelin.
Decision Threshold Control Method for the Optical Receiver of a WDM-PON (2010)

We demonstrate an improvement of optical receiver performance for an optical signal with beat noises. The decision threshold level is adjusted automatically according to the detected average optical power. This simple method improves optical receiver performance under a wide range of input signal conditions, e.g., beat noise level and extinction ratio. Thus this proposed method is useful to optical receivers for WDM-PONs. By employing this control circuit, we successfully demonstrate a WDM-PON based on a wavelength-locked Fabry–Perot laser diode at 1.25 Gb/s per channel with 100 GHz spacing.
Robust control of discretized continuous systems using the theory of sliding modes (1995)

The idea of sliding mode control (SMC) as a robust control technique is utilized to control systems where the dynamics can be described by [xdot](t) = (A + ΔA)x(t) + (B + ΔB)u(t) + d(t) where ΔA, ΔB and d(t) characterize unknown plant parameters and unexpected disturbances, respectively. The analysis is described in the discrete form using the Euler operator. The proposed controller regards the influence of unknown disturbances and parameter uncertainties as an equivalent disturbance and generates a control function (estimate) to cancel their influence by the mechanism of time delay, The states of the uncertain plant are steered from an arbitrary initial state to a stable surface, s = 0, and the plant output is subsequently regulated. One feature of the control is that the sliding conditions are satisfied without the discontinuous control action used in classical SMC. It therefore retains the positive features of SMC without the disadvantage of control chattering. The controller has been studied through simulations and experiment on an NSK direct drive robot arm driven by a DC motor. The results confirm that the control is robust to disturbances and parameter variations.
Spectrum Sharing Solution for Automotive Radar (2017)

Automated driving has become increasingly viable through the deployment of a number of sensing technologies on vehicles. These intelligent transportation systems (ITS) employ sensors such as radar, camera and lidars for collision avoidance and vehicle-to-everything (V2X) communication links for active environment sensing. Since the available spectrum for vehicular systems is limited, spectrum sharing in ITS sensors is a subject of active investigation. This paper presents a spectrum sharing technology that enables interference-free operation of an automotive radar and a V2X communication system within a common spectrum. Both systems dynamically share information with each other and optimize their spectral resources to the changing RF environment. The V2X system is a cognitive radio that is capable of blind sensing its spectrum using very low sampling and processing rates. The radar system is also modeled as a cognitive system that employs a Xampling-based sub-Nyquist receiver and transmits in several narrow bands that occupy a fraction of the conventional radar bandwidth. We present a hardware realization of this vehicular spectrum sharing technology and demonstrate spectral coexistence through real-time experiments.
358 Daridorexant Improves Sleep in Patients with Mild/Moderate Obstructive Sleep Apnea (2021)

Abstract Introduction Daridorexant is a dual orexin receptor antagonist developed for the treatment of insomnia. The effect of the highest phase-3 dose of 50 mg daridorexant on nighttime respiratory function was evaluated in patients with mild/moderate obstructive sleep apnea (OSA). This study showed that repeated doses of daridorexant had no clinically meaningful effect on the apnea-hypopnea index (AHI) or on peripheral oxygen saturation. In the same study, the effect on objective sleep parameters was also explored by polysomnography (PSG). Methods In this randomized, double-blind, placebo-controlled, two-period, crossover study, daridorexant or placebo was administered in each period once daily for 5 consecutive nights to 28 patients. Treatment difference (daridorexant – placebo) for total sleep time (TST), latency to persistent sleep (LPS), and wake after sleep onset (WASO) was analyzed for Night 5 using linear mixed-effects modeling. In addition, sleep was further explored based on sleep duration during each hour of PSG recording, duration of the different sleep phases (rapid eye movement [REM], non-REM [including N1 to N3 sleep stages]), as well as number and mean/longest duration of awakenings. Results Of 28 patients enrolled, 25 completed the study and were included in the analysis (n=15/10 with mild/moderate OSA; mean [standard deviation] AHI: 16.3 [8.2] events/h). One patient had mild insomnia symptoms at baseline. Compared to placebo, daridorexant prolonged mean TST by 38.8 min (90% confidence interval: 19.7–57.9), shortened mean LPS by 17.2 min (-35.5–1.02), and reduced mean WASO by 31.0 min (-47.3 to 14.7). Sleep architecture was maintained as no treatment differences in the duration of the evaluated sleep stages were observed when normalized to TST. Sleep duration was prolonged in the second part of the night. mean and longest duration of awakenings were decreased by a mean (90% CI) of 2.0 min (-3.1 to 0.9) and 16.3 min (-24.1 to -8.6), respectively, without treatment difference for the total number of awakenings. Conclusion Daridorexant improved objective sleep parameters in patients with mild to moderate OSA without modifying sleep architecture. Support (if any) Funded by Idorsia Pharmaceuticals Ltd.
Supplementary Figure 2 from Network Analysis Identifies an HSP90-Central Hub Susceptible in Ovarian Cancer (2023)

&lt;p&gt;PDF file - 139KB, Network showing direct physical interactions between HSP90 and 53 of the 171 highly sensitizing proteins.&lt;/p&gt;
Solvent-reagent effect in chemical detection of energetic materials type contaminants (2009)

Present study extended the list of solvent and reagents appropriate to use for the colorimetric detection and semi quantitative analysis of various energetic compounds. The new reagents used in this study include DMSO as solvent/reagent, and tetramethylammonium hydroxide and tetrabutylammonium hydroxide for the generation of a basic medium. The advantages of these reagents vs. older procedures are discussed in this paper. Also, a standardized procedure for the analysis of several classes of energetic compounds has been developed, allowing an excellent practical application of the recommended method. The influence of different solvents on the changes in the UV/VIS spectra were evaluated and an attempt to interpret the resulting absorption UV spectra based on quantum-chemical calculations has been done.
High Spectral Efficiency Transmission with Probabilistic Shaping (2017)

We discuss the concept of probabilistic shaping (PS) of constellations, and show that PS allows for flexibly tunable spectral efficiencies at improved transmission performance. We review the application of PS in long-haul laboratory and submarine field experiments.
AN ELECTRIC FIELD SCREEN CAN CREATE PEST-FREE SPACE WITH BETTER AIR PENETRATION IN OPEN-WINDOW GREENHOUSES (2012)

ISHS International Symposium on Advanced Technologies and Management Towards Sustainable Greenhouse Ecosystems: Greensys2011 AN ELECTRIC FIELD SCREEN CAN CREATE PEST-FREE SPACE WITH BETTER AIR PENETRATION IN OPEN-WINDOW GREENHOUSES
Development of Head-Mounted Projection Displays for Distributed, Collaborative, Augmented Reality Applications (2019)

Distributed systems technologies supporting 3D visualization and social collaboration will be increasing in frequency and type over time. An emerging type of head-mounted display referred to as the head-mounted projection display (HMPD) was recently developed that only requires ultralight optics (i.e., less than 8 g per eye) that enables immersive multiuser, mobile augmented reality 3D visualization, as well as remote 3D collaborations. In this paper a review of the development of lightweight HMPD technology is provided, together with insight into what makes this technology timely and so unique. Two novel emerging HMPD-based technologies are then described: a teleportal HMPD(T-HMPD) enabling face-to-face communication and visualization of shared 3D virtual objects, and a mobile HMPD (M-HMPD) designed for outdoor wearable visualization and communication. Finally, the use of HMPD in medical visualization and training, as well as in infospaces, two applications developed in the ODA and MIND labs respectively, are discussed.