gebhart/patrepeval huggingface dataset:
Association Between Endothelial Dysfunction and Left Ventricular Diastolic Stiffness　― Subanalysis of the Flow-Mediated Dilation Japan (FMD-J) Study ― (2023)

RHI, rather than FMD, was associated with DWS. Endothelial dysfunction in the microvasculature may be associated with increased LV diastolic stiffness.
Fetal liver cell transplantation in various murine models. (1992)

Allogeneic fetal liver cell transplantation has been shown to be able to reconstitute lymphopoietic systems of mice when these systems are defective or destroyed. Lethally irradiated mice or mice with inherited severe combined immunodeficiency disease (SCID) were grafted with 14 days gestation allogeneic fetal liver cells, then subjected to a follow-up for the immune tolerance to the donor and the normal or subnormal immune reconstitution allowing prevention of diabetes in NOD mice or cure of leukemia in AKR mice and of immunodeficiency in SCID mice. Briefly, when normal CBA mice were lethally irradiated and then grafted with allogeneic fetal liver cells from Balb/c mice, a specific immune tolerance was induced to donor skin grafts. Unrelated skin grafts were rejected and a response to antigens was observed in these chimeras. However, despite the capacity to develop hyperacute rejection of skin allografts, following hyperimmunization, these chimeric mice did not produce anti-H2 cytotoxic antibodies. In SCID mice (CB17), the immune reconstitution occurred when mice were grafted with allogeneic (C57/B16) as well as with syngeneic fetal liver cells. Human cells were found in SCID mice following implantation of human fetal liver and thymus cells. When NOD mice were irradiated, then grafted with allogeneic fetal liver cells, a large part of donor cells were found in NOD recipients, correlating with a low incidence of diabetes. Leukemic AKR mice grafted with allogeneic fetal liver cells had virtually no leukemia relapse, suggesting a strong graft-versus-leukemia effect following such a transplant.
Heuristic filtering of sequencing variants with the R-package "Mendelian" (2015)

The identification of disease causing variants in the list of all variants called in sequencing data, is often achieved by the sequential use of various heuristic filters with several underlying assumptions. We describe the R package “Mendelian” that offers fast and convenient filters to analyze putative variants under both recessive and dominant models of inheritance, with variable degrees of penetrance and detectance. Analysis of pedigrees, including trios, is supported. Filtering against variant databases and annotation of variants is also included. Finally, this package is not species specific and supports parallel computation.
The fate of xylem-transported CO2 in plants (2018)

The concentration of carbon dioxide in tree stems can be ~30-750 times higher than current atmospheric [CO2]. Dissolved inorganic carbon enters the xylem from root and stem respiration and travels with water through the plant. However, the fate of much of this xylem-transported CO2 is unknown. In these studies I examined the fate of xylem-transported CO2 traveling through the petiole and leaf. This was accomplished by placing cut leaves from a woody and herbaceous C3 species, and a Kranz-type C4 species, in a solution of dissolved NaH13CO3 at concentrations similar to those measured in nature. This allowed me to track the efflux of 13CO2 using tunable diode laser absorption spectroscopy and compare this with 12CO2 fluxes derived from plant metabolism. The objective of the first study was to measure the efflux of xylem-transported CO2 out of the woody species Populus deltoides and the herbaceous C3 species Brassica napus in the dark by testing the relationship among the concertation of bicarbonate in the xylem, the rate of transpiration, and the rate of gross CO2 efflux. I found when the concentration of CO2 in the xylem is high and when the rate of transpiration is also high, the magnitude of 13CO2 efflux can approach half of the rate of respiration in the dark. The second study extends measurements of the fate of xylem-transported CO2 into lighted conditions where photosynthesis is active. I measured 12CO2 and 13CO2 fluxes across light- and CO2-response curves with the objectives of: 1) determining how much and under what conditions xylem-transported CO2 exited cut leaves in the light, and 2) determining how much xylem-transported CO2 was used for photosynthesis and when the overall contribution to photosynthesis was most important. I found that in the light the contribution of xylem-transported CO2 is most important when intercellular [CO2] is low which occurs under high irradiance and low [CO2]. The last study focused on the efflux and use of xylem-transported CO2 in the Kranz-type C4 species, Amaranthus hypochondriacus. Species with Kranz anatomy have highly active photosynthetic cells surrounding the vascular bundle, which is where xylem-transported CO2 would first interact with photosynthetic cells. The objectives of this study were to determine: 1) the rate and total efflux of xylem-transported CO2 exiting a cut leaf of the Kranz-type C4 species, A. hypochondriacus, in the dark and 2) the rate and contribution of xylem-transported CO2 to total assimilation in the light for A. hypochondriacus. Rates of dark efflux of xylem-transported CO2 out of A. hypochondriacus leaves were lower in the dark compared to rates observed in B. napus across the same rates of transpiration and bicarbonate concentrations. In the light a higher portion of xylem-transported CO2 was used for photosynthesis in A. hypochondriacus compared to B. napus suggesting that Kranz anatomy influences how C4 plants use xylem-transported CO2 for photosynthesis.
Fiber optical sensor network embedded in a current collector for defect monitoring on railway catenary (2007)

In order to identify defects of the electrical infrastructure during train operation, a fiber Bragg grating based sensor system performs measurements of the distribution of short time force changes in vertical and horizontal (driving) direction between current collector and overhead contact line. The actual model calculations and the practical design of a 2-dimensionally arranged strain sensor network have been especially enhanced to the calculation of impact directions. The well-known advantages of fiber-optic sensors - embedding capability in the composite carbon/aluminum collector strip, multiplexing of distributed sensor networks, electrical isolation - are of particular importance for detection and characterization of fast impacts immediately at the position of incidence. Tests under everyday operating conditions with trains on high-speed tracks as well as under high load in mountain regions proved the application of this sensing technology. Problems and solutions for the sensor network embedment, the fast Bragg sensor interrogation algorithms, and actual lab test results with their application-orientated analysis will be presented.
Blood T Helper Memory Cells: A Tool for Studying Skin Inflammation in HS? (2023)

Hidradenitis suppurativa (HS) is an inflammatory skin disease characterized by painful lesions on intertriginous body areas such as the axillary, inguinal, and perianal sites. Given the limited treatment options for HS, expanding our knowledge of its pathogenetic mechanisms is a prerequisite for novel therapeutic developments. T cells are assumed to play a crucial role in HS pathogenesis. However, it is currently unknown whether blood T cells show specific molecular alterations in HS. To address this, we studied the molecular profile of CD4<sup>+</sup> memory T (Th<sub>mem</sub>) cells purified from the blood of patients with HS and matched healthy participants. About 2.0% and 1.9% of protein-coding transcripts were found to be up- and down-regulated in blood HS Th<sub>mem</sub> cells, respectively. These differentially expressed transcripts (DETs) are known to be involved in nucleoside triphosphate/nucleotide metabolic processes, mitochondrion organization, and oxidative phosphorylation. The detected down-regulation of transcripts involved in oxidative phosphorylation suggest a metabolic shift of HS Th<sub>mem</sub> cells towards glycolysis. The inclusion of transcriptome data from skin from HS patients and healthy participants in the analyses revealed that in HS skin lesions, the expression pattern of transcripts identified as DETs in blood HS Th<sub>mem</sub> cells was very similar to the expression pattern of the totality of protein-coding transcripts. Furthermore, there was no significant association between the extent of the expressional changes in the DETs of blood HS Th<sub>mem</sub> cells and the extent of the expressional changes in these transcripts in HS skin lesions compared to healthy donor skin. Additionally, a gene ontology enrichment analysis did not demonstrate any association of the DETs of blood HS Th<sub>mem</sub> cells with skin disorders. Instead, there were associations with different neurological diseases, non-alcoholic fatty liver disease, and thermogenesis. The levels of most DETs linked to neurological diseases showed a positive correlation to each other, suggesting common regulatory mechanisms. In summary, the transcriptomic changes in blood Th<sub>mem</sub> cells observed in patients with manifest cutaneous HS lesions do not appear to be characteristic of the molecular changes in the skin. Instead, they could be useful for studying comorbidities and identifying corresponding blood biomarkers in these patients.
Determination of the gained proximal sealing zone length after debranching of the left subclavian artery in thoracic endovascular aortic repair (2023)

Debranching the LSA adds valuable sealing length in zone 2, but the SAL was still relatively short in many patients, putting these patients at risk for a future type Ia endoleak. Accurate assessment of the circumferential apposition on postoperative CTA follow-up in these high-risk patients with short, complex landing zones seems mandatory. Evaluation of apposition in a larger population with longer follow-up is advised.
Novel Printed Carbon Nanotubes Based Resistive Humidity Sensors (2019)

A resistive flexible humidity sensor based on carbon nanotubes (CNT) was designed and fabricated. Screen and gravure printing processes were used for the fabrication of the humidity sensor containing interdigitated electrodes (IDE), a sensing layer and a meandering conductive heater. The capability of the printed sensor was investigated by subjecting it to relative humidity (RH) ranging from 30% to 60%. This response demonstrated an overall resistance change of <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">~</sub> 29% when the sensor was subjected to 60% RH, when compared to 30% RH. A maximum hysteresis of <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">~</sub> 5.8%, at 40% RH, was calculated for the resistive response of the sensor. The fabrication method and sensor response are analysed and presented in this paper.
Globally optimal OCT surface segmentation using a constrained IPM optimization (2022)

Segmentation of multiple surfaces in optical coherence tomography (OCT) images is a challenging problem, further complicated by the frequent presence of weak boundaries, varying layer thicknesses, and mutual influence between adjacent surfaces. The traditional graph-based optimal surface segmentation method has proven its effectiveness with its ability to capture various surface priors in a uniform graph model. However, its efficacy heavily relies on handcrafted features that are used to define the surface cost for the "goodness" of a surface. Recently, deep learning (DL) is emerging as a powerful tool for medical image segmentation thanks to its superior feature learning capability. Unfortunately, due to the scarcity of training data in medical imaging, it is nontrivial for DL networks to implicitly learn the global structure of the target surfaces, including surface interactions. This study proposes to parameterize the surface cost functions in the graph model and leverage DL to learn those parameters. The multiple optimal surfaces are then simultaneously detected by minimizing the total surface cost while explicitly enforcing the mutual surface interaction constraints. The optimization problem is solved by the primal-dual interior-point method (IPM), which can be implemented by a layer of neural networks, enabling efficient end-to-end training of the whole network. Experiments on spectral-domain optical coherence tomography (SD-OCT) retinal layer segmentation demonstrated promising segmentation results with sub-pixel accuracy.
Effect of Multiple‐Dose Dexloxiglumide on the Pharmacokinetics of Oral Contraceptives in Healthy Women (2005)

This study was undertaken to evaluate the effect of dexloxiglumide, a selective cholecystokinin receptor antagonist, on the pharmacokinetics of a combination oral contraceptive (OC). A single-blind, placebo-controlled, 2-period crossover study was conducted in 24 healthy young female subjects who received Ortho Tri-Cyclen containing ethinyl estradiol (EE, 0.035 mg) and norgestimate (NE, 0.180 mg/0.215 mg/0.250 mg per 7-day phase, respectively) for 5 days (days 17-21) concurrently with either 200 mg dexloxiglumide (3 times a day on days 17-20, followed by a single dose on day 21) or matching placebo during 2 consecutive 28-day OC dosing cycles. Plasma was sampled up to 24 hours for the determination of EE, NE, and 17-deactyl norgestimate (17-DNE, a rapidly formed pharmacologically active metabolite of NE). The geometric mean ratios (GMRs, dexloxiglumide/placebo) of the plasma concentration-time curve over 24 hours with corresponding 90% confidence intervals (CIs) for EE and 17-DNE were 1.21 (1.17-1.26) and 0.92 (0.89-0.95), respectively. The GMRs (90% CI) of C(max) for EE and 17-DNE were 1.15 (1.09-1.20) and 0.93 (0.90-0.96), respectively. Coadministration of OC and dexloxiglumide was well tolerated and safe. Comparable systemic exposure of EE and 17-DNE in the presence and absence of dexloxiglumide suggests that dexloxiglumide treatment is unlikely to interfere with the safety and efficacy of oral contraceptives based on the analysis of the resulting pharmacokinetic profile.
ADP Platelet Hyperreactivity Predicts Cardiovascular Disease in the FHS (Framingham Heart Study) (2018)

Intrinsic hyperreactivity to low-dose ADP in our community-based sample, who were free of CVD and any antiplatelet therapy, is associated with future arterial thrombosis during a 20-year follow-up. These findings reinforce ADP activation inhibition as a critical treatment paradigm and encourage further study of ADP inhibitor-refractive populations.
Abstract 5557: Patterns of oncogene co-expression at single cell resolution influence survival in diffuse large B-cell lymphoma (2023)

Abstract Background: Cancers often overexpress multiple clinically relevant oncogenes. However, it is not known if multiple oncogenes within a cancer combineuniquely in specific cellular sub-populations to influence clinical outcome.We studied this phenomenon using the prognostically relevantoncogenes MYC, BCL2 and BCL6 in Diffuse Large B-Cell Lymphoma(DLBCL). Methods: Quantitative multispectral imaging simultaneously measured oncogene co-expression at single-cell resolution in reactive lymphoid tissue (n=12)and four independent cohorts (n=409) of DLBCL. Mathematically derived co-expression phenotypes were evaluated in DLBCLs with immunohistochemistry (n=316) and nine DLBCL cohorts with gene expression data (n=3974). Bulk and single-cell RNA sequencing was performed on patient-derived B-cells with induced co-expression of MYC,BCL2 and BCL6. Results: Unlike in non-malignant lymphoid tissue where the co-expression of MYC, BCL2 and BCL6 in a B-cell is limited, DLBCLs show multiple permutations of oncogenic co-expression in malignant B-cells. The percentage of cells with a unique combination MYC+BCL2+BCL6-(M+2+6-) consistently predicts survival in contrast to that of other combinations (including M+2+6+). An estimated percentage of M+2+6-cells can be derived from any quantitative measurement of the component individual oncogenes, and correlates with survival in immunohistochemistry and gene expression datasets. Comparative transcriptomic analysis of DLBCLs and transformed patient-derived B-cells identifies cyclin D2 (CCND2) as a potential BCL6-repressedregulator of proliferation in the M+2+6- population. Conclusions: Unique patterns of oncogene co-expression at single-cell resolution affect clinical outcomes in DLBCL. Similar analyses evaluating oncogenic combinations at the cellular level may impact diagnostics and target discovery in other cancers. Citation Format: Michal M. Hoppe, Patrick Jaynes, Shuangyi Fan, Yanfen Peng, Shruti Sridhar, Phuong Mai Hoang, Xin Liu, Sanjay de Mel, Limei Poon, Esther Chan, Joanne Lee, Choon Kiat Ong, Tiffany Tang, Soon Thye Lim, Chandramouli Nagarajan, Nicholas F. Grigoropoulos, Soo-Yong Tan, Susan Swee-Shan Hue, Sheng-Tsung Chang, Shih-Sung Chuang, Shaoying Li, Joseph D. Khoury, Hyungwon Choi, Pedro Farinha, Anja Mottok, David W. Scott, Carl Harris, Alessia Bottos, Gayatri Kumar, Kasthuri Kannan, Laura J. Gay, Hendrik F. Runge, Ilias Moutsopoulos, Irina Mohorianu, Daniel J. Hodson, Yen-Chee Lin, Wee-Joo Chng, Siok-Bian Ng, Claudio Tripodo, Anand D. Jeyasekharan. Patterns of oncogene co-expression at single cell resolution influence survival in diffuse large B-cell lymphoma. [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2023; Part 1 (Regular and Invited Abstracts); 2023 Apr 14-19; Orlando, FL. Philadelphia (PA): AACR; Cancer Res 2023;83(7_Suppl):Abstract nr 5557.
Gene activation via Cre/lox-mediated excision in cowpea (Vigna unguiculata) (2021)

Expression of Cre recombinase by AtRps5a<sub>pro</sub> or AtDD45<sub>pro</sub> enabled Cre/lox-mediated recombination at an early embryonic developmental stage upon crossing, activating transgenes in the hybrid cowpea and tobacco. Genetic engineering ideally results in precise spatiotemporal control of transgene expression. To activate transgenes exclusively in a hybrid upon fertilization, we evaluated a Cre/lox-mediated gene activation system with the Cre recombinase expressed by either AtRps5a or AtDD45 promoters that showed activity in egg cells and young embryos. In crosses between Cre recombinase lines and transgenic lines harboring a lox-excision reporter cassette with ZsGreen driven by the AtUbq3 promoter after Cre/lox-mediated recombination, we observed complete excision of the lox-flanked intervening DNA sequence between the AtUbq3<sub>pro</sub> and the ZsGreen coding sequence in F<sub>1</sub> progeny upon genotyping but no ZsGreen expression in F<sub>1</sub> seeds or seedlings. The incapability to observe ZsGreen fluorescence was attributed to the activity of the AtUbq3<sub>pro</sub>. Strong ZsGreen expression in F<sub>1</sub> seeds was observed after recombination when ZsGreen was driven by the AtUbq10 promoter. Using the AtDD45<sub>pro</sub> to express Cre resulted in more variation in recombination frequencies between transgenic lines and crosses. Regardless of the promoter used to regulate Cre, mosaic F<sub>1</sub> progeny were rare, suggesting gene activation at an early embryo-developmental stage. Observation of ZsGreen-expressing tobacco embryos at the globular stage from crosses with the AtRps5a<sub>pro</sub>Cre lines pollinated by the AtUbq3<sub>pro</sub>lox line supported the early activation mode.
Tungsten Catalyst Incorporating a Well‐Defined Tetracoordinated Aluminum Surface Ligand for Selective Metathesis of Propane, [(≡Si−O−Si≡)(≡Si−O−)2Al−O−W(≡CtBu) (H)2] (2018)

Abstract A well‐defined aluminium‐bound hydroxyl group on the surface of mesoporous SBA‐15, [(≡Si−O−Si≡) (≡Si−O) 2 Al−OH], 3 was obtained by reacting di‐isopropyl aluminium hydride with SBA‐15 treated at 700 °C. The resulting surface [(≡Si−O−Si≡) (≡Si−O) 2 Al (isobutyl) fragment undergoes β‐H elimination at 400 °C leading to [(≡Si−O−Si≡)(≡Si−O−) 2 Al−O) Al−H]. Further oxidation of this Al‐hydride with N 2 O leads to 3 . This acidic support was used to create a well‐defined surface organo‐tungsten fragment [(≡Si−O−Si≡)(≡Si−O−) 2 Al−O−W(≡C t Bu)(CH 2 tBu) 2 ] by reacting 3 with W(≡C‐ t Bu)(CH 2 ‐ t Bu) 3 . A further reaction with hydrogen under mild conditions afforded the tungsten carbyne bis‐hydride [(≡Si−O−Si≡)(≡Si−O−) 2 Al−O−W(H) 2 (≡C‐ t Bu)]. The performance of each of the W‐supported catalysts was assessed for propane metathesis in a flow reactor at 150 °C. [(≡Si−O−Si≡)(≡Si−O−) 2 Al−O−W(≡C t Bu)(H) 2 ] was found to be a single‐site catalyst, giving the highest turnover number (TON=800) and the highest reported selectivity for butane (45 %) vs . ethane (32 %) known for oxide‐supported tungsten complex catalysts (with the supports being silica, silica‐alumina, and alumina). The results demonstrate that modification of the oxide ligands on silica via the creation of Al Lewis acid center as an anchoring site for organometallic complexes opens up new catalytic properties, markedly enhancing the catalytic performance of supported organo‐tungsten species.
Testing of Carbon Fiber Composite Overwrapped Pressure Vessel Stress-Rupture Lifetime (2006)

This paper contains summaries of testing procedures and analysis of stress rupture life testing for two stress rupture test programs, one for Kevlar COPVs performed at Lawrence Livermore National Laboratory, and the other a joint study between NASA JSC White Sands Test Facility and the Jet Propulsion Laboratory. These will be discussed in detail including test setup and issues encountered during testing. Lessons learned from testing in these two programs will be discussed.
Localization of inducible nitric oxide synthase in acute renal allograft rejection in the rat. (1994)

There is increasing evidence for a role for nitric oxide (NO) in the alloimmune response and induction of NO synthesis occurs during allograft rejection. The aim of this study was to investigate the source of NO synthesis in rejecting allografts. Localization of inducible nitric oxide synthase (iNOS) was studied by immunohistochemistry, in a rat model of acute renal allograft rejection, in unmodified Lewis recipients in which rejection is complete 7 days after transplantation of F1 hybrid Lewis-Brown Norway kidneys. High levels of iNOS expression were found in infiltrating mononuclear cells in glomeruli and interstitium of rejecting kidneys; there was no expression in parenchymal renal cells, or in control isografts of either rat strain. Expression of iNOS in the cortex was present from 4 to 6 days posttransplantation, and had declined by the 7th day, where expression was principally in the medulla. The pattern of iNOS staining was similar to ED1 staining, a marker for rat macrophages. These findings suggest that infiltrating macrophages in the graft reaction are a prominent source of NO; this iNOS expression supports a role for NO in the modulation of local allogeneic responses, and possibly as a mediator of cytotoxic graft damage.
Is the relationship between the built environment and physical activity moderated by perceptions of crime and safety? (2014)

Clear relationships between crime, pedestrian, and traffic safety with physical activity levels remain elusive. The development of more precise safety variables and the use of neighborhood-specific physical activity outcomes may help to elucidate these relationships.