gebhart/patrepeval huggingface dataset:
Use Cases for SF Aware Topology Models (2018)

This document describes some use cases that benefit from the network
topology models that are service and network function aware.
Comparison of Oxidative Stress Markers After Intravenous Administration of Iron Dextran, Sodium Ferric Gluconate, and Iron Sucrose in Patients Undergoing Hemodialysis (2007)

Iron sucrose and sodium ferric gluconate were associated with greater non-transferrin-bound iron appearance compared with iron dextran. However, only sodium ferric gluconate showed significant increases in lipid peroxidation. The relationship between non-transferrin-bound iron from intravenous iron and oxidative stress warrants further exploration.
Endothelial cell–leukemia interactions remodel drug responses, uncovering T-ALL vulnerabilities (2022)

T-cell acute lymphoblastic leukemia (T-ALL) is an aggressive and often incurable disease. To uncover therapeutic vulnerabilities, we first developed T-ALL patient-derived tumor xenografts (PDXs) and exposed PDX cells to a library of 433 clinical-stage compounds in vitro. We identified 39 broadly active drugs with antileukemia activity. Because endothelial cells (ECs) can alter drug responses in T-ALL, we developed an EC/T-ALL coculture system. We found that ECs provide protumorigenic signals and mitigate drug responses in T-ALL PDXs. Whereas ECs broadly rescued several compounds in most models, for some drugs the rescue was restricted to individual PDXs, suggesting unique crosstalk interactions and/or intrinsic tumor features. Mechanistically, cocultured T-ALL cells and ECs underwent bidirectional transcriptomic changes at the single-cell level, highlighting distinct "education signatures." These changes were linked to bidirectional regulation of multiple pathways in T-ALL cells as well as in ECs. Remarkably, in vitro EC-educated T-ALL cells transcriptionally mirrored ex vivo splenic T-ALL at single-cell resolution. Last, 5 effective drugs from the 2 drug screenings were tested in vivo and shown to effectively delay tumor growth and dissemination thus prolonging overall survival. In sum, we developed a T-ALL/EC platform that elucidated leukemia-microenvironment interactions and identified effective compounds and therapeutic vulnerabilities.
PivotPaths: Strolling through Faceted Information Spaces (2012)

Fig. 1. A resource anchor selects a paper’s references and citations. Details are shown for one of its authors, Mary Czerwinski. Abstract—We present PivotPaths, an interactive visualization for exploring faceted information resources. During both work and leisure, we increasingly interact with information spaces that contain multiple facets and relations, such as authors, keywords, and citations of academic publications, or actors and genres of movies. To navigate these interlinked resources today, one typically selects items from facet lists resulting in abrupt changes from one subset of data to another. While filtering is useful to retrieve results matching specific criteria, it can be difficult to see how facets and items relate and to comprehend the effect of filter operations. In contrast, the PivotPaths interface exposes faceted relations as visual paths in arrangements that invite the viewer to ‘take a stroll ’ through an information space. PivotPaths supports pivot operations as lightweight interaction techniques that trigger gradual transitions between views. We designed the interface to allow for casual traversal of large collections in an aesthetically pleasing manner that encourages exploration and serendipitous discoveries. This paper shares the findings from our iterative design-and-evaluation process that included semi-structured interviews and a two-week deployment of PivotPaths applied to a large database of academic publications. Index Terms—Information visualization, interactivity, node-link diagrams, animation, information seeking, exploratory search. 1
Current prices versus minimum costs of production for CFTR modulators (2022)

Elexacaftor/tezacaftor/ivacaftor could be produced via generic companies for a fraction of the list price. The current pricing model restricts access to the best available therapy, thereby exacerbating existing inequalities in CF care. Urgent action is needed to increase the availability of triple combination treatment worldwide. One strategy based on previous success is originator-issued voluntary licenses.
Label-Free Raman Mapping of Surface Distribution of Protein A and IgG Biomolecules (2011)

We have demonstrated a nanoengineered substrate composed of micropatterned silver nanoparticles to be used for the label-free mapping of adsorbed biomolecules. We utilized surface-enhanced Raman scattering (SERS) phenomenon to monitor the known bioanalytes, protein A and human immunoglobulin G (IgG). The SERS substrate was composed of a poly(alylamine hydrochloride) (PAH)/poly(styrenesulfonate) (PSS) layer-by-layer (LbL) nanocoating micropatterned with silver nanoparticles confined to microscopic stripes. Selective adsorption of biomacromolecules is facilitated by the amine-terminated LbL nanocoating, which prevents the surface adsorption of positively charged protein A across the surface except on the patterned regions containing negatively charged silver nanoparticles. Furthermore, adsorption of IgG on predetermined regions is facilitated by the selective binding of the Fc region of IgG to protein A. This label-free SERS approach provides accurate, selective, and fast detection of protein A and IgG solutions with a nanomolar concentration, down to below 1 nM for IgG in solution. This method could also be utilized for the facile detection of proteins in field conditions as well as in clinical, forensic, industrial, and environmental laboratories.
Magic Wavelength for Atomic Motion Insensitive Optical Lattice Clocks (2009)

In a standing wave of light, a difference in spatial distributions of multipolar atom-field interactions may alter the definition of the magic wavelength to minimize the uncertainty of optical lattice clocks. We show that the magic wavelength can be determined so as to eliminate the spatial mismatch in electric dipole, magnetic dipole, and electric quadrupole interactions for specific combinations of standing waves. Experimental prospects of such lattices used with a blue magic wavelength are discussed.
On Indexing High Demensional Data with Uncertainty. (2008)

In this paper, we will examine the problem of distance function computation and indexing uncertain data in high dimensionality for nearest neighbor and range queries. Because of the inherent noise in uncertain data, traditional distance function measures such as the Lqmetric and their probabilistic variants are not qualitatively effective. This problem is further magnified by the sparsity issue in high dimensionality. In this paper, we examine methods of computing distance functions for high dimensional data which are qualitatively effective and friendly to the use of indexes. In this paper, we show how to construct an effective index structure in order to handle uncertain similarity and range queries in high dimensionality. Typical range queries in high dimensional space use only a subset of the ranges in order to resolve the queries. Furthermore, it is often desirable to run similarity queries with only a subset of the large number of dimensions. Such queries are difficult to resolve with traditional index structures which use the entire set of dimensions. We propose query-processing techniques which use effective search methods on the index in order to compute the final results. We discuss the experimental results on a number of real and synthetic data sets in terms of effectiveness and efficiency. We show that the proposed distance measures are not only more effective than traditional Lq-norms, but can also be computed more efficiently over our proposed index structure.
Optimal mission planner with timed temporal logic constraints (2015)

In this paper, we present an optimization based method for path planning of a mobile robot subject to time bounded temporal constraints, in a dynamic environment. Temporal logic (TL) can address very complex task specification such as safety, coverage, motion sequencing etc. We use metric temporal logic (MTL) to encode the task specifications with timing constraints. We then translate the MTL formulae into mixed integer linear constraints and solve the associated optimization problem using a mixed integer linear program solver. This approach is different from the automata based methods which generate a finite abstraction of the environment and dynamics, and use an automata theoretic approach to formally generate a path that satisfies the TL specifications. We have applied our approach on several case studies in complex dynamical environments subjected to timed temporal specifications.
18F-DCFPyL PET/CT in Castration-Resistant Prostate Cancer (CRPC): Imaging results prior to and following abiraterone or enzalutemide therapy (2018)

1469 Objectives: To evaluate 18F-DCFPyL PET/CT as a non-invasive imaging biomarker in men with CRPC. Methods: 10 men with CRPC had 18F-DCFPyL PET/CT at baseline and after 9-14 weeks of abiraterone or enzalutemide therapy. Standard imaging (bone scan and CT) was done at baseline, after appox. 3 and 6 months of therapy. Disease extent, intra-patient tumor maximum standardized uptake value (SUVmax), therapy response by PSA and time on treatment were recorded. Men were followed for at least 12 months after enrolment. Results: Of 10 men, all had 18F-DCFPyL-avid disease. Five men with widespread disease were on treatment for 548, 399, 279, 209 and 186 days and had SUVmax 80.0, 32.4, 47.8, 19.6 and 42.7. Two men with oligometastatic disease (less than or equal to 5 lesions) were on treatment for 358 and 343 days and had SUVmax 29.7 and 5.3. The remaining 3 men (more than 5 lesions but not widespread) were on treatment for 420, 383 and 214 days and had SUVmax 17.9, 27.4 and 8.1. All men had 18F-DCFPyL-avid disease at baseline and follow-up. Further, the majority of disease sites increased in intensity on follow-up, although in several cases there were mixed interval changes. There was no significant relationship between baseline SUVmax or change in SUVmax with time on therapy. 18F-DCFPyL PET/CT suggested a more definitive estimate of baseline disease burden than standard imaging, although 2 men had non-18F-DCFPyL-avid sites of disease. Conclusions: 18F-DCFPyL PET/CT uncovers more sites of disease than standard imaging, although there is a sub-population of men with non-18F-DCFPyL-avid disease. The majority of disease sites demonstrate increasing 18F-DCFPyL following 9-14 weeks of therapy. A larger sample size is needed for confirmation.
Lung cancer in HIV patients and their parents: A Danish cohort study (2011)

The risk was especially increased in HIV patients who were smokers or former smokers, heterosexually infected men or immunosuppressed. HIV appears to be a marker of behavioural or family related risk factors that affect the incidence of lung cancer in HIV patients.
Effects of chronic D-Leu6, des-Gly10-gonadotropin releasing hormone ethylamide on male sex tissues (1984)

The chronic administration of superactive agonists of gonadotropin releasing hormone (GnRH-A) have been reported to have a direct inhibitory effect on the sex tissues of the male rat. In an attempt to confirm or refute this statement, adult male rats were either left intact or were castrated and then treated daily for 14 days with either testosterone (T), dihydrotestosterone (DHT) or sesame oil (vehicle). Half of the intact and castrate animals also received daily injections of 200 ng of the GnRH agonist, D-Leu6, des-Gly10-GnRH ethylamide for 14 days. Twenty-four hours after completing treatment, blood levels of follicle-stimulating hormone (FSH), luteinizing hormone (LH) and T were measured by radioimmunoassay and the ventral prostate gland (VP), seminal vesicle (SV) and penis were weighed. After 2 weeks of GnRH-A treatment, the plasma T level was reduced from 2506 +/- 170 (pg/ml +/- SEM) in the intact, nontreated animals to 907 +/- 69 in the intact, GnRH-A-treated group, indicating that the dosage of GnRH-A used in this study had an inhibiting effect on T secretion. No differences were observed in the VP, SV and penile weights between the castrate, GnRH-A and the castrate, nontreated groups. When exogenous T or DHT was given for 14 days to these castrated animals, the concomitant administration of GnRH-A did not appear to have any effect on the plasma T levels or the sex accessory tissue weights. These data suggest that GnRH-A itself does not appear to have a direct inhibitory or stimulatory effect on the sex tissues of the adult male rat.
Synergistic effects of emergency physician empathy and burnout on patient satisfaction: a prospective observational study (2020)

Patient assessed physician empathy had a strong positive correlation with patient satisfaction. Moreover, higher patient satisfaction was achieved from EPs of high patient assessed physician empathy, low CBI and high JSE, indicating a positive synergistic effect. These findings suggest different interventions might be applied to EPs of different wellness features to maximise patient satisfaction.
Membrane Raft Localization Is Critical for Erythropoietin Receptor Signaling. (2009)

Abstract Abstract 2506 Poster Board II-483 Erythropoietin (EPO) is the principal regulator of erythroid progenitor proliferation, differentiation, and survival. Upon ligand engagement, the EPO-receptor (R) homodimerizes to activate the tyrosine kinases, Janus kinase-2 (JAK-2) and Lyn, which in turn phosphorylate the signal transducer and activator of transcription (STAT)-5. Although recent investigations have identified key negative regulators of the EPO-R signal, little is known about the membrane localization and dynamic control of receptor signal fidelity. Here we show a critical role for membrane raft microdomains in the creation of signaling platforms that are essential for signal integrity. Using UT-7 cells, we showed that recombinant human EPO (rhuEPO) stimulation rapidly induced raft formation and aggregation. Confocal microscopy quantitation of the raft ganglioside GM-1 fluorescence showed that raft aggregates increased from a mean of 4.3 ± 1.4 (SE) per cell to 25.6 ± 3.2 aggregates per cell after cytokine stimulation (p≤0.001), accompanied by a greater than 3-fold increase in cluster size (mean stimulated to untreated aggregate size ratio: 3.33 ± 0.11, p≤0.001). Isolation and immunoblot analysis of detergent insoluble raft fractions showed that the EPO-R translocated to lipid rafts after EPO stimulation of UT-7 cells. Confocal microscopy confirmed translocation of the EPO-R into membrane rafts in EPO-stimulated UT-7 cells and normal erythroid bursts. Receptor recruitment into rafts was accompanied by Jak2, Lyn and STAT5 loading into membrane raft fractions upon EPO stimulation. Treatment with methyl-β-cyclodextrin (MBCD) to deplete raft cholesterol and disrupt raft integrity extinguished EPO-induced STAT5 phosphorylation in UT-7 cells and human bone marrow progenitors. Similarly, membrane cholesterol-sequestration by nystatin markedly reduced EPO induced STAT5 phosphorylation in UT-7 cells. MBCD pretreatment of these cells prior to stimulation with phorbol 12-myristate 13-acetate (PMA) did not alter mitogen-activated protein kinase (MAPK) phosphorylation, indicating preservation of non-receptor, non-raft signal integrity despite depletion of cholesterol rich microdomains. These data establish a critical role for membrane raft microdomains in the recruitment and physical assembly of the EPO-R and its signaling intermediates into discrete platforms necessary to optimize signal integrity Disclosures: No relevant conflicts of interest to declare.
Structural comparison of psychrophilic and mesophilic trypsins (2000)

Structural rationalizations for differences in catalytic efficiency and stability between mesophilic and cold-adapted trypsins have been suggested from a detailed comparison of eight trypsin structures. Two trypsins, from Antarctic fish and Atlantic cod, have been constructed by homology modeling techniques and compared with six existing X-ray structures of both cold-adapted and mesophilic trypsins. The structural analysis focuses on the cold trypsin residue determinants found in a more extensive comparison of 27 trypsin sequences, and reveals a number of structural features unique to the cold-adapted trypsins. The increased substrate affinity of the psychrophilic trypsins is probably achieved by a lower electrostatic potential of the S1 binding pocket particularly arising from Glu221B, and from the lack of five hydrogen bonds adjacent to the catalytic triad. The reduced stability of the cold trypsins is expected to arise from reduced packing in two distinct core regions, fewer interdomain hydrogen bonds and from a destabilized C-terminal alpha-helix. The helices of the cold trypsins lack four hydrogen bonds and two salt-bridges, and they have poorer van der Waals packing interactions to the body of the molecule, compared to the mesophilic counterparts.
Lactase persistence and ovarian carcinoma risk in Finland, Poland and Sweden (2005)

Ovarian carcinoma is the fourth most common cause of cancer death in women. The cause and pathogenesis of this disease has remained obscure. Galactose, the hydrolyzing product of the milk sugar lactose, has been hypothesized to be toxic to ovarian epithelial cells and consumption of dairy products and lactase persistence has been suggested to be a risk factor for ovarian carcinoma. In adults, downregulation of lactase depends on a variant C/T-13910 at the 5' end of the lactase gene. To explore whether lactase persistence is related to the risk of ovarian carcinoma we determined the C/T-13910 genotype in a cohort of 782 women with ovarian carcinoma. The C/T-13910 genotype was defined by solid phase minisequencing from 327 Finnish, 303 Polish, 152 Swedish patients and 938 Finnish, 296 Polish and 97 Swedish healthy individuals served as controls. Lactase persistence did not associate significantly with increased risk for ovarian carcinoma in the Finnish (odds ratio [OR]=0.77, 95% confidence interval [CI]=0.57-1.05, p=0.097), in the Polish (OR=0.95, 95% CI=0.68-1.33, p=0.75), or in the Swedish populations (OR=1.63, 95% CI=0.65-4.08, p=0.29). Our results do not support the hypothesis that lactase persistence increases the ovarian carcinoma risk. On the contrary, lactase persistence may decrease the ovarian carcinoma risk at least in the Finnish population.
Ultra wideband radio propagation in body area network scenarios (2005)

This work presents novel, very-short range UWB radio channel investigations performed in typical body area network (BAN) scenarios using small size, low profile terminal antennas. A novel RF fiber optic connection has been employed for the small antenna set-up in order to maximize the accuracy of the measurements. Several test users have been investigated and significant changes of the UWB antenna radiation characteristics when close to the human body were disclosed using numerical simulations. The measurements with different UWB device positions on the human body showed drastic changes in the calculated radio channel parameters (frequency and time-delay domain) not only due to the body area but also due to the total propagation environment.
Clinical and biologic covariates of outcomes in ZUMA-1: A pivotal trial of axicabtagene ciloleucel (axi-cel; KTE-C19) in patients with refractory aggressive non-Hodgkin lymphoma (r-NHL). (2017)

7512 Background: Outcomes in activated B cell subtype diffuse large B cell lymphoma (ABC-DLBCL) and r-NHL are poor (Sehn Blood 2015, Crump ASCO 2016). ZUMA-1 is the first, multicenter trial of anti-CD19 chimeric antigen receptor (CAR) T cells, axi-cel, in r-NHL. Methods: Dosing and eligibility were per Neelapu ASH 2016. The primary endpoint was objective response rate (ORR); secondary endpoints were duration of response (DOR), overall survival (OS), and safety. Cell of origin (COO) and CD19 status were assessed centrally using Lymphoma Subtyping Test NanoString (Wallden JCO 2015) and a validated immunohistochemistry assay, respectively. Results: As of Jan 27, 2017, 111 patients (pts) were enrolled; the manufacturing success rate was 99% with an average 17-d turnaround time; 101 pts (modified intent-to-treat [mITT] population) received axi-cel. In the mITT population, the ORR was 82% (complete response [CR], 54%). With 8.7 m median follow-up, 44% remain in response and 39% in CR. The median DOR was 8.1 m and not reached (NR) for pts with CR. Median OS was NR. Results for clinical and biologic covariates are listed in the table. In pts who received tocilizumab (n = 43) and/or steroids (n = 27) for cytokine release syndrome (CRS) and/or neurologic events (NE), ORR was 84% and 78%, respectively. Most common grade ≥3 adverse events (AEs) were neutropenia (66%), leukopenia (44%), anemia (43%), febrile neutropenia (31%), thrombocytopenia (24%), and encephalopathy (21%). Rates of grade ≥3 CRS and NE were 13% and 28%, respectively. There were 3 grade 5 AEs (Neelapu ASH 2016). Conclusions: Axi-cel induced an ORR of 82% in pts with r-NHL, response is ongoing in 44% of pts at 8.7 m. Similar clinical responses were observed in pts with r-ABC-DLBCL. AEs were manageable and the use of tocilizumab/steroids did not appear to impact ORR. Drs Locke and Neelapu contributed equally. Funding source: Kite Pharma and Leukemia &amp; Lymphoma Society Therapy Acceleration Program Clinical trial information: NCT02348216. [Table: see text]
Cardiovascular Health in Individuals with Exceptional Longevity Residing in Arkansas (2021)

Cardiovascular disease is a common comorbidity associated with an aging population. However, there is a unique group of individuals whose age-defying qualities are still being investigated. This retrospective chart review analyzed various cardiac and metabolic health parameters to characterize the prevalence of heart failure and metabolic derangements in individuals aged 90 years old or older in central Arkansas. Only 236 of the 291 patients in our study cohort had blood pressures recorded. Of these, 50% had systolic blood pressures ≥140 mmHg. Additionally, 77% had pulse pressures ≥50 mmHg. Of the 96 patients with BNP data, 44% had values ≥300 pg/mL. There was a slight positive correlation between aging and HDL cholesterol, while there was a negative correlation between aging and both total cholesterol and LDL cholesterol. A majority of our patients had both elevated systolic blood pressures and elevated pulse pressures. A majority also had high BNP values, indicative of some degree of heart failure. Additionally, atrial fibrillation was a common arrhythmia identified on EKG. However, these oldest of the old patients had fewer documented metabolic derangements. These findings lay important groundwork for further investigation into lifestyle and genetic components that allow them to live exceptionally long with such comorbidities.
Thermal Drift and Chip Size in Capacitive Pressure Sensors (1999)

International audience