gebhart/patrepeval huggingface dataset:
JAMA Oncology—The Year in Review, 2017 (2018)

This has been a terrific year for JAMA Oncology.Our debut impact factor of 16.56 placed us as one of the highest-ranking oncology journals.JAMA Oncology published 30 of the top 50 papers among oncology journals as measured by Altmetric.We would like to thank our authors, reviewers, and readers for the significant contributions made to the journal this past year.The editorial board and I are honored to have the opportunity to serve the oncology community by offering original, innovative, and timely scientific content that has a direct impact on researchers, clinicians, and the patients we serve.I would like to thank our authors.In 2017, we published 373 total articles including 112 Original Investigations, 31 Viewpoints, and 4 Special Communications.The quality of our published articles is reflected in the 1.7 million downloads of articles from our site and the more than 7500 media mentions of JAMA Oncology articles in print, online, and news services this past year.Choosing papers for the journal was challenging.We received a total of 2083 manuscript submissions in 2017-an impressive 21% increase in submissions from the year prior.These
DFT Investigation of the Potential of [H‐M{(NHCH2CH2)3X}] Catalysts (M = Mo, Ru, Os; X = N, P) for the Reduction of N2 to NH3 by H2 (2006)

Abstract DFT calculations of model complexes [H‐M{(NHCH 2 CH 2 ) 3 X}] (M = Mo, Ru, Os; X = N, P) were carried out to investigate the catalytic potential of these complexes towards the reduction of N 2 to NH 3 using only H 2 as the reducing agent. Closed catalytic cycles were calculated for all three metal hydrides. The calculations showed that [H‐Mo{(NHCH 2 CH 2 ) 3 N}], 1 ‐Mo, is not an appropriate catalyst due to very high activation barriers for several steps of the reaction (Δ H ‡ max = 69.1 kcal/mol). Much lower activation barriers were found for the Ru and Os catalysts [H‐Ru{(NHCH 2 CH 2 ) 3 N}], 1 ‐Ru, and [H‐Os{(NHCH 2 CH 2 ) 3 P}], 1 ‐Os(P). With Δ H ‡ max /Δ G ‡ max = 29.3/35.7 kcal/mol, 1 ‐Os(P) shows potential for future theoretical work. QM/MM calculations were used to investigate some properties of the Ru system empolying the hexaisopropylterphenyl ligand (HIPT). The results indicate that an HIPT substituent at the ligand core has a benefical influence on some reaction steps by lowering the activation barriers, while for other steps the activation energies increase. (© Wiley‐VCH Verlag GmbH &amp; Co. KGaA, 69451 Weinheim, Germany, 2006)
Patterning of micro-droplets in nonpolar solvent by electro-emulsification and electrophoresis (2013)

We propose a patterning method of micro droplets. First, electrically charge droplets were dispersed in nonpolar solvent using electro-emulsification. Particularly, we obtained uniform droplets constantly by a double nozzle configuration with a smooth jet of the continuous phase. Then, the charged droplets were assembled in nonpolar solvent by electrostatic latent image. The charge value was estimated higher than ordinary ionized particles because the electrical charge was generated by the induction charging between the liquid interface at the nozzle and the electrode. Also, the charge of the droplets does not depend on the surface properties of the materials in the dispersed phase. Moreover, the size of the droplets could be controlled by changing the flow rate of the dispersed phase. Therefore, this method is expected to expand in application like sensors and composite materials.
Al-Be composites produced by rapid solidification (1986)

Al-Be alloys, 4.4-20 at.% Be in composition, were rapidly solidified by laser surface remelting and melt-spinning. Microstructures of uniform dispersions of spherical Be particles (10-15 nm in diameter), randomly dispersed in an Al matrix were produced for compositions 5-8 at.% Be. Two crystal forms of Be were observed in these solidified microstructures; equilibrium cph and metastable bcc. A cubic lattice parameter of 0.25 +/- 0.02 nm was experimentally determined by electron diffraction for the metastable bcc Be. A mechanism for the formation of the microstructure was described by a metastable phase diagram involving a liquid-miscibility gap. Thermal decomposition of the rapidly solidified microstructure resulted in a prism-rod morphology of cph Be particles with 8 crystallographic orientations observed. Mechanical properties for melt-spun (MS) Al-11Be were obtained for ribbon consolidated by dynamic compaction (DC) and by thermomechanical extrusion (Extr). The ribbon was extruded at 648 K (375/sup 0/C) with a reduction in area of 18:1 and the resultant microstructure exhibited a dynamically recrystallized grain size of 1-2 microns dispersed with Be particles. A Young's modulus of 71.5 GPa was experimentally measured and this value was consistent with calculations based on a materials composite theory.
Alkali Activation of AOD Stainless Steel Slag Under Steam Curing Conditions (2015)

Crystalline argon oxygen decarburization slag, in powdery form, was investigated for its hydration potential by alkali activation and curing at 80°C. Na‐silicate and K‐silicate of the same modulus were used as activators. Isothermal calorimetry at 80°C indicated exothermic reactions in the slag pastes. When the slag mortars were cured under steam at 80°C appreciable gain in compressive strength was measured. This was attributed to C–S–H which was detected in TG, FTIR, and 29 Si NMR analyses. Upon hydration at 90 d, the amount of crystalline phases decreased, whereas the XRD amorphous content in the slag increased. Electron microscopy showed the formation of different morphologies of reaction products depending on the alkaline activator employed. Presence of reaction rims around the crystalline phases with a major presence of Ca, Si, and O in the reacted matrix was observed in elemental maps.
DOPPLER ESTIMATION AND COMPENSATION FOR LTE-BASED AERONAUTICAL MOBILE TELEMETRY (2018)

High Doppler shifts between base stations and test articles (TAs) pose the biggest problem to Aeronautical mobile telemetry (AMT) implemented on a wireless LTE network. Our solution to this problem includes a Doppler estimator/compensator (DEC) that proactively shifts the LTE uplink (LTE UL) signals transmitted by the TA. We have designed the DEC in the form of an applique’ that can be inserted between the transmit/receive ports of a COTS TA transceiver and its antenna(s). The DEC estimates the Doppler shift using the LTE UL signals transmitted by the TA, which carry a frequency offset that includes the Doppler shift. This not only provides a clean, noise- and fading-free signal for Doppler estimation, but also allows us to do away with the need to know the identity of the base station with which the TA is communicating. In this paper, we provide an architectural description of the DEC and an outline of the algorithms that have been incorporated into it. At present, a laboratory prototype of the DEC has been developed using Universal Software Radio Peripherals (USRPs), coupled with a Linux PC to carry out most of the computations. An FPGA-based implementation is currently under development.
Asian Adaptation and Validation of an English Version of the Multiple Sclerosis International Quality of Life Questionnaire (MusiQoL) (2011)

The Asian adaptation of the English version of the MusiQoL in evaluating HRQoL seems to be a valid, reliable tool with adequate patient acceptability and internal consistency.
European Chapter Chairs Meeting at ESSCIRC-2017 [Society News] (2018)

The Region 8 IEEE Solid-State Circuits Society (SSCS) Chapter Chairs meeting was held on 13 September 2017 at the European Solid-State Circuits Conference (ESSCIRC) in Leuven, Belgium. This annual event brings together European Chapter chairs with the SSCS Administrative Committee leadership to discuss recent Chapter events and exchange ideas for future activities. The meeting events are briefly summarized.
Disk-to-Disk Transfer as the Rate-Limiting Step for Energy Flow in Phycobilisomes (1985)

A broadly tunable picosecond laser source and an ultrafast streak camera were used to measure temporally and spectrally resolved emission from intact phycobilisomes and from individual phycobiliproteins as a function of excitation wavelength. Both wild-type and mutant phycobilisomes of the unicellular cyanobacterium Synechocystis 6701 were examined, as well as two biliproteins, R-phycoerythrin (240 kilodaltons, 34 bilins) and allophycocyanin (100 kilodaltons, 6 bilins). Measurements of intact phycobilisomes with known structural differences showed that the addition of an average of 1.6 phycoerythrin disks in the phycobilisome rod increased the overall energy transfer time by 30 +/- 5 picoseconds. In the isolated phycobiliproteins the onset of emission was as prompt as that of a solution of rhodamine B laser dye and was independent of excitation wavelength. This imposes an upper limit of 8 picoseconds (instrument-limited) on the transfer time from "sensitizing" to "fluorescing" chromophores in these biliproteins. These results indicate that disk-to-disk transfer is the slowest energy transfer process in phycobilisomes and, in combination with previous structural analyses, show that with respect to energy transfer the lattice of approximately 625 light-harvesting chromophores in the Synechocystis 6701 wild-type phycobilisome functions as a linear five-point array.
Simultaneous Design of 3D Lower Limb Rehabilitation Trajectory and External Force in Consideration of Biomechanical Stability (2012)

Many physical medicine and rehabilitation strategies have been developed for physically disabled people. Most of them have been developed by the physical therapists who assess anatomical and physiological states of the patients. We can design a better rehabilitation method with application of robot technologies, since we can achieve complex motional trajectories in smooth and accurate manner, realize creatively active and passive guidance of patient's limb motion according to the patient's state, and even load and unload on specific muscles. We have developed a sequential design method of lower limb rehabilitation trajectory and external force acting on foot based on a 2D musculo-skeletal model of lower-limb. In this paper, we extend the previously developed method to a 3D musculo-skeletal model for 3D training trajectory and external force design. We introduce spline curves for both smooth position and force tracking trajectories. The structural parameters of the spline curves are explored by applying genetic algorithm. The usefulness of the proposed method is confirmed through simulation results and the comparison with a conventional training trajectory.
Coupling of histamine H 3 receptors to neuronal Na + /H + exchange: A novel protective mechanism in myocardial ischemia (2001)

In myocardial ischemia, adrenergic nerves release excessive amounts of norepinephrine (NE), causing dysfunction and arrhythmias. With anoxia and the concomitant ATP depletion, vesicular storage of NE is impaired, resulting in accumulation of free NE in the axoplasm of sympathetic nerves. Intraneuronal acidosis activates the Na(+)/H(+) exchanger (NHE), leading to increased Na(+) entry in the nerve terminals. These conditions favor availability of the NE transporter to the axoplasmic side of the membrane, causing massive carrier-mediated efflux of free NE. Neuronal NHE activation is pivotal in this process; NHE inhibitors attenuate carrier-mediated NE release. We previously reported that activation of histamine H(3) receptors (H(3)R) on cardiac sympathetic nerves also reduces carrier-mediated NE release and alleviates arrhythmias. Thus, H(3)R activation may be negatively coupled to NHE. We tested this hypothesis in individual human SKNMC neuroblastoma cells stably transfected with H(3)R cDNA, loaded with the intracellular pH (pH(i)) indicator BCECF. These cells possess amiloride-sensitive NHE. NHE activity was measured as the rate of Na(+)-dependent pH(i) recovery in response to an acute acid pulse (NH(4)Cl). We found that the selective H(3)R-agonist imetit markedly diminished NHE activity, and so did the amiloride derivative EIPA. The selective H(3)R antagonist thioperamide abolished the imetit-induced NHE attenuation. Thus, our results provide a link between H(3)R and NHE, which may limit the excessive release of NE during protracted myocardial ischemia. Our previous and present findings uncover a novel mechanism of cardioprotection: NHE inhibition in cardiac adrenergic neurons as a means to prevent ischemic arrhythmias associated with carrier-mediated NE release.
Immunobiology, preliminary safety, and efficacy of CPI-006, an anti-CD73 antibody with immune modulating activity, in a phase 1 trial in advanced cancers. (2019)

2505 Background: CPI-006 inhibits CD73, a nucelotidase that converts AMP to adenosine and functions as a lymphocyte adhesion molecule. CPI-006 is a humanized IgG1 FcγR binding-deficient antibody that binds to CD73+ T and B lymphocytes leading to activation of B cells and expression of CD69. This study investigates the immunobiology, safety, and efficacy of CPI-006 monotherapy and in combination with CPI-444, an adenosine A2A receptor (A2AR) antagonist (NCT03454451). Methods: Patients with relapsed solid tumors were treated in a 3 + 3 escalation study with 1, 3, 6 or 12 mg/kg CPI-006 (Q3w IV infusion) monotherapy or in combination with CPI-444 (100 mg, PO, BID). Flow cytometry was performed on blood samples for lymphocyte subset analysis and receptor occupancy. Results: 17 patients were enrolled; 11 monotherapy and 6 combination. CPI-006 was associated with Grade 1 infusion reactions occuring within 30 minutes of the first infusion and were eliminated by premedication with non-steroidals. No DLTs with monotherapy or combination therapy were seen. Receptor occupancy on peripheral lymphocytes was maintained for the full dosing interval at 12 mg/kg. Pharmacodynamic effects suggesting immune modulation were observed within 1 hr of infusion at all dose levels and included a decrease in peripheral blood CD73 pos B cells (mean reduction 86%, p &lt; 0.05), increased CD73 neg CD4 T cells (mean increase 37%, p &lt; 0.01), and decreased CD8 T cells (mean reduction 20%, p &lt; 0.01) compared to baseline. Overall, CD4:CD8 ratios were increased. Tumor regression was observed in a prostate cancer patient after 5 cycles of monotherapy at 6 mg/kg; peripheral B cells partially returned by the second cycle and reached a new homeostatic level through subsequent cycles. No change in serum immunoglobulins were observed. Conclusions: CPI-006 induces a rapid lymphocyte redistribution, including a transient reduction of circulating CD73 pos B cells suggesting redistribution to lymphoid tissues, and an increased CD4:CD8 ratio, consistent with increased T H effector/memory cells in the blood. The treatment has been well-tolerated, and there is early evidence of anti-tumor activity of CPI-006 monotherapy. Clinical trial information: NCT03454451.
Innocuous Intracellular Ice Improves Survival of Frozen Cells (2002)

Extensive efforts to avoid intracellular ice formation (IF) during freezing have been central to current methods used for the preservation and long-term storage of cells and tissues. In this study, we examined the effect of intracellular ice formation on the postthaw survival of V-79W fibroblast and MDCK epithelial cells using convection cryomicroscopy and controlled-rate freezing. V-79W and MDCK cells were cultured as single attached cells or as confluent cell monolayers. Postthaw cell survival was assessed using three different indices: the presence of an intact plasma membrane, the ability to reduce alamarBlue, and the capacity to form colonies in culture. Regulating the isothermal nucleation temperature was used to control the incidence of IIF in the model systems. We report that the presence of intracellular ice in confluent monolayers at high subzero temperatures does not adversely affect postthaw cell survival. Further, we show that in the absence of chemical cryoprotectants, the formation of intracellular ice alone improves the postthaw survival of cultured V-79W fibroblast and MDCK epithelial cells. Improved long-term storage of cells and tissues will result by incorporating innocuous intracellular ice formation into current strategies for cryopreservation.
Rapid molecular assays to study human centromere genomics (2017)

The centromere is the structural unit responsible for the faithful segregation of chromosomes. Although regulation of centromeric function by epigenetic factors has been well-studied, the contributions of the underlying DNA sequences have been much less well defined, and existing methodologies for studying centromere genomics in biology are laborious. We have identified specific markers in the centromere of 23 of the 24 human chromosomes that allow for rapid PCR assays capable of capturing the genomic landscape of human centromeres at a given time. Use of this genetic strategy can also delineate which specific centromere arrays in each chromosome drive the recruitment of epigenetic modulators. We further show that, surprisingly, loss and rearrangement of DNA in centromere 21 is associated with trisomy 21. This new approach can thus be used to rapidly take a snapshot of the genetics and epigenetics of each specific human centromere in nondisjunction disorders and other biological settings.
Quantifying Cerebral Autoregulation in Patients with Sickle Cell Disease Using Near-Infrared Spectroscopy (2020)

This study aimed to quantify cerebral autoregulation (CA) in patients with sickle cell disease (SCD) (n=11) and healthy controls (n=14) using near-infrared spectroscopy. Patients and volunteers performed paced breathing and frequency-dependent phase differences were compared.
Novel persistence genes in Pseudomonas aeruginosa identified by high-throughput screening (2009)

Persister cells are phenotypic variants that are extremely tolerant to high concentrations of antibiotics. They constitute a fraction of stationary phase cultures and biofilm populations of numerous bacterial species, such as the opportunistic pathogen Pseudomonas aeruginosa. Even though persisters are believed to be an important cause of incomplete elimination of infectious populations by antibiotics, their nature remains obscure. Most studies on persistence have focused on the model organism Escherichia coli and only a limited number of persistence genes have been identified to date. We performed the first large-scale screening of a P. aeruginosa PA14 mutant library to identify novel genes involved in persistence. A total of 5000 mutants were screened in a high-throughput manner and nine new persistence mutants were identified. Four mutants (with insertions in dinG, spuC, PA14_17880 and PA14_66140) exhibited a low persister phenotype and five mutants (in algR, pilH, ycgM, pheA and PA14_13680) displayed high persistence. These genes may serve as new candidate drug targets in the combat against P. aeruginosa infections.
Consequences of chromsome18q deletions (2015)

Providing clinically relevant prognoses and treatment information for people with a chromsome18q deletion is particularly challenging because every unrelated person has a unique region of hemizygosity. The hemizygous region can involve almost any region of 18q including between 1 and 101 genes (30 Mb of DNA). Most individuals have terminal deletions, but in our cohort of over 350 individuals 23% have interstitial deletions. Because of this heterogeneity, we take a gene by gene approach to understanding the clinical consequences. There are 196 genes on 18q. We classified 133 of them as dosage insensitive, 15 (8%) as dosage sensitive leading to haploinsufficiency while another 10 (5%) have effects that are conditionally haploinsufficient and are dependent on another factor, genetic or environmental in order to cause an abnormal phenotype. Thirty-seven genes (19%) have insufficient information to classify their dosage effect. Phenotypes attributed to single genes include: congenital heart disease, minor bone morphology changes, central nervous system dysmyelination, expressive speech delay, vesicouretreral reflux, polyposis, Pitt-Hopkins syndrome, intellectual disability, executive function impairment, male infertility, aural atresia, and high frequency sensorineural hearing loss. Additionally, identified critical regions for other phenotypes include: adolescent idiopathic scoliosis and pectus excavatum, Virchow-Robin perivascular spaces, small corpus callosum, strabismus, atopic disorders, mood disorder, IgA deficiency, nystagmus, congenital heart disease, kidney malformation, vertical talus, CNS dysmyelination growth hormone deficiency and cleft palate. Together these findings make it increasingly feasible to compile an individualized syndrome description based on each person's individuated genotype. Future work will focus on understanding molecular mechanisms leading to treatment.
Multicode STBC in Frequency Selective Fading (2007)

Multicode operation in space-time block coded (STBC) multiple input multiple output (MIMO) systems can provide additional degrees of freedom in code domain to achieve high data rates. In such multicode STBC systems, the receiver experiences code domain interference (CDI) in frequency selective fading. In this paper, we propose a linear parallel interference cancellation (LPIC) approach to cancel the CDI in multicode STBC signals in frequency selective fading. The proposed detector first performs LPIC followed by STBC decoding. We present an SINK for the proposed detector. We evaluate the bit error rate (BER) performance of the system, and show that the proposed detector effectively cancels the CDI and achieves improved error performance. Our BER results further illustrate how the combined effect of interference cancellation, transmit diversity, and RAKE diversity affects the performance of the system.
Transcriptomic analysis of human endogenous retroviruses in systemic lupus erythematosus (2019)

Proceedings of the National Academy of Sciences (PNAS), a peer reviewed journal of the National Academy of Sciences (NAS) - an authoritative source of high-impact, original research that broadly spans the biological, physical, and social sciences.
The OPCML Tumor Suppressor Functions as a Cell Surface Repressor–Adaptor, Negatively Regulating Receptor Tyrosine Kinases in Epithelial Ovarian Cancer (2012)

The OPCML tumor suppressor negatively regulates a specific spectrum of receptor tyrosine kinases in ovarian cancer cells by binding to their extracellular domain and altering trafficking to a nonclathrin, caveolin-1–associated endosomal pathway that results in receptor tyrosine kinase polyubiquitination and proteasomal degradation. Recombinant OPCML domain 1-3 recapitulates this mechanism and may allow for the implementation of an extracellular tumor-suppressor replacement strategy.
Aminocarbonylation Using Electron‐Rich Di‐ tert ‐Butyl‐Phosphinoferrocene (2016)

Abstract The direct palladium‐catalyzed carbonylation of aryl halides in the presence of alcohols or amines is an efficient way to synthesize esters and amides, respectively. The synthesis of esters is relatively well precedented, whereas the amino carbonylation, which is of great importance for the synthesis of pharmaceuticals, remains a bigger challenge. We demonstrated the amino carbonylation of hetero aryl bromides and iodides using the electron‐rich ligand di‐ tert ‐butyl‐phosphinoferrocene. To our knowledge, this is the first example of gram scale aminocarbonylation that employs base hydrolysis of an imide by‐product to increase the isolated yield.
Gut mucosal virome alterations in ulcerative colitis (2019)

We demonstrated for the first time that UC is characterised by substantial alterations of the mucosa virobiota with functional distortion. Enrichment of <i>Caudovirales</i> bacteriophages, increased phage/bacteria virulence functions and loss of viral-bacterial correlations in the UC mucosa highlight that mucosal virome may play an important role in UC pathogenesis.
Wake-Up Calls (1970)

DOI: 10.3126/jcmsn.v6i1.3594Journal of College of Medical Sciences-Nepal, 2010, Vol.6, No.1