gebhart/patrepeval huggingface dataset:
127 Preclinical evaluation of NKX019, a CD19-targeting CAR NK Cell (2020)

<h3>Background</h3> Natural killer (NK) cells are highly effective and fast-acting cytolytic cells capable of eradicating target cells with limited adverse effects such as cytokine release syndrome (CRS) or graft-versus-host disease. Chimeric antigen receptors (CARs)-engineered NK cells have been recently used against leukemia with encouraging clinical outcomes.<sup>1</sup> The surface antigen CD19, expressed by B-lymphoblasts, represents an ideal CAR target against B cell acute lymphoblastic leukemia (B-ALL). We developed a highly potent CD19 -directed CAR NK cell therapy, NKX019, with an extended in vivo half-life aimed at killing CD19-expressing target. <h3>Methods</h3> NK cells isolated from healthy PBMCs were expanded in the presence of NKSTIM cells, IL-2, IL-12, IL-18 and transduced with both a CD19-targeted CAR construct and a membrane-bound form of IL-15 (mbIL-15). Control (non-engineered) NK cells were produced in parallel. Cytotoxic activity of NKX019 against CD19+ B-ALL cell line (REH), pre-B ALL cell line (Nalm-6), allogeneic PBMCs was assessed using Incucyte® or flow cytometry. NSG mice bearing either Nalm-6.fluc (Nalm6) or REH.fluc (REH) tumor received different concentrations of NKX019 or control NK cells. In-life analysis of tumor-bearing and naïve NSG mice include: 1) bioluminescence imaging, 2) clinical observations, 3) serum cytokines and 4) CAR+ NK cell persistency. <h3>Results</h3> NKX019 showed enhanced cytolytic activity against REH and Nalm-6 tumor cells compared to control NK cells and CAR19+ T cells. The superiority of NKX019 over CAR19+ T cells was more pronounced at the earlier time point (24 hours) with near identical calculated EC50 observed at 72 hours for both cell types. Increased cytolytic activity of NKX019 was limited to CD19+ cells in bulk PBMCs. Consistent with our in vitro observations, NKX019 controlled Nalm-6 and REH tumor growth in doses as low as 2 × 106 cells/kg for up to 30 days with no apparent increase in cytokines commonly associated with CRS. Increased Nalm-6 tumor growth coincided with an apparent decrease in measurable NKX019 in the periphery. In tumor-naïve NSG mice, NKX019 was detectable in the blood for up to 9 weeks post-infusion consistent with its extended half-life. <h3>Conclusions</h3> NKX019 expresses mbIL-15 and is produced in the presence of IL-12 and IL-18, resulting in enhanced in vitro expansion and longer in vivo half-life than non-engineered NK cells. NKX019 also exhibited advantages compared to CAR19+ T cells including faster cytotoxic kinetics and limited production of cytokines associated with CRS. A first-in-human trial of NKX019 in B cell malignancies is planned for 2021. <h3>Ethics Approval</h3> The animal procedures described in this abstract were conducted in accordance with Explora BioLabs Animal Care and Use Protocol approved by Explora BioLabs Institutional Animal Care and Use Committee. <h3>Reference</h3> Liu, et al. 2020 NEJM
Multi-Sulfur-Annulated Fused Perylene Diimides for Organic Solar Cells with Low Open-Circuit Voltage Loss (2019)

Nonfullerene acceptors are important for increasing the power conversion efficiency of organic bulk heterojunction (BHJ) solar cells. The number of well-performing nonfullerene acceptors is still relatively limited compared to the wide range of donor materials making it difficult to find donor–acceptor pairs with matching optical and electronic properties. We report the synthesis of three sulfur-annulated fused perylene diimide-based compounds (2PDI-2S, 2PDI-3S, and 2PDI-4S) that have varying electron affinity. BHJ solar cells with these acceptors and the donor polymer PTB7-Th have solar power conversion efficiencies above 5% with relatively high fill factors (>60%) for nonfullerene acceptors. The origin of the performance of the BHJs was studied using a combination of physical and optoelectronic characterization methods. X-ray scattering revealed that the domains of 2PDI-nS acceptors are disordered in neat films and in BHJs. The carrier mobility was highest for 2PDI-4S leading to the highest fill factor for the series of acceptors. The open-circuit voltage loss was modeled using two approaches and was found to be low for the series relative to many BHJs. This work demonstrates the utility of fused-sulfur atoms to tune the electron affinity of this class of nonfullerene acceptors.
Information Extraction Using the Structured Language Model (2001)

The paper presents a data-driven approach to information extraction (viewed as template filling) using the structured language model (SLM) as a statistical parser. The task of template filling is cast as constrained parsing using the SLM. The model is automatically trained from a set of sentences annotated with frame/slot labels and spans. Training proceeds in stages: first a constrained syntactic parser is trained such that the parses on training data meet the specified semantic spans, then the non-terminal labels are enriched to contain semantic information and finally a constrained syntactic+semantic parser is trained on the parse trees resulting from the previous stage. Despite the small amount of training data used, the model is shown to outperform the slot level accuracy of a simple semantic grammar authored manually for the MiPad --- personal information management --- task.
Infrared Spectropolarimetry (1989)

This paper treats the fundamentals of infrared spectropolarimetry as a step in understanding electro-optical materials and designing better spatial light modulators. It describes the issues in converting a Fourier transform spectrometer to perform spectropolarimetric measurements and includes mathematics to interpret the resulting spectropolarimetric data. Two distinct differences exist between this proposed instrumentation and previous infrared crystal optics studies: (1) this instrument acquires data simultaneously at all wavelengths within its spectral range and (2) it measures Mueller polarization matrices. Conventional measure-ments with laser polarimeters take birefringence data with applied fields at a few laser wavelengths. With the spectropolarimeter, data are obtained over the entire spectrum, including on and near absorption bands where the most interesting phenomena occur. Measuring Mueller matrices as a function of wavelength provides data on polarization and scattering, effects that will ultimately limit the performance of a modulating crystal. Thus, more data are available with which to compare materials and optimize modulator designs. Better modulators must result from such investigations.
A rail-to-rail CMOS op amp (1988)

A CMOS op amp (operational amplifier) is reported which has a rail-to-rail voltage range at its input as well as its output. An area-efficient output stage has been used. While the entire op amp occupies only 600 mil/sup 2/, when used as a unity-gain buffer and with +or-5-V supplies, the op amp can drive a 9-V/sub pp//1-kHz sine wave across a 300- Omega load with -64 dB of harmonic distortion.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Doubling the Near‐Infrared Photocurrent in a Solar Cell via Omni‐Resonant Coherent Perfect Absorption (Advanced Optical Materials 8/2021) (2021)

In article number 2001107, Ayman F. Abouraddy and co-workers demonstrate that an omni-resonance scheme can extend coherent perfect absorption continuously over a broad spectral bandwidth, thereby rendering this coherent-enhancement arrangement relevant for solar conversion applications. The authors realize this effect in the near-infrared in a hydrogenated amorphous silicon (a-Si:H) PIN-diode solar cell incorporated into an unpatterned asymmetric planar Fabry–Pérot cavity.
Controlling Stochastic Resonance (1999)

We introduce an open-loop control scheme for stochastic resonators; the scheme permits the enhancement or suppression of the spectral response to threshold-crossing events triggered by a time-periodic signal in background noise. The control is demonstrated in experiments using a Schmitt trigger. A generic two-state theory captures the essential features observed in our experiments and in numerical simulations; this suggests the generality of the effect.
An Investigation on Deformation-Based Micro Surface Texturing (2011)

Micro surface textures have various applications, such as friction/wear reduction and bacteria sterilization. Deformation-based micro surface texturing has the potential of economically creating micro surface textures over a large surface area. A novel desktop micro surface texturing system is proposed for efficiently and economically fabricating micro channels on the surface of thin sheet material for micro fluid and friction/wear reduction applications. Both experimental and numerical studies were employed to analyze the problems of the flatness of the textured sheet, the uniform of the channel depth and pile-ups built up during the micro surface texturing process. The results demonstrated a clear relationship between relative velocity of the upper and lower rolls and the flatness of the textured sheet and the final profile of the micro channels.
Oracle database replay (2008)

This paper presents Oracle Database Replay, a novel approach to testing changes to the relational database management system component of an information system (software upgrades, hardware changes etc). Database Replay makes it possible to subject a test system to a real production system workload, which helps identify all potential problems before implementing the planned changes on the production system. Any interesting workload period of a production database system can be captured with minimal overhead. The captured workload can be used to drive a test system while maintaining the concurrency and load characteristics of the real production workload. Therefore, the test results using database replay can provide very high assurance in determining the impact of changes to a production system before applying these changes. This paper presents the architecture of Database Replay as well as experimental results that demonstrate its usefulness as testing methodology.
Association Between IgM Against an Aldehyde-Modified Peptide in Apolipoprotein B-100 and Progression of Carotid Disease (2007)

IgM against the aldehyde-modified peptide corresponding amino acids 3136 and 3155 in apo B-100 is common in subjects with asymptomatic carotid disease, and high levels are associated with a more rapid progression of carotid IMT. The observation that the effect of fluvastatin was restricted to subjects with high MDA-p210 IgM levels may reflect the increased rate of disease progression in this group.
Double-Stranded Polynucleotides as Interferon Inducers (1970)

A discussion of factors considered influential in making a polynucleotide an efficient inducer of interferon was presented. These factors were double-strandedness of the polynucleotides, the sugar moiety of the polynucleotides, thermal stability, resistance to enzymatic degradation, and molecular size of the polynucloetides. Recent developments concerning interferon induction during virus infection were also discussed.
Super Cross-Presentation of Tumor Antigens to Elicit Anti-Lymphoma Immunity By Synthetic Design of an Anti-Phosphatidylserine Bridge Protein (2016)

Abstract Cell loss by apoptosis is a common feature in tumors. Dying tumor cells induce immune tolerance within the tumor microenvironment largely through highly conserved homeostatic clearance programs that restore tissue immune homeostasis and contribute to the formation of an immunosuppressive niche. The translocation of phosphatidylserine (PS) on cellular membranes, during the initial phases of apoptosis, functions as a recognition and removal signal that limits the immunogenicity of cell death. We examined whether altering clearance of dying cancer cells to elicit inflammatory turnover potentiates immune responses against lymphoma cells. To remove inhibitory signals in the homeostatic clearance pathway we utilized a molecular bridge scaffold to engineer a modified phosphatidylserine bridge protein (FA58C2-hIgG1 or C2-hIgG1) that works as a bridge between apoptotic cells expressing aminophospholipids and phagocytes bearing Fc receptors. In vitro administration of C2-hIgG1 to murine bone marrow derived macrophages promotes engulfment of apoptotic murine lymphoma cells (38C13 cell line) and ablates the secretion of the anti-inflammatory cytokine interleukin-10 (IL-10) and suppression of pro-inflammatory cytokines tumor necrosis factor (TNF-α) and IL-12p40 to the presence of apoptotic cells. Similarly, uptake of C2-hIgG1 treated lymphoma cells triggers upregulation of the costimulatory markers CD80, CD86, and MHC class II on macrophages and promotes secretion of Th1-recruiting lymphocyte chemokines CXCL9, CXCL10, and CCL5. Accordingly, in vivo administration of C2-hIgG1 partially restores immune responses to dead lymphoma cells in antigen cross presentation assays and promotes recruitment and retention of tumor antigen specific CD8+ T cells, dendritic cells, and natural killer cells into tumors. These effects combine to elicit anti-lymphoma immunity, improve responses to immune checkpoint inhibitors, and enhance the effectiveness of adoptive T cell transfers using engineered T Cell Receptors (TCRs) but not CD19-directed chimeric antigen receptor engineered (CAR-T) T cells. Disclosures No relevant conflicts of interest to declare.
URINE-DERIVED STEM CELLS: IMPLICATIONS FOR UROLOGICAL TISSUE ENGINEERING (2009)

You have accessJournal of Urology1 Apr 2009URINE-DERIVED STEM CELLS: IMPLICATIONS FOR UROLOGICAL TISSUE ENGINEERING Yuanyuan Zhang, Shantaram Bharadwaj, Shaofeng Wu, Yujiang He, and Anthony Atala Yuanyuan ZhangYuanyuan Zhang More articles by this author , Shantaram BharadwajShantaram Bharadwaj More articles by this author , Shaofeng WuShaofeng Wu More articles by this author , Yujiang HeYujiang He More articles by this author , and Anthony AtalaAnthony Atala More articles by this author View All Author Informationhttps://doi.org/10.1016/S0022-5347(09)60124-5AboutPDF ToolsAdd to favoritesDownload CitationsTrack CitationsPermissionsReprints ShareFacebookLinked InTwitterEmail "URINE-DERIVED STEM CELLS: IMPLICATIONS FOR UROLOGICAL TISSUE ENGINEERING." The Journal of Urology, 181(4S), p. 40 © 2009 by American Urological AssociationFiguresReferencesRelatedDetails Volume 181Issue 4SApril 2009Page: 40 Advertisement Copyright & Permissions© 2009 by American Urological AssociationMetricsAuthor Information Yuanyuan Zhang More articles by this author Shantaram Bharadwaj More articles by this author Shaofeng Wu More articles by this author Yujiang He More articles by this author Anthony Atala More articles by this author Expand All Advertisement PDF downloadLoading ...
The next generation of oxy-fuel boiler systems (2005)

Research in the area of oxy-fuel combustion which is being pioneered by Jupiter Oxygen Corporation combined with boiler research conducted by the USDOE/Albany Research Center has been applied to designing the next generation of oxy-fuel combustion systems. The new systems will enhance control of boiler systems during turn-down and improve response time while improving boiler efficiency. These next generation boiler systems produce a combustion product that has been shown to be well suited for integrated pollutant removal. These systems have the promise of reducing boiler foot-print and boiler construction costs. The modularity of the system opens the possibility of using this design for replacement of boilers for retrofit on existing systems.
Flexural strain sensing using carbon nanotube film (2004)

Strain sensing characteristic of carbon nanotubes has been established in the past at nanoscale. In this study, it is shown that the carbon nanotube film sensors, made up of randomly oriented carbon nanotubes, can be used as strain sensors at macro level. A nearly linear trend between the change in voltage, measured using a movable four point probe, and strains, measured using conventional electrical strain gage, indicates the potential of such carbon nanotube films for measuring flexural strains at macro level. Isotropic strain sensing capability of the carbon nanotube film sensors, due to randomly oriented carbon nanotubes, allows multidirectional and multi‐location measurements.
MicroRNA-125b Potentiates Macrophage Activation (2011)

MicroRNA (miR)-125b expression is modulated in macrophages in response to stimulatory cues. In this study, we report a functional role of miR-125b in macrophages. We found that miR-125b is enriched in macrophages compared with lymphoid cells and whole immune tissues. Enforced expression of miR-125b drives macrophages to adapt an activated morphology that is accompanied by increased costimulatory factor expression and elevated responsiveness to IFN-γ, whereas anti-miR-125b treatment decreases CD80 surface expression. To determine whether these alterations in cell signaling, gene expression, and morphology have functional consequences, we examined the ability of macrophages with enhanced miR-125b expression to present Ags and found that they better stimulate T cell activation than control macrophages. Further indicating increased function, these macrophages were more effective at killing EL4 tumor cells in vitro and in vivo. Moreover, miR-125b repressed IFN regulatory factor 4 (IRF4), and IRF4 knockdown in macrophages mimicked the miR-125b overexpression phenotype. In summary, our evidence suggests that miR-125b is at least partly responsible for generating the activated nature of macrophages, at least partially by reducing IRF4 levels, and potentiates the functional role of macrophages in inducing immune responses.
Electromagnetically induced transparency with spectator momenta (1999)

We describe a method and present experimental results for obtaining electromagnetically induced transparency by adjusting the frequencies of two lasers so that they coincide with the centers of gravity of two hyperfine split transitions. No hyperfine states are in Raman resonance and the zero of the dipole moment results from the interference of the manifold of cooperating m states.
Enhanced high-order harmonic generation from Xe, Kr, and Ar in a capillary discharge (2007)

We report the use of a preionized medium created by a capillary discharge to extend the cutoff photon energy in high-order harmonic generation. The observed enhancements result from a combination of reduced ionization energy loss and reduced ionization-induced defocusing of the driving laser. We observe harmonic emission from Xe up to a photon energy of $160\phantom{\rule{0.3em}{0ex}}\mathrm{eV}$, and we extend this technique to other noble gases, observing photons with energies up to $170\phantom{\rule{0.3em}{0ex}}\mathrm{eV}$ from Kr and $275\phantom{\rule{0.3em}{0ex}}\mathrm{eV}$ from Ar. The discharge plasma also provides a means to spectrally tune the harmonics by tailoring the initial level of ionization of the medium. Our results are interpreted using a hydrodynamic-atomic physics model of the discharge plasma. This work demonstrates that capillary discharges are a versatile and general method for generating harmonics, in particular from ions. Finally, this approach should be scalable to efficiently generate coherent light at much shorter wavelengths, in combination with phase-matching techniques.
DNA strand transfer catalyzed by vaccinia topoisomerase: ligation of DNAs containing a 3' mononucleotide overhang (2000)

The specificity of vaccinia topoisomerase for transesterification to DNA at the sequence 5'-CCCTT and its versatility in strand transfer have illuminated the recombinogenic properties of type IB topoisomerases and spawned topoisomerase-based strategies for DNA cloning. Here we characterize a pathway of topoisomerase-mediated DNA ligation in which enzyme bound covalently to a CCCTT end with an unpaired +1T nucleotide rapidly and efficiently joins the CCCTT strand to a duplex DNA containing a 3' A overhang. The joining reaction occurs with high efficiency, albeit slowly, to duplex DNAs containing 3' G, T or C overhangs. Strand transfer can be restricted to the correctly paired 3' A overhang by including 0.5 M NaCl in the ligation reaction mixture. The effects of base mismatches and increased ionic strength on the rates of 3' overhang ligation provide a quantitative picture of the relative contributions of +1 T:A base pairing and electrostatic interactions downstream of the scissile phosphate to the productive binding of an unlinked acceptor DNA to the active site. The results clarify the biochemistry underlying topoisomerase-cloning of PCR products with non-templated 3' overhangs.
Riboflavin Biosynthesis in Saccharomyces cerevisiae (1995)

Saccharomyces cerevisiae has a monofunctional riboflavin synthase that catalyzes the formation of riboflavin from 6,7-dimethyl-8-ribityllumazine. We have isolated the gene encoding this enzyme from a yeast genomic library by functional complementation of a mutant, rib5-10, lacking riboflavin synthase activity. Deletion of the chromosomal copy of RIB5 led to riboflavin auxotrophy and loss of enzyme activity. Intragenic complementation between point and deletion mutant alleles suggested that the encoded protein (Rib5p) assembles into a multimeric complex and predicted the existence of a discrete functional domain located at the N terminus. Nucleotide sequencing revealed a 714-base pair open reading frame encoding a 25-kDa protein. Rib5p was purified to apparent homogeneity by a simple procedure. The specific activity of the enzyme was enriched 8500-fold. The N-terminal sequence of the purified enzyme was identical to the sequence predicted from the nucleotide sequence of the RIB5 gene. Initial structural characterization of riboflavin synthase by gel filtration chromatography and both nondenaturing pore limit and SDS-polyacrylamide gel electrophoresis showed that the enzyme forms a trimer of identical 25-kDa subunits. The derived amino acid sequence of RIB5 shows extensive homology to the sequences of the alpha subunits of riboflavin synthase from Bacillus subtilis and other prokaryotes. In addition, the sequence also shows internal homology between the N-terminal and the C-terminal halves of the protein. Taken together, these results suggest that the Rib5p subunit contains two structurally related (substrate-binding) but catalytically different (acceptor and donator) domains.
Low Chromatic Dispersion of ±16 ps/(nm·km) over a 550-nm Wavelength Range using a Strip/Slot Hybrid Silicon Waveguide (2010)

We propose a dispersion-flattened silicon waveguide that exhibits a flat and near-zero dispersion within ±16 ps/nm/km over a 550-nm wavelength range. Averaged dispersion can be shifted from negative to positive with almost the same flatness.
Multilayer Polymer Light‐Emitting Diodes: White‐Light Emission with High Efficiency (2005)

White-light-emitting polymer diodes containing hole-injection/transport and electron-injection/transport layers have been fabricated by solution processing. Illumination-quality light is obtained from these multilayer, high-performance devices, with stable Commission Internationale d'Eclairage coordinates, stable color temperatures, and stable, high color-rendering indices, which are all close to those of “pure” white light indicated by the dotted oval in the Figure.
Miniature Fiber Acoustic Sensors and Sensor Array Using Photonic-Crystal Membranes (2012)

We report a low-profile acoustic fiber sensor array incorporating ten miniature fiber Fabry-Perot acoustic sensors utilizing a reflective photonic-crystal diaphragm with exhibit high sensitivity, broad bandwidth, high thermal stability, and nearly identical operating wavelengths.