gebhart/patrepeval huggingface dataset:
The ToF-ACSM: a portable aerosol chemical speciation monitor with TOFMS detection (2013)

Abstract. We present a new instrument for monitoring aerosol composition, the time-of-flight aerosol chemical speciation monitor (ToF-ACSM), combining precision state-of-the-art time-of-flight mass spectrometry with stability, reliability, and easy handling, which are necessities for long-term monitoring operations on the scale of months to years. Based on Aerodyne aerosol mass spectrometer (AMS) technology, the ToF-ACSM provides continuous online measurements of chemical composition and mass of non-refractory submicron aerosol particles. In contrast to the larger AMS, the compact-sized and lower-priced ToF-ACSM does not feature particle sizing, similar to the widely-used quadrupole-ACSM (Q-ACSM). Compared to the Q-ACSM, the ToF-ACSM features a better mass resolution of M/ΔM = 600 and better detection limits on the order of &lt; 30 ng m−3 for a time resolution of 30 min. With simple upgrades these limits can be brought down by another factor of ~ 8. This allows for operation at higher time resolutions and in low concentration environments. The associated software packages (single packages for integrated operation and calibration and analysis) provide a high degree of automation and remote access, minimising the need for trained personnel on site. Intercomparisons with Q-ACSM, C-ToF-AMS, nephelometer and scanning mobility particle sizer (SMPS) measurements, performed during a first long-term deployment (&gt; 10 months) on the Jungfraujoch mountain ridge (3580 m a.s.l.) in the Swiss Alps, agree quantitatively. Additionally, the mass resolution of the ToF-ACSM is sufficient for basic mass defect resolved peak fitting of the recorded spectra, providing a data stream not accessible to the Q-ACSM. This allows for quantification of certain hydrocarbon and oxygenated fragments (e.g. C3H7+ and C2H3O+, both occurring at m/Q = 43 Th), as well as improving inorganic/organic separation.
A web-based intelligibility evaluation of sign language video transmitted at low frame rates and bitrates (2013)

Mobile sign language video conversations can become unintelligible due to high video transmission rates causing network congestion and delayed video. In an effort to understand how much sign language video quality can be sacrificed, we evaluated the perceived lower limits of intelligible sign language video transmitted at four low frame rates (1, 5, 10, and 15 frames per second [fps]) and four low fixed bitrates (15, 30, 60, and 120 kilobits per second [kbps]). We discovered an "intelligibility ceiling effect," where increasing the frame rate above 10 fps decreased perceived intelligibility, and increasing the bitrate above 60 kbps produced diminishing returns. Additional findings suggest that relaxing the recommended international video transmission rate, 25 fps at 100 kbps or higher, would still provide intelligible content while considering network resources and bandwidth consumption. As part of this work, we developed the Human Signal Intelligibility Model, a new conceptual model useful for informing evaluations of video intelligibility.
RRM2 is a target for synthetic lethal interactions with replication stress checkpoint addiction in high-risk neuroblastoma (2020)

Summary Neuroblastoma is a pediatric tumor originating from the sympathetic nervous system responsible for 10-15 percent of all childhood cancer deaths. Half of all neuroblastoma patients present with high-risk disease at diagnosis. Despite intensive multi-modal therapies nearly 50 percent of high-risk cases relapse and die of their disease. In contrast to the overall paucity of mutations, high-risk neuroblastoma nearly invariably present with recurrent somatic segmental chromosome copy number variants. For several focal aberrations ( e.g. MYCN and LIN28B amplification), the direct role in tumor formation has been established. However, for recurrent aberrations, such as chromosome 2p and 17q gains, the identification of genes contributing to tumor initiation or progression has been challenging due to the scarcity of small segmental gains or amplifications. In this study, we identified and functionally evaluated the ribonucleotide reductase regulatory subunit 2 (RRM2) as a top-ranked 2p putative co-driver and therapeutic target in high-risk neuroblastoma enforcing replicative stress resistance. In vitro knock down and pharmacological RRM2 inhibition highlight RRM2 dependency in neuroblastoma cells, further supported by the finding that co-overexpression of RRM2 in a dβh-MYCN transgenic zebrafish line increased tumor penetrance with 80% and accelerated tumor formation. Given the critical role of RRM2 in replication fork progression and regulation of RRM2 through ATR/CHK1 signaling, we tested combined RRM2 and ATR/CHK1 small molecule inhibition with triapine and BAY1895344/prexasertib respectively, and observed strong synergism, in particular for combined RRM2 and CHK1 inhibition. Transcriptome analysis following combinatorial drugging revealed HEXIM1 as one of the strongest upregulated genes. Using programmable DNA binding of dCas9 with a promiscuous biotin ligase, RRM2 promotor bound proteins were identified including HEXIM1 and NurRD complex members, supporting a cooperative role for HEXIM1 upregulation together with CHK1 inhibition in further attenuating RRM2 expression levels. We evaluated the impact of combined RRM2/CHK1 inhibition in vivo , with treatment of a murine xenograft model showing rapid and complete tumor regression, without tumor regrowth upon treatment arrest. In conclusion, we identified RRM2 as a novel dependency gene in neuroblastoma and promising target for synergistic drug combinations with small compounds targeting DNA checkpoint regulators.
SeqCo-DETR: Sequence Consistency Training for Self-Supervised Object Detection with Transformers (2023)

Self-supervised pre-training and transformer-based networks have significantly improved the performance of object detection. However, most of the current self-supervised object detection methods are built on convolutional-based architectures. We believe that the transformers' sequence characteristics should be considered when designing a transformer-based self-supervised method for the object detection task. To this end, we propose SeqCo-DETR, a novel Sequence Consistency-based self-supervised method for object DEtection with TRansformers. SeqCo-DETR defines a simple but effective pretext by minimizes the discrepancy of the output sequences of transformers with different image views as input and leverages bipartite matching to find the most relevant sequence pairs to improve the sequence-level self-supervised representation learning performance. Furthermore, we provide a mask-based augmentation strategy incorporated with the sequence consistency strategy to extract more representative contextual information about the object for the object detection task. Our method achieves state-of-the-art results on MS COCO (45.8 AP) and PASCAL VOC (64.1 AP), demonstrating the effectiveness of our approach.
CT sizing for generator and transformer protective relays (2020)

Modern relays often have algorithms that enhance the security of elements that are otherwise susceptible to current transformer (CT) saturation. In this paper, we consider some of the similarities and differences between IEEE and IEC guidance on CT selection. We use CT models verified using high-current tests on a physical CT. Then using these models, we determine CT sizing guidelines and relay settings for a generator and transformer differential relay. Application guidance for generator black start is provided. Considerations such as remanence are discussed.
Breast Reconstruction following Nipple-Sparing Mastectomy (2014)

Risk, III.
Analytical and Experimental Results of a Novel Single-Stage Centrifugal Compressor With Economizer Injection (2018)

Centrifugal compressors are used in large water-cooled chillers for Heating, Ventilating, and Air Conditioning (HVAC) applications. A water-cooled chiller is one of the largest power consumers in a building HVAC system. One way of reducing the power consumption is to use an economizer cycle. In a typical economizer cycle, the vapor from the economizer (located between the condenser and the evaporator) is injected into the inlet of the compressor second stage of a multistage machine. The added cost and complexity of a two-stage compressor can be reduced with a single-stage design. To achieve the best of a single-stage design along with the benefit of an economizer cycle, a novel single-stage compressor with an economizer gas injection into the stage is analyzed using computational fluid dynamics methods. The compressor is designed with an unshrouded impeller and a pipe diffuser. Design parameters such as injection location, angle and size were analyzed to maximize the cycle benefit and achieve a minimum loss in compressor efficiency. Experiments were carried out in a real gas test rig using R134a refrigerant to validate the analytical results. This paper presents the concept and computational results of the parametric study, along with the test rig details and results.
Book Review of High-Throughput Lead Optimization in Drug Discovery (2008)

ADVERTISEMENT RETURN TO ISSUEPREVBook ReviewNEXTBook Review of High-Throughput Lead Optimization in Drug DiscoveryJan W. F. WasleyView Author Information Simpharma LLC1 Stone Fence LaneGuilford, Connecticut 06437Cite this: J. Med. Chem. 2008, 51, 23, 7650Publication Date (Web):November 14, 2008Publication History Published online14 November 2008Published inissue 11 December 2008https://pubs.acs.org/doi/10.1021/jm801068zhttps://doi.org/10.1021/jm801068zbook-reviewACS PublicationsCopyright © 2008 Request reuse permissionsArticle Views713Altmetric-Citations-LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose SUBJECTS:Chemical synthesis,Combinatorial chemistry,Drug discovery,Optimization Get e-Alerts
System Uncertainty Effect on Optimal Control Configuration Selection (2016)

An approach to investigate the effect of system uncertainty on the optimal controlconfiguration selection in multivariable systems is proposed. An optimal control configuration,i.e the configuratio ...
Combined Treatment Approaches to Soft Tissue Sarcomas (1987)

AbstractManagement of patients with these sarcomas is changing from reliance on radical surgery to increasing use of conservative surgery combined with radiotherapy and chemotherapy. The most promising results of combined-modality therapy are being achieved in patients with high-grade sarcomas of the limbs, who might otherwise have required amputation.
Abstract 4886: Repair of challenging FFPE DNA improves library success rate and sequencing quality (2015)

Abstract Formalin-fixed, paraffin-embedded (FFPE) clinical samples are an invaluable source of information about genetic alterations in human disease, especially cancer. Next generation sequencing is a powerful tool to mine that information. Unfortunately, sequencing DNA from FFPE samples is challenging due to limited quantities and poor quality, a result of DNA damage incurred during fixation and storage. In this study, we investigated the effects of DNA repair on library preparation and sequencing from FFPE samples. We evaluated a repair enzyme mix that is designed to work on a broad range of DNA damage including modified bases, nicks, gaps, and blocked 3′ ends. Results from FFPE DNA samples of varying quality show that DNA repair generally increases library yields by 10-170%, with the largest improvement on samples of poor quality. Careful analysis of sequencing data shows that base calling qualities for all 4 bases are improved upon DNA repair. Aberrant G:C to A:T mutation were significantly reduced, consistent with cytosine deamination being induced during fixation and storage at room temperature. Interestingly, sequencing miscalls for base pair changes not typically associated with fixation were also reduced. We are currently investigating the source of these mutations. With DNA repair a noticeably positive impact on read mapping and read pairing was observed, resulting in the generation of more useable data. Pretreatment of FFPE DNA by the repair enzyme mix is easily implemented upstream of library construction, allowing fast turnaround time and easy automation. We expect that these improvements will enable the analysis of many FFPE samples that would otherwise not be accessible. Citation Format: Pingfang Liu, Lixin Chen, Laurence Ettwiller, Christine Sumner, Fiona Stewart, Eileen Dimalanta, Theodore Davis, Thomas Evans. Repair of challenging FFPE DNA improves library success rate and sequencing quality. [abstract]. In: Proceedings of the 106th Annual Meeting of the American Association for Cancer Research; 2015 Apr 18-22; Philadelphia, PA. Philadelphia (PA): AACR; Cancer Res 2015;75(15 Suppl):Abstract nr 4886. doi:10.1158/1538-7445.AM2015-4886
A methodology for statistical estimation of read access yield in SRAMs (2008)

The increase of process variations in advanced CMOS technologies is considered one of the biggest challenges for SRAM designers. This is aggravated by the strong demand for lower cost and power consumption, higher performance and density which complicates SRAM design process. In this paper, we present a methodology for statistical simulation of SRAM read access yield, which is tightly related to SRAM performance and power consumption. The proposed flow enables early SRAM yield predication and performance/power optimization in the design time, which is important for SRAM in nanometer technologies. The methodology is verified using measured silicon yield data from a 1 Mb memory fabricated in an industrial 45nm technology.
Magnetic alignment of ZnO nanowires for optoelectronic device applications (2007)

Ni caps on ZnO nanowires were synthesized to control the direction and position of these nanowires using magnetism. Vertically ordered ZnO nanowires were grown 15μm in length by metal organic chemical vapor deposition and then ferromagnetic Ni was capped on top of the nanowires by sputtering. The synthesized nanowires were aligned at the edge of the magnetized Ni patterns by applying a magnetic field. The density of the aligned nanowires depended on the magnetic force of the Ni patterns. Nanowire-based ultraviolet sensors were demonstrated using the magnetic alignment method.
ChemInform Abstract: Photophysics and Electrochemistry of Hexanuclear Tungsten Halide Clusters. (1986)

Abstract In contrast to Mooxf.′ (X: Cl, Br, 1), the tungsten Cluster emission spectra are halidedependent; the energy of the emissive state increases in the w"xf: spectra according to Cl (1.83 eV) Br (1.85) I (2.05).
8-Quinolinolates as Ligands for Luminescent Cyclometalated Iridium Complexes (2007)

The synthesis, structure, and thermal, photophysical, and electroluminescent properties of bis(κ2(C2,N)-2-ppy)(κ2(N,O)-q)iridium(III) (ppy = phenylpyridine, q = 8-quinolinolate, 5-formyl-8-quinolinolate, or 5-nitro-8-quinolinolate) are described. The easily prepared compounds exhibit absorption and emission characteristics controlled by the quinolinolate ligand combined with increased thermal stability and enhanced OLED performance.
Multivalent in vivo delivery of DNA-encoded bispecific T cell engagers effectively controls heterogeneous GBM tumors and mitigates immune escape (2023)

Glioblastoma multiforme (GBM) is among the most difficult cancers to treat with a 5-year survival rate less than 5%. An immunotherapeutic vaccine approach targeting GBM-specific antigen, EGFRvIII, previously demonstrated important clinical impact. However, immune escape variants were reported in the trial, suggesting that multivalent approaches targeting GBM-associated antigens may be of importance. Here we focused on multivalent <i>in vivo</i> delivery of synthetic DNA-encoded bispecific T cell engagers (DBTEs) targeting two GBM-associated antigens, EGFRvIII and HER2. We designed and optimized an EGFRvIII-DBTE that induced T cell-mediated cytotoxicity against EGFRvIII-expressing tumor cells. <i>In vivo</i> delivery in a single administration of EGFRvIII-DBTE resulted in durable expression over several months in NSG mice and potent tumor control and clearance in both peripheral and orthotopic animal models of GBM. Next, we combined delivery of EGFRvIII-DBTEs with an HER2-targeting DBTE to treat heterogeneous GBM tumors. <i>In vivo</i> delivery of dual DBTEs targeting these two GBM-associated antigens exhibited enhanced tumor control and clearance in a heterogeneous orthotopic GBM challenge, while treatment with single-target DBTE ultimately allowed for tumor escape. These studies support that combined delivery of DBTEs, targeting both EGFRvIII and HER2, can potentially improve outcomes of GBM immunotherapy, and such multivalent approaches deserve additional study.
Cyclin B1 levels in the porcine 4-cell stage embryo (2002)

The relative quantity of cyclin B1 was determined during the development of in vitro and in vivo derived porcine 4-cell embryos by western blotting and immunolocalised during the 4-cell stage. After cleavage to the 4-cell stage cyclin B1 localised to the cytoplasm at the 5, 10, 18 and 25 time points and localised to the nucleus 33 h post 4-cell cleavage (P4CC). The relative abundance of cyclin B1 was not significantly different in in vivo or in vitro derived 4-cell stage embryos cultured in the absence of the RNA polymerase inhibitor alpha-amanitin. Cyclin B1 protein was not detectable in embryos cultured in medium without alpha-amanitin for 5, 10, 18 or 25 h P4CC followed by culture in medium with alpha-amanitin to 33 P4CC. These results suggest that the maternal to zygotic transition of mRNA production that occurs at the 4-cell stage of the pig embryo does not result in an increase in cyclin B1 production. In addition, cyclin B1 protein levels remained constant in the absence of embryonic genome activation at the 4-cell stage.
Treatment of right hemispheric cerebral infarction by hemicraniectomy. (1990)

An anecdotal series of nine patients (three men and six women with an average age of 57 years) presented with progressive neurologic deterioration while on medical therapy for large right hemispheric cerebral infarction. Clinical signs of uncal herniation (anisocoria or fixed and dilated pupils, and/or left hemiplegia with right decerebrate posturing) were present in seven of these nine patients. Computerized tomography of the head confirmed mass effect from cerebral edema. It was the clinical judgment of the treating neurologists and neurosurgeons that each of these nine patients would perish unless surgical decompression of the infarcted brain was performed. Accordingly, each was treated with right hemicraniectomy and dural augmentation. Six patients demonstrated neurologic improvement on the first postoperative day. One patient, with a postoperative diagnosis of lung cancer, died 1 month after surgery. The remaining eight patients are currently living with their families with a follow-up period ranging from 5 to 25 months. Patient outcome as evaluated by the Barthel Index indicates that three individuals are functioning with minimal assistance and that the remaining six patients are functionally dependent. After rehabilitative therapy, four patients returned for elective cranioplasty. These results suggest that hemicraniectomy can be an effective lifesaving procedure for malignant cerebral edema after large hemispheric infarction.
Effect of an Extract from Evening-Primrose Seeds on Postprandial Blood Glucose Level and Its Active Components (2003)

本研究は,脱脂した月見草(Oenothera biennis L.)種子からエタノール抽出することにより得られた月見草エキスの血糖値上昇抑制作用とその関与成分を明らかにすることを目的として行った.(1) 月見草エキス中には,単一ポリフェノール成分として,PGG2.7%,没食子酸3.1%,(+)-カテキン3.4%,PB1およびPB3合わせて1.5%の存在が確認された.(2) 総PAC量は41.4%であった.(3) これらの成分について,in vitroでのα-グルコシダーゼ阻害活性の測定およびラットを用いた糖質負荷試験を行った結果,月見草エキスはα-グルコシダーゼ阻害活性に基づく血糖値上昇抑制作用を有しており,その活性本体はPACであることが示唆された.
Conical Diffraction Based Super-resolution System for Fluorescence Microscopy: System Description and Demonstration visualizing Biological Objects (2013)

Extended abstract of a paper presented at Microscopy and Microanalysis 2013 in Indianapolis, Indiana, USA, August 4 – August 8, 2013.
Nitric oxide inhalations in bronchiolitis: A pilot, randomized, double‐blinded, controlled trial (2017)

Our study was unable to detect a difference in side effects using intermittent high-dose nitric-oxide inhalation or supportive treatment alone, in infants with moderate bronchiolitis. Preliminary efficacy outcomes are encouraging.
Neto Auxiliary Protein Interactions Regulate Kainate and NMDA Receptor Subunit Localization at Mossy Fiber–CA3 Pyramidal Cell Synapses (2014)

Neto1 and Neto2 auxiliary subunits coassemble with NMDA receptors (NMDARs) and kainate receptors (KARs) to modulate their function. In the hippocampus, Neto1 enhances the amplitude and prolongs the kinetics of KAR-mediated currents at mossy fiber (MF)-CA3 pyramidal cell synapses. However, whether Neto1 trafficks KARs to synapses or simply alters channel properties is unresolved. Therefore, postembedding electron microscopy was performed to investigate the localization of GluK2/3 subunits at MF-CA3 synapses in Neto-null mice. Postsynaptic GluK2/3 Immunogold labeling was substantially reduced in Neto-null mice compared with wild types. Moreover, spontaneous KAR-mediated synaptic currents and metabotropic KAR signaling were absent in CA3 pyramidal cells of Neto-null mice. A similar loss of ionotropic and metabotropic KAR function was observed in Neto1, but not Neto2, single knock-out mice, specifically implicating Neto1 in regulating CA3 pyramidal cell KAR localization and function. Additional controversy pertains to the role of Neto proteins in modulating synaptic NMDARs. While Immunogold labeling for GluN2A at MF-CA3 synapses was comparable between wild-type and Neto-null mice, labeling for postsynaptic GluN2B was robustly increased in Neto-null mice. Accordingly, NMDAR-mediated currents at MF-CA3 synapses exhibited increased sensitivity to a GluN2B-selective antagonist in Neto1 knockouts relative to wild types. Thus, despite preservation of the overall MF-CA3 synaptic NMDAR-mediated current, loss of Neto1 alters NMDAR subunit composition. These results confirm that Neto protein interactions regulate synaptic localization of KAR and NMDAR subunits at MF-CA3 synapses, with implications for both ionotropic and metabotropic glutamatergic recruitment of the CA3 network.