gebhart/patrepeval huggingface dataset:
Mutated mitogen-activated protein kinase: A tumor rejection antigen of mouse sarcoma (1997)

The molecular basis of the polymorphic tumor rejection antigens of chemically induced sarcomas of inbred mice remains a mystery, despite the discovery of these antigens over 40 years ago and their critical importance to the foundation of tumor immunology. In an analysis of a panel of BALB/c 3-methylcholanthrene-induced tumors, we identified one tumor, CMS5, that elicited a strong cytotoxic T cell response with exquisite specificity for CMS5. A stable cloned line of T cells with this specificity (C18) was used to screen a CMS5 cDNA expression library. The gene encoding the C18-defined antigen was identified as a mutated form of a mouse mitogen-activated protein kinase, ERK2, and a peptide incorporating the resulting amino acid substitution (lysine to glutamine) was efficiently recognized by C18. Vaccination with this peptide elicited specific resistance to CMS5 challenge. Extensive efforts to isolate antigen-loss variants of CMS5 were unsuccessful, suggesting that the mutated mitogen-activated protein kinase is essential for maintenance of the malignant phenotype.
The International Society for Sexual Medicine's Process of Care for the Assessment and Management of Testosterone Deficiency in Adult Men (2015)

Development of a process of care is an evolutionary process that continually reviews data and incorporates the best new research. We expect that ongoing research will lead to new insights into the pathophysiology of TD, as well as new, efficacious and safe treatments. We recommend that this process of care be reevaluated and updated by the ISSM in 4 years.
Comparative Study of 2 Commissural Dorsal Flap Techniques for the Treatment of Congenital Syndactyly (2013)

Level III.
Systolic ShMOLLI T1-mapping is feasible in tachyarrhythmia, with improved image quality compared to diastolic readout (2015)

Background T1-mapping using the Shortened Modified Look-Locker Inversion Recovery (ShMOLLI) technique [1] enables assessment of myocardial characteristics, such as oedema, scar and diffuse fibrosis. However, cardiac pathology is often accompanied by tachyarrhythmia, which may cause mistriggering and inaccurate T1 estimation. We hypothesised that systolic T1-mapping may overcome this issue without significantly affecting T1 values or data quality compared to conventional diastolic T1-mapping.
Novel cobalt zinc oxide Fischer–Tropsch catalysts synthesised using supercritical anti-solvent precipitation (2014)

Cobalt zinc oxide catalysts have been prepared by anti-solvent precipitation in supercritical CO<sub>2</sub> and investigated for CO hydrogenation.
Investigation of abrasive saw kickback (2020)

Saw kickback can cause fatal injuries, but only woodcutting saws have regulations and assessment methodologies for kickback. These regulations do not apply to abrasive cutting saws, as their cutting mechanism and dominant kickback mode differ from those of woodcutting saws. This work combines theoretical and experimental tools to investigate abrasive saw kickback. A theoretical model based on frictional engagement during a pinch-based kickback event is shown to predict resultant kickback energy in good agreement with experimental measurements. These measurements were obtained using a specialized machine that generates pinch-based kickback events and measures resultant kickback energy. Upon validating the model, two representative saws, a circular cutoff saw and a chainsaw, were tested using the prototype machine to evaluate their comparative kickback risk. This work demonstrates that pinch-based kickback is a potential safety risk for abrasive cutting saw operators and provides a testing machine design and analytical framework for evaluating this risk.
Evolution of EDGE to higher data rates using QAM (2002)

EDGE has enabled GSM networks to offer third generation services as part of the UMTS core network. This has been possible through two steps: the introduction of 8PSK modulation and the specification of interfaces from the GERAN (GSM/EDGE radio access network) to the UMTS core network. This paper studies further improvements to spectral efficiency and capacity for EDGE through the use of more sophisticated adaptive modulation schemes, and the use of newer coding schemes (see Nanda, S. et al., IEEE Commun. Mag., p.54-64, 2000; Ikeda, T. et al., IEEE Trans. Vehic. Tech., vol.49, p.404-12, 2000). It is possible to use theoretical predictions of outage analysis to predict the gain in performance due to the use of higher order modulations.
Can Immune Thrombocytopenia Be Cured with Medical Therapy? (2015)

Primary immune thrombocytopenia (ITP) in adults often assumes a chronic course that requires persistent monitoring and treatment. Medical therapy has traditionally been viewed as a means of temporarily raising the platelet count with little or no potential to induce long-term platelet responses off treatment. However, several recent studies have tested the hypothesis that intensive medical therapy administered early in the disease course may ameliorate or even cure ITP. In this review, we propose a biological rationale for medical intervention that simultaneously targets the innate and adaptive immune responses administered early in the course of disease. We also critically examine data on long-term outcomes after single-agent and multi-agent medical therapy. Intensive regimens that target inflammation and adaptive immunity (e.g., combination high-dose dexamethasone and rituximab) appear to improve response rates at 6 to 12 months compared with standard first-line therapy (e.g., prednisone, high-dose dexamethasone alone) in newly diagnosed patients. Controlled trials with extended follow-up are needed to determine whether these intensive regimens induce more cures compared with standard treatment or merely delay relapse at the expense of potentially greater toxicity.
Erratum: “Annealing-time dependence in interfacial reaction between poly-Si electrode and HfO2∕Si gate stack studied by synchrotron radiation photoemission and x-ray absorption spectroscopy” [Appl. Phys. Lett. 89, 012102 (2006)] (2006)

Atomic layer deposited HfO 2
Plasmonic activation of gold nanorods for remote stimulation of calcium signaling and protein expression in HEK 293T cells (2016)

Remote activation of specific cells of a heterogeneous population can provide a useful research tool for clinical and therapeutic applications. Here, we demonstrate that photostimulation of gold nanorods (AuNRs) using a tunable near-infrared (NIR) laser at specific longitudinal surface plasmon resonance wavelengths can induce the selective and temporal internalization of calcium in HEK 293T cells. Biotin-PEG-Au nanorods coated with streptavidin Alexa Fluor-633 and biotinylated anti-His antibodies were used to decorate cells genetically modified with His-tagged TRPV1 temperature-sensitive ion channel and AuNRs conjugated to biotinylated RGD peptide were used to decorate integrins in unmodified cells. Plasmonic activation can be stimulated at weak laser power (0.7-4.0 W/cm(2) ) without causing cell damage. Selective activation of TRPV1 channels could be controlled by laser power between 1.0 and 1.5 W/cm(2) . Integrin targeting robustly stimulated calcium signaling due to a dense cellular distribution of nanoparticles. Such an approach represents a functional tool for combinatorial activation of cell signaling in heterogeneous cell populations. Our results suggest that it is possible to induce cell activation via NIR-induced gold nanorod heating through the selective targeting of membrane proteins in unmodified cells to produce calcium signaling and downstream expression of specific genes with significant relevance for both in vitro and therapeutic applications. Biotechnol. Bioeng. 2016;113: 2228-2240. © 2016 Wiley Periodicals, Inc.
Effects of physical properties of the skull on high intensity focused ultrasound for transcranial sonothrombolysis (2011)

The use of high intensity focused ultrasound (HIFU) in transcranial sonothrombolysis is emerging as a promising therapeutic intervention after stroke. Of interest in the present study is the evolution of the wave from transducer to focus, with special attention to two aspects. One is the attenuation of the wave before it reaches the focus, the other is the scattering of the wave at tissue interfaces leading to alteration of the focus. A code developed for tissue ablation (Kohei Okita, Kenji Ono, Shu Takagi, and Yoichiro Matsumoto, Int. J. Numer. Methods Fluids 65:43–66 (2011)), has been modified to study the effect of the physical properties of the skull on the focusing of the HIFU waves. Phase delay of the array transducer is employed to focus the waves. A basic model illustrative of the calvaria of the skull has been used as only the physical properties of the bone are of interest here. Microbubble cavitation has been shown to enhance sonothrombolysis; hence, the altered wave is examined from the point of view of the bubble dynamics it engenders.
Modeling node capture attacks in wireless sensor networks (2008)

We formalize a model for node capture attacks in which an adversary collects information about the network via eavesdropping on the wireless medium and captures nodes based on the learned information. We show that attacks in this adversary model correspond to NP-hard optimization problems and discuss the behavior of a reasonable heuristic algorithm. We show that the goals of node capture attacks can be decomposed into a collection of primitive events, the impact of which can be evaluated and recombined to yield an overall evaluation of the attack. We demonstrate the use of the attack decomposition model for derivation of attack metrics and discuss the potential use of this decomposition technique for the purposes of defense against node capture attacks.
Automated Left Ventricular Capture Management (2007)

This study demonstrated that the LVCM algorithm is safe, accurate, and highly reliable. LVCM worked with different types of leads and different lead locations. LVCM was demonstrated to be clinically equivalent to the manual LV threshold test. LVCM offers automatic measurement, output adaptation, and trends of the LV threshold and should result in improved ability to maintain LV capture without sacrificing device longevity.
On the separation of lossy source-network coding and channel coding in wireline networks (2010)

This paper proves the separation between source-network coding and channel coding in networks of noisy, discrete, memoryless channels. We show that the set of achievable distortion matrices in delivering a family of dependent sources across such a network equals the set of achievable distortion matrices for delivering the same sources across a distinct network which is built by replacing each channel by a noiseless, point-to-point bit-pipe of the corresponding capacity. Thus a code that applies source-network coding across links that are made almost lossless through the application of independent channel coding across each link asymptotically achieves the optimal performance across the network as a whole.
Unsupervised Adaptation With Discriminative Mapping Transforms (2009)

<para xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"> The most commonly used approaches to speaker adaptation are based on linear transforms, as these can be robustly estimated using limited adaptation data. Although significant gains can be obtained using discriminative criteria for training acoustic models, maximum-likelihood (ML) estimated transforms are still used for unsupervised adaptation. This is because discriminatively trained transforms are highly sensitive to errors in the adaptation supervision hypothesis. This paper describes a new framework for estimating transforms that are discriminative in nature, but are less sensitive to this hypothesis issue. A speaker-independent discriminative mapping transformation (DMT) is estimated during training. This transform is obtained after a speaker-specific ML-estimated transform of each training speaker has been applied. During recognition an ML speaker-specific transform is found for each test-set speaker and the speaker-independent DMT then applied. This allows a transform which is discriminative in nature to be indirectly estimated, while only requiring an ML speaker-specific transform to be found during recognition. The DMT technique is evaluated on an English conversational telephone speech task. Experiments showed that using DMT in unsupervised adaptation led to significant gains over both standard ML and discriminatively trained transforms. </para>
Supplementary Data from Epigenetic Reprogramming with Antisense Oligonucleotides Enhances the Effectiveness of Androgen Receptor Inhibition in Castration-Resistant Prostate Cancer (2023)

&lt;p&gt;Supplementary information with additional materials and methods, references, and the legends for all supplementary figures.&lt;/p&gt;
Palonosetron Uniquely Inhibits Substance P-Mediated Neuronal Responses in Rat Nodose Ganglia. (2009)

Abstract Abstract 4826 Introduction Clinical studies have shown that palonosetron is more effective than first generation 5-HT3 receptor antagonists (5HT3RAs) for preventing chemotherapy induced nausea and vomiting (CINV). In addition, NK-1 receptor antagonists have been shown to augment the the antiemetic activity of the 5HT3RAs and dexamethasone to inhibit CINV. While palonosetron is effective in preventing delayed CINV, it does not directly bind to the NK-1 receptor. Recent data, however, has revealed significant receptor “cross-talk” between the NK-1 and 5HT3 signaling pathways. Alteration of 5HT3 receptor activity has been shown to cause downstream effects on NK-1 signaling, and vice versa. We postulated that if palonosetron differentially inhibited the NK-1/5HT3 crosstalk, this could help explain the differences observed in the clinic. Methods We carried out in vivo electrophysiology experiments in rats where single neuronal recordings of nodose ganglia expressing both NK-1 and 5HT3 receptors were collected. Results First, we showed that neuronal responses to substance P (SP), a known non-selective agonist of the NK-1 receptor, were significantly enhanced in the presence of cisplatin. Second, we found that palonosetron, but not ondansetron or granisetron (1st generation 5HT3RAs), could dose-dependently inhibit the cisplatin-induced SP enhancement. This inhibition was observed when palonosetron was administered 30 minutes before or 5 or 10 h after cisplatin administration. Conclusion The results are consistent with previous mechanism of action (MOA) experiments indicating that palonosetron uniquely exhibits allosteric binding, positive cooperativity and receptor internalization at the 5HT3 receptor. Taken together, the MOA studies may help explain the unique results observed with palonosetron in the clinic. Disclosures Li: Eisai, Inc: Research Funding. Wu:Eisai: Research Funding. Rojas:Eisai, Inc: Employment. Cantoreggi:Helsinn Healthcare: Employment. Sebastiani:Helsinn Healthcare: Employment. Slusher:Eisai, Inc: Employment.
University approach for circuit breaker development (2009)

Activities in the university were described for a circuit breaker development. To make experimental facilities minimized several new approaches were adopted. A accurate model investigation was focused in a transient analysis. A MEMS sensor application was aimed for a diagnosis. A small scale facility made an arcing phenomenon research possible. A new material application was achieved successfully.
Abstract 1086: The role of HEF1 protein in stabilization and activation of AurA kinase in metastatic breast cancer (2010)

Abstract AurA kinase expression is linked to human disease since the extent of AurA up-regulation was significantly associated with advanced tumor stage and the occurrence of metastasis. AurA inhibitors have recently entered phase II clinical trials for cancer treatment, but application of these inhibitors for treatment of advanced human cancers has demonstrated limited efficacy. The reasons why potent in vitro inhibitors of AurA are inefficient under these conditions are unknown. In our current study, we define the mechanisms by which AurA is upregulated in breast tumor cells and what impact HEF1 expression has on AurA-associated occurrence of metastasis. Our hypothesis is that over-expression of HEF1 protein in breast cancer cells will protect AurA from proteolytic degradation, resulting in activation of AurA kinase. Here we demonstrate that direct binding of HEF1 stabilizes AurA by blocking the cdh1 binding site and limiting AurA ubiquitination. HEF1 binding decreases the efficacy of AurA inhibitors in cell culture. Deletion of HEF1 by gene knockout and depletion by siRNA in cell lines cause dramatic decreases in AurA protein level and kinase activity - indicating HEF1 is the major AurA regulator in vivo. We further show that deletion of HEF1 reduces tumor cell proliferation and invasion in mouse mammary tumor models. These data provide insights into the potential development of small molecule inhibitors that could be used therapeutically to target the HEF1/AurA pathway and thereby inhibit tumor formation. Citation Format: {Authors}. {Abstract title} [abstract]. In: Proceedings of the 101st Annual Meeting of the American Association for Cancer Research; 2010 Apr 17-21; Washington, DC. Philadelphia (PA): AACR; Cancer Res 2010;70(8 Suppl):Abstract nr 1086.
Abstract 2: Effect of a Decision Aid on Patient Knowledge, Patient Satisfaction, Safety, and Resource Use in Emergency Department Patients Presenting with Chest Pain: A Randomized Trial (2011)

Objectives: Patient involvement in the choice of whether to undergo emergency department observation unit (EDOU) admission and cardiac stress testing or follow-up with a physician could increase knowledge, increase satisfaction, and safely decrease resource use. We test this hypothesis in a randomized trial. Methods: We developed and tested Chest Pain Choice, a decision aid that communicates the pre-test probability of an acute coronary syndrome (ACS) within 45 days and makes management options (EDOU admission and stress testing or 24-72 hr follow-up with a physician) explicit to the patient. Patients with a primary complaint of chest pain and no known coronary artery disease who were being considered for EDOU admission were eligible. Patient-clinician pairs were randomized to intervention (decision aid plus risk estimate) or usual care (no decision aid, no risk estimate). We used patient surveys and 30-day phone follow-up to assess the primary outcome (patient knowledge regarding their short-term risk for ACS), patient satisfaction, safety (delayed or missed ACS defined as acute myocardial infarction, ventricular arrhythmia, cardiogenic shock, or cardiac/unknown death), and resource use. Analysis was by intention to treat. Results: The 205 patients had the following characteristics: mean age (SD) 54.7 (11.8), 59% female, 36% history of HTN and 10% history of diabetes. Compared with usual care patients (n=104), patients receiving the decision aid (n=101) less frequently decided to be admitted to the EDOU for cardiac stress testing (58% vs 77%, absolute difference = 19%, 95% CI 6, 31), had a lower rate of stress testing (74% vs 90%, absolute difference = 16%, 95% CI 6, 26), greater knowledge of their exact pre-test probability of ACS (25% vs 1%, absolute difference = 24%, 95% CI 15, 33) and reported greater satisfaction with the decision-making process (strongly agree: 61% vs 40%, absolute difference = 21%, 95% CI 7, 33). There were no cases of delayed or missed ACS in either arm. Conclusion: Use of a decision aid in ED chest pain patients increased knowledge, increased satisfaction, and safely decreased resource use. In an era of health care reform, shared decision-making is a promising approach that may both increase patient engagement and decrease resource use.Funding(This research has received full or partial funding support from the American Heart Association, National Center)
Dry development rinse process for ultimate resolution improvement via pattern collapse mitigation (2015)

Pattern collapse currently limits the achievable resolution of the highest resolving EUV photoresists available. The causes of pattern collapse include the surface tension of the rinse liquid and the shrinkage of the resist pattern during the drying step. If these collapse mechanisms can be successfully mitigated with process approaches that do not require changes to the resist itself, the ultimate resolution of existing EUV resists can be improved. Described here is a dry development rinse process, applicable to existing EUV photoresists, which prevents pattern collapse to both improve ultimate resolution and the process window of currently resolvable features. Reducing the burden of collapse prevention on the resist also allows improvements in line width roughness (LWR) and cross section profile and provides additional degrees of freedom for future resist design.
Molecular Mechanisms of Bipolar Disorder: Progress Made and Future Challenges (2017)

Bipolar disorder (BD) is a chronic and progressive psychiatric illness characterized by mood oscillations, with episodes of mania and depression. The impact of BD on patients can be devastating, with up to 15% of patients committing suicide. This disorder is associated with psychiatric and medical comorbidities and patients with a high risk of drug abuse, metabolic and endocrine disorders and vascular disease. Current knowledge of the pathophysiology and molecular mechanisms causing BD is still modest. With no clear biological markers available, early diagnosis is a great challenge to clinicians without previous knowledge of the longitudinal progress of illness. Moreover, despite recommendations from evidence-based guidelines, polypharmacy is still common in clinical treatment of BD, reflecting the gap between research and clinical practice. A major challenge in BD is the development of effective drugs with low toxicity for the patients. In this review article, we focus on the progress made and future challenges we face in determining the pathophysiology and molecular pathways involved in BD, such as circadian and metabolic perturbations, mitochondrial and endoplasmic reticulum (ER) dysfunction, autophagy and glutamatergic neurotransmission; which may lead to the development of new drugs.
Probing Electron Excitation Characters of Carboline-Based Bis-Tridentate Ir(III) Complexes (2021)

In this work, we report a series of bis-tridentate Ir(III) metal complexes, comprising a dianionic pyrazole-pyridine-phenyl tridentate chelate and a monoanionic chelate bearing a peripheral carbene and carboline coordination fragment that is linked to the central phenyl group. All these Ir(III) complexes were synthesized with an efficient one-pot and two-step method, and their emission hue was fine-tuned by variation of the substituent at the central coordination entity (i.e., pyridinyl and phenyl group) of each of the tridentate chelates. Their photophysical and electrochemical properties, thermal stabilities and electroluminescence performances are examined and discussed comprehensively. The doped devices based on [Ir(cbF)(phyz1)] (<b>Cb1</b>) and [Ir(cbB)(phyz1)] (<b>Cb4</b>) give a maximum external quantum efficiency (current efficiency) of 16.6% (55.2 cd/A) and 13.9% (43.8 cd/A), respectively. The relatively high electroluminescence efficiencies indicate that bis-tridentate Ir(III) complexes are promising candidates for OLED applications.