gebhart/patrepeval huggingface dataset:
Abstract 5094: OSBPL10 is Identified as a Novel Susceptible Gene for Peripheral Arterial Disease by Genome-Wide Association Study in Japan (2008)

As our society is rapidly aging, diabetes are widely spreading and the massive loss caused by peripheral arterial disease (PAD) is becoming a serious social issue. Neither the mechanism of the generation of PAD nor the determinant factors of its responsiveness to treatment is clear yet. To clarify the genetic basis of PAD, we have carried out genome-wide association study among the Japanese people. About 250,000 single-nucleotide polymorphisms (SNPs) out of each Japanese case-control sample were tested. According to the result of the first screening of 200 PAD cases and 1,600 controls, 4,000 out of 250,000 SNPs were found significantly associated. Then these 4,000 SNPs of 713 PAD cases and new 1600 controls were tried for the second screening, revealing 160 SNPs identified were significantly associated. For validation, we performed age and sex matched re-analysis and discarded false positive SNPs. As a result, several candidate genes that may affect PAD susceptibility were identified. Interestingly, the three SNPs (rs1902341, rs2168422, rs6779621) with the smallest P values (P=5.1×10 −6 , P=3.9×10 −5 , P=5.5×10 −6 , respectively) all located in the 5th intron of the oxysterol binding protein like 10 ( OSBPL10 ) gene. The result of the haplotype analysis of this gene based on the information from HapMap, a coding SNP (cSNP, rs2290532) belonging to the same linkage disequiliblium block as the three SNPs above were found in the neighboring 6th exon. For further investigation of the associations, we genotyped these 3 iSNPs and 1 cSNP out of the samples from public medical examinations (n=2,900). This analysis showed that the risk allele of this cSNP had significant correlation to both the high serum LDL cholesterol and total cholesterol level. The expression of human OSBPL10 was observed by the northern blot analysis. OSBPL10 is expressed in kidney, lung, heart (especially in aorta), placenta and spleen as well as in vascular EC and SMC. Overexpressed OSBPL10 is localized mainly in the endoplasmic reticulum. These results suggest that OSBPL10 may contribute to the regulation of cholesterol homeostasis in the vasculature system. In conclusion, our SNPs analysis indicates the possibility of OSBLP10 being associated with atherosclerosis or PAD.
Optically tunable optical filter (1995)

We experimentally demonstrate an optically tunable optical filter that uses photorefractive barium titanate. With our filter we implement a spectrum analyzer at 632.8 nm with a resolution of 1.2 nm. We simulate a wavelength-division multiplexing system by separating two semiconductor laser diodes, at 1560 nm and 1578 nm, with the same filter. The filter has a bandwidth of 6.9 nm. We also use the same filter to take 2.5-nm-wide slices out of a 20-nm-wide superluminescent diode centered at 840 nm. As a result, we experimentally demonstrate a phenomenal tuning range from 632.8 to 1578 nm with a single filtering device.
Total Synthesis of (±)-Vibsanin E (2009)

Vibsanin E (1), a structurally rare complex diterpene, consisting of a compact 3-oxatricyclo[6.3.2.05,10] tridecane core and an unprecedented 3,3-dimethylacroyl enol ester functional group, formulate a considerable synthetic challenge. Williams and Davies failed to independently synthesize this nemesis, however, a ‘two heads are better than one’ approach delivered the first total synthesis of the molecule, since its diamond aniversary isolation.
Supplementary Table 3 from Disruption of the MYC Superenhancer Complex by Dual Targeting of FLT3 and LSD1 in Acute Myeloid Leukemia (2023)

&lt;p&gt;Transcription Factor Enrichment Analysis of Differentially Downregulated Genes by The Drug Combination Previously Identified as Depleting Genes in a Genome-Wide CRISPR Dropout Screen&lt;/p&gt;
ChemInform Abstract: Enantioselective Synthesis of (R)‐ and (S)‐Cizolirtine; Application of Oxazaborolidine‐Catalyzed Asymmetric Borane Reduction to Azolyl Phenyl Ketones. (1999)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
A randomized, double-blind, placebo-controlled phase 2 trial of dendritic cell (DC) vaccination with ICT-107 in newly diagnosed glioblastoma (GBM) patients. (2014)

2005 Background: The trial investigated whether adding tumor-antigen-loaded DC vaccine to surgery and chemoradiation would improve overall survival (OS) or progression free survival (PFS). Methods: HLA-A1+ and/or -A2+ resected patients with residual tumor <1 cm3 received 6 weeks of concurrent temozolomide (TMZ) and radiation. 124 patients were randomized 2:1 to receive ICT-107 (autologous PBMC-derived DC pulsed with 6 synthetic peptide CTL epitopes targeting the GBM tumor and tumor stem cell-associated antigens MAGE-1, HER-2, AIM-2, TRP-2, gp100, and IL-13Rα2) or its matching control (unpulsed DC). Patients then received induction ICT-107 or control QWx4 followed by maintenance TMZ, 5 days/mo for 12 mos. Booster vaccinations occurred at 1, 3, and 6 mos after induction, and every 6 mos thereafter. The trial concluded and data were evaluated at 67 events. Results: ICT-107 was generally safe and well tolerated, with no imbalance in AEs between the treated and control groups. PFS improved by 2 mos in the ICT-107 ITT group (p=0.02 two-sided, hazard ratio (HR)=0.56). In the per-protocol (PP) group (117 patients receiving all 4 induction vaccinations), p=0.01 two-sided, HR=0.53, and the difference in median PFS increased to 3 mos. The median OS favored ICT-107 by 2 mos in the ITT and 3 mos in the PP groups. However, the number of events was small and OS did not reach statistical significance (p=0.58 two-sided, HR=0.87, and p=0.40 two-sided, HR=0.79, respectively). Median follow-up from randomization was 13.6 mos. In the ICT-107 group, vaccine activation markers IL12 and HLA-DR were predictive of OS (p-values < 0.05). There were no correlations in the placebo group. Conclusions: This is the first randomized, placebo-controlled immunotherapy trial in GBM to positively affect a clinical outcome, PFS. Although OS improvement was not statistically significant at the 67/124 event point, patients continue to be followed for OS, allowing periodic updating of the primary endpoint and assessment of long-term survival. Analysis of QOL, and correlation of both tumor antigen expression and vaccine immunologic response with OS are in process.
Thymidylate synthesis and utilization via the de novo pathway in normal and megaloblastic human bone marrow cells (1989)

We have measured the thymidylate synthetase activity of intact bone marrow cells using a 3H2O release assay. The mean thymidylate synthetase activity of vitamin B12- or folate-deficient megaloblastic marrow cells was reduced only in severely anaemic patients. There was a correlation between thymidylate synthetase activity and RBC in patients with megaloblastic haemopoiesis. The mean rate of incorporation into DNA of 6-3H deoxyuridine was similar in megaloblastic and normoblastic marrows. The rate of thymidylate synthesis exceeded its incorporation into DNA in all marrows, and the mean ratio between synthesis and incorporation was similar in normoblastic and megaloblastic patients, being independent of both thymidylate synthetase activity and RBC. Thus de novo thymine nucleotides were not utilized more efficiently in megaloblastic marrow cells. These data suggest that impaired thymidylate synthesis may not be the central defect in megaloblastic haemopoiesis, and that there is only a single pool of thymidine triphosphate in human bone marrow cells.
Chronic within-hive video recordings detect altered nursing behaviour and retarded larval development of neonicotinoid treated honey bees (2020)

Risk evaluations for agricultural chemicals are necessary to preserve healthy populations of honey bee colonies. Field studies on whole colonies are limited in behavioural research, while results from lab studies allow only restricted conclusions on whole colony impacts. Methods for automated long-term investigations of behaviours within comb cells, such as brood care, were hitherto missing. In the present study, we demonstrate an innovative video method that enables within-cell analysis in honey bee (Apis mellifera) observation hives to detect chronic sublethal neonicotinoid effects of clothianidin (1 and 10 ppb) and thiacloprid (200 ppb) on worker behaviour and development. In May and June, colonies which were fed 10 ppb clothianidin and 200 ppb thiacloprid in syrup over three weeks showed reduced feeding visits and duration throughout various larval development days (LDDs). On LDD 6 (capping day) total feeding duration did not differ between treatments. Behavioural adaptation was exhibited by nurses in the treatment groups in response to retarded larval development by increasing the overall feeding timespan. Using our machine learning algorithm, we demonstrate a novel method for detecting behaviours in an intact hive that can be applied in a versatile manner to conduct impact analyses of chemicals, pests and other stressors.
MORPHOGENIC PATTERNS OF PLANTS MICROPROPAGATED IN LIQUID MEDIUM IN SHAKEN FLASKS OR LARGE-SCALE BIOREACTOR CULTURES (2013)

ABSTRACT Plant propagation in vitro through axillary and/or adventitious buds is at present labor intensive, which contributes to the high cost of plant production. Liquid cultures used to scale up mass propagation often affect adversely shoot morphogenesis. Abnormal shoot morphogenesis due to continuous submergence and vigorous aeration in the liquid medium results in vitreous shoots which poorly survive transplanting ex vitro. Nephrolepis, Philodendron, and Gladiolus bud explants were cultured in liquid medium in shaken cultures or bioreactors. Ferns propagated in liquid medium in shaken cultures produced meristemoid clusters, while leafy shoots developed in agar. In bioreactors the biomass was two to three times higher than in shaken cultures. Meristemoid clusters separated and inoculated to pretransplanting hardening agar medium developed normal shoots. In Gladiolus, shoot morphogenesis was controlled by the use of growth retardants, which also enhanced bud and protocorm production. In the presence of...
Precise Tuning of Polymeric Fiber Dimensions to Enhance the Mechanical Properties of Alginate Hydrogel Matrices (2021)

Hydrogels based on biopolymers, such as alginate, are commonly used as scaffolds in tissue engineering applications as they mimic the features of the native extracellular matrix (ECM). However, in their native state, they suffer from drawbacks including poor mechanical performance and a lack of biological functionalities. Herein, we have exploited a crystallization-driven self-assembly (CDSA) methodology to prepare well-defined one-dimensional micellar structures with controlled lengths to act as a mimic of fibrillar collagen in native ECM and improve the mechanical strength of alginate-based hydrogels. Poly(ε-caprolactone)-<i>b</i>-poly(methyl methacrylate)-<i>b</i>-poly(<i>N, N</i>-dimethyl acrylamide) triblock copolymers were self-assembled into 1D cylindrical micelles with precise lengths using CDSA epitaxial growth and subsequently combined with calcium alginate hydrogel networks to obtain nanocomposites. Rheological characterization determined that the inclusion of the cylindrical structures within the hydrogel network increased the strength of the hydrogel under shear. Furthermore, the strain at flow point of the alginate-based hydrogel was found to increase with nanoparticle content, reaching an improvement of 37% when loaded with 500 nm cylindrical micelles. Overall, this study has demonstrated that one-dimensional cylindrical nanoparticles with controlled lengths formed through CDSA are promising fibrillar collagen mimics to build ECM scaffold models, allowing exploration of the relationship between collagen fiber size and matrix mechanical properties.
Radiation Sources (2017)

Neutrons are used as radiation source for structural investigations in a large number of different scattering instruments. The Uranium-235 nucleus has a high fission cross-section for thermal neutrons, thus it breaks into lighter elements and liberates two to three neutrons for every fissioned nucleus. All the small-angle neutron scattering (SANS) instruments and reflectometers share a similar forward focusing scattering geometry, and accordingly the structural sizes they investigate are also similar. When performing grazing incidence experiments (GISANS) on a SANS machine, the distinction between these types of instruments vanishes. Investigating the movements of atoms on a time scale from pico- to microseconds is the domain of neutron spectroscopy. The bandwidth is wide enough to cover the measurement of excitation energies on three-axes instruments and time-of-flight spectrometers through to the measuring of slow, sometimes diffusive motion using high-resolution methods such as backscattering or spin-echo.
Polymerization of ε-Caprolactone Initiated by Y Alkoxide Grafted onto Porous Silica (2003)

peer reviewed
A Corpus for Computational Research of Turkish Makam Music (2014)

Each music tradition has its own characteristics in terms of melodic, rhythmic and timbral properties as well as semantic understandings. To analyse, discover and explore these culture-specific characteristics, we need music collections which are representative of the studied aspects of the music tradition. For Turkish makam music, there are various resources available such as audio recordings, music scores, lyrics and editorial metadata. However, most of these resources are not typically suited for computational analysis, are hard to access, do not have sufficient quality or do not include adequate descriptive information. In this paper we present a corpus of Turkish makam music created within the scope of the CompMusic project. The corpus is intended for computational research and the primary considerations during the creation of the corpus reflect some criteria, namely, purpose, coverage, completeness, quality and re-usability. So far, we have gathered approximately 6000 audio recordings, 2200 music scores with lyrics and 27000 instances of editorial metadata related to Turkish makam music. The metadata include information about makams, recordings, scores, compositions, artists etc. as well as the interrelations between them. In this paper, we also present several test datasets of Turkish makam music. Test datasets contain manual annotations by experts and they provide ground truth for specific computational tasks to test, calibrate and improve the research tools. We hope that this research corpus and the test datasets will facilitate academic studies in several fields such as music information retrieval and computational musicology.
Design and commissioning of a 2.5 MWh battery energy storage system (1997)

Momentary and sustained power interruptions are one of the most difficult and important power quality problems facing many industrial and commercial users. A particularly challenging problem is the need to supply an economical, dependable, efficient and controllable source of real and reactive power, which is available instantly to support a large (>1.0 MW) load, if the electric utility connection is lost. Battery energy storage systems (BESS) have the potential to provide versatile solutions to this problem for utility, industrial and commercial applications. This paper describes the design and installation a 5 MW peak, 2.5 MWh BESS which is now in commercial operation at the BNG Battery Recycling Facility in Vernon, California, USA. Results of commissioning tests are discussed. The BESS at Vernon provides the required power combined with both voltage and frequency control necessary to allow the Vernon facility to tolerate disconnection from the electric utility grid without suffering unacceptable impacts on critical loads.
Characteristics of carbon flat commutator for high-inductance dc motor driving automotive fuel pump (2005)

Many small motors are used in automobiles. In an automotive fuel pump system, a small DC motor is widely used to drive the pump. The motor is installed in a gasoline tank, so that the coil current is commutated in gasoline, and arc voltage and duration differ from those in air. In this research, the authors use carbon brush and carbon flat commutator, and investigate relationship between surface morphology of commutator and commutation waveform. Under high inductance and large commutation current, effective commutation interval becomes very short, because black parts damaged by arcing on the commutator invade from the edge of segments. Then, effective commutation interval becomes very short, and arc duration and residual current increase rapidly. Observing surfaces of tested commutator by a laser microscope, the depth of arcing part maybe becomes larger with operations. Commutator and brush lifetimes are short with large commutation current, but the process of wear is similar to the result at small commutation current. Then, relationship between arc duration and surface morphology of commutator is investigated by a laser microscopy. The results show that arc duration affects both width and depth of black parts damaged by arcing.
Isolation and characterization of a pea pod cDNA encoding a putative blue copper protein correlated with lignin deposition (1994)

Journal Article Isolation and characterization of a pea pod cDNA encoding a putative blue copper protein correlated with lignin deposition Get access J.E. Drew, J.E. Drew 1 Plant Molecular Biology Group, Department of Biological Sciences, University of Durham, Science LaboratoriesSouth Road, Durham DH13LE, UK 1 To whom correspondence should be addressed. Fax: +44 91 374 2417. Search for other works by this author on: Oxford Academic PubMed Google Scholar J.A. Gatehouse J.A. Gatehouse Plant Molecular Biology Group, Department of Biological Sciences, University of Durham, Science LaboratoriesSouth Road, Durham DH13LE, UK Search for other works by this author on: Oxford Academic PubMed Google Scholar Journal of Experimental Botany, Volume 45, Issue 12, December 1994, Pages 1873–1884, https://doi.org/10.1093/jxb/45.12.1873 Published: 01 December 1994 Article history Received: 15 June 1994 Accepted: 31 August 1994 Published: 01 December 1994
Electrical conduction and magnetic moment of a biased double-wire system (2003)

We analyze electron transport and magnetic response of a semiconductor double-wire system in the case when the wires are connected to leads in series, with tunnel coupling between them. Explicit analytical expressions for the lead-to-lead current and the average magnetic moment induced by an applied magnetic field are obtained. We show that at low temperature the magnetic response of such a system can be either diamagnetic or paramagnetic depending on the applied bias and the equilibrium chemical potential of the leads.
The use of proteomics to identify novel therapeutic targets for the treatment of disease (2007)

The completion of the Human Genome Project has revealed a multitude of potential avenues for the identification of therapeutic targets. Extensive sequence information enables the identification of novel genes but does not facilitate a thorough understanding of how changes in gene expression control the molecular mechanisms underlying the development and regulation of a cell or the progression of disease. Proteomics encompasses the study of proteins expressed by a population of cells, and evaluates changes in protein expression, post-translational modifications, protein interactions, protein structure and splice variants, all of which are imperative for a complete understanding of protein function within the cell. From the outset, proteomics has been used to compare the protein profiles of cells in healthy and diseased states and as such can be used to identify proteins associated with disease development and progression. These candidate proteins might provide novel targets for new therapeutic agents or aid the development of assays for disease biomarkers. This review provides an overview of the current proteomic techniques available and focuses on their application in the search for novel therapeutic targets for the treatment of disease.
Fabrication of TlBr strip detectors (2009)

TlBr strip detectors with four anode strip electrodes were fabricated in this study. The strip electrodes were formed on TlBr wafers 1 mm thick with a vacuum evaporation process through a shadow mask. Each strip had a width of 0.8 mm and a length of 3.5 mm approximately. The gap between the strips was approximately 0.1 mm. Inter strip resistance more than 1 G&Omega; was obtained with the process. Energy resolutions of 7.0% and 3.8% FWHM were recorded for 511 keV and 1.33 MeV gamma-rays, respectively, with the TlBr strip detector at room temperature.
Extending the duration of response in chronic myelogenous leukemia: targeted therapy with sequential tyrosine kinase inhibitors (2011)

Tyrosine kinase inhibitors (TKIs) are the mainstay for treatment of chronic myelogenous leukemia (CML). Imatinib was the first TKI approved for use in CML, but resistance to this therapy has emerged as a significant issue, and second-line options are often necessary. Increased-dose imatinib may elicit responses in some patients, but clinical evidence suggests only a minority experience sustained benefit. The second-generation TKIs, dasatinib and nilotinib, have demonstrated efficacy in patients resistant or intolerant to imatinib. Changes in therapy, with the aim of inducing durable response, should occur promptly after imatinib failure is identified as all agents are more effective in chronic phase disease than in later stages. Selection of second-line agents should be driven by efficacy and safety: dasatinib may be more effective in patients with P-loop or F359C mutations; nilotinib may be more effective in those with F317L mutations.
Modified Magrath Regimens for Adults with Burkitt and Burkitt-Like Lymphomas: Preserved Efficacy with Decreased Toxicity (2003)

Burkitt and Burkitt-like lymphomas are rapidly growing tumors which require specialized therapy. Although intensive, multi-agent regimens have been effective in children, results are more variable in adults. Magrath et al. previously described a regimen that was highly effective in children and young adults. This phase II study of a modified Magrath regimen was designed to assess its efficacy in older adults and reduce treatment-related toxicity. Fourteen patients with Burkitt/Burkitt-like lymphoma and median age of 47 years were stratified into two categories: low-risk (normal LDH and a single focus of disease measuring less than 10 cm, 3 patients) and high risk (all other, 11 patients). Low-risk patients received three cycles of modified CODOX-M (cyclophosphamide, doxorubicin, adriamycin, vincristine with intrathecal methotrexate and cytarabine followed by high-dose systemic methotrexate, regimen A). High-risk patients received four alternating cycles of regimens A and B (A-B-A-B). Regimen B consisted of ifosfamide, cytarabine, etoposide and intrathecal methotrexate (IVAC). The modified treatment regimen was associated with no grade 3/4 neuropathy and only one episode of grade 3/4 mucositis. All patients completed protocol therapy and there were no treatment-related deaths. Twelve patients (86%, 90% CI: 61 97%) achieved a complete response; 1 patient achieved a PR and 1 patient died of progressive disease. Nine patients (64%) are alive and disease free at a median follow-up of 29 months. This modified Magrath regimen is effective and well-tolerated in a representative group of older adult patients.
Clinical studies on intra-abdominal hypertension and abdominal compartment syndrome (2013)

Atema, Jasper J. MD; van Buijtenen, Jesse M. MD; Lamme, Bas MD, PhD; Boermeester, Marja A. MD, PhD Author Information