gebhart/patrepeval huggingface dataset:
Assessment of allograft performance in vivo using electromechanical properties of articular cartilage (2016)

Purpose: Clinical outcome of osteochondral allograft transplantation (OAT) depends on allograft quality. There is a lack of rapid and reliable non-destructive methods for intraoperative evaluation of repaired cartilage. Measurement of cartilage electromechanical properties offers novel possibilities to monitor cartilage healing after OAT. The purpose of our study was to evaluate in vivo performance of fresh and stored allografts and determine whether allograft electromechanical properties have relationship with macroscopic and histological findings after OAT. Methods and Materials: Osteochondral transplantation using autologous (AT, n=9), allogeneic fresh (AF, n=7) and allogeneic preserved (AP, n=13) osteochondral grafts stored for 14 days in DMEM at 4°C was performed in 5-6 month-old Saanen goats. Empty non-treated defects were used as control (CT). The electromechanical quantitative parameter (QP) of repaired cartilage was evaluated with Arthro-BSTTM device after 3 and 6 month along with macroscopic (Oswestry Arthroscopy Score) and histological (O'Driscoll grading score) evaluation. The results were compared between different transplantation groups and correlations among different evaluation methods were determined using Spearman's correlation coefficient. Results: No significant difference of electromechanical QP, OAS and O'Driscoll scores was observed between different transplantation groups after 3 month. After 6 month there was no difference between QP and OAS values, but the O'Driscoll histological score in AT and AF groups was significantly higher compared to AP group. The results in the control group were much worse compared to any treatment group at any time. The electromechanical QP correlated with the OAS (r = -0.655, p<0.001) and O'Driscoll histological grading score (r = -0.545, p<0.001). Conclusion: Measurement of cartilage electromechanical properties enables non-destructive assessment of osteochondr
AlMe3-Promoted Formation of Amides from Acids and Amines (2011)

In the presence of AlMe(3), amines can be directly coupled with acids through dimethylaluminum amide intermediates to form the corresponding amides. A wide range of amines and acids including less nucleophilic amines, bulky amines, unprotected secondary amino acids, and acids with poor solubility were coupled smoothly to give the desired products in 55-98% yields.
Licence-aware management of virtual machines (2011)

When managing dynamic virtual environments, a consideration that is often overlooked is that of licences. This consideration is particularly important when the environment contains expensive enterprise software with complex licensing terms: if the management system does not understand those terms, it is very likely that too many licences will be used, placing the administrator in an awkward position with the software vendors. We describe a licence management technique integrated with an existing virtual machine management system, and demonstrate its ability to adhere to a variety of licence rules. We also describe two sets of licence rules in sufficient detail to motivate the design and implementation of the system. We evaluate our technique through simulation.
Paget's Disease of Bone in The Netherlands: A Population-Based Radiological and Biochemical Survey—The Rotterdam Study (2004)

PDB was diagnosed in 20.5% of subjects with elevated serum ALP activity and in 2.3% in those with normal serum ALP activity, increasing with age in both groups. The relative risk (RR) for PDB in the presence of raised serum ALP activity was 10.9 (95% CI, 4.8, 24.9). The estimated prevalence of PDB in the population was 3.6%, and the large majority (about 86%) had normal serum ALP activity, contrasting findings in bone clinics where the opposite is the case. Finally, in subjects with normal and raised serum ALP activity but no PDB at baseline, radiographs taken 6-9 years later showed no evidence of the disease. This study demonstrated that serum ALP activity is a sensitive marker of PDB in men and women >55 years of age, but the majority of those affected have normal serum ALP activity.
Structures of the cGMP-dependent protein kinase in malaria parasites reveal a unique structural relay mechanism for activation (2019)

The cyclic guanosine-3',5'-monophosphate (cGMP)-dependent protein kinase (PKG) was identified >25 y ago; however, efforts to obtain a structure of the entire PKG enzyme or catalytic domain from any species have failed. In malaria parasites, cooperative activation of PKG triggers crucial developmental transitions throughout the complex life cycle. We have determined the cGMP-free crystallographic structures of PKG from <i>Plasmodium falciparum</i> and <i>Plasmodium vivax</i>, revealing how key structural components, including an N-terminal autoinhibitory segment (AIS), four predicted cyclic nucleotide-binding domains (CNBs), and a kinase domain (KD), are arranged when the enzyme is inactive. The four CNBs and the KD are in a pentagonal configuration, with the AIS docked in the substrate site of the KD in a swapped-domain dimeric arrangement. We show that although the protein is predominantly a monomer (the dimer is unlikely to be representative of the physiological form), the binding of the AIS is necessary to keep <i>Plasmodium</i> PKG inactive. A major feature is a helix serving the dual role of the N-terminal helix of the KD as well as the capping helix of the neighboring CNB. A network of connecting helices between neighboring CNBs contributes to maintaining the kinase in its inactive conformation. We propose a scheme in which cooperative binding of cGMP, beginning at the CNB closest to the KD, transmits conformational changes around the pentagonal molecule in a structural relay mechanism, enabling PKG to orchestrate rapid, highly regulated developmental switches in response to dynamic modulation of cGMP levels in the parasite.
Cranioplasty Using a Novel Osteoconductive Scaffold and Platelet Gel (2016)

Commonly used materials for cranioplasty include autogenous bone grafts, methyl methacrylate, and titanium mesh. We evaluated a novel osteoconductive scaffold [N-isopropylacrylamide cross-linked with acrylic acid using γ-rays (ANa powder)] mixed with platelet gel for cranioplasty.ANa powder mixed with platelet gel was implanted into a 15 × 15-mm, full-thickness calvarial bone defect in 5 New Zealand white rabbits. ANa powder mixed with phosphate-buffered saline was implanted in 5 rabbits. The calvarial bone defect was left unreconstructed in another 5 rabbits. Twelve weeks after surgery, computed tomography examination was used to evaluate the radiographic evidence of bone healing in vivo. Bone specimens were then retrieved for histologic study.The ANa scaffold mixed with platelet gel is biocompatible, biodegradable, and both osteoconductive and osteoinductive, leading to progressive growth of new bone into the calvarial bone defect.The use of this novel osteoconductive scaffold combined with osteoinductive platelet gel offers a valuable alternative for the reconstruction of calvarial bone defects.
Influence of systematically varied nanoscale topography on the morphology of epithelial cells (2003)

With the knowledge that cells can react to lithographically manufactured nanometer-sized surface objects, our interest concerned whether cells would respond to surface structures of systematically increasing size. Our approach to answer this question was to fabricate surfaces with the same surface chemistry and similar surface roughness but increasing size of structural features. To fabricate large areas of patterned surfaces, required for cell culture studies, we used colloidal lithography utilizing colloidal particles as a template for surface nanostructuring. The fabricated surfaces contained hemispherical nanopillars with diameters ranging from 60 to 170 nm. Changes in cell morphology of a pancreatic epithelial cell line (AR4-2J) were studied by evaluating cell area and cell shape. The latter was studied by applying the cell shape classification method using three shape descriptors. The pancreatic cells responded in a systematic way to the surface nanostructures. The cells spread more and became more nonround when cultured on surfaces with increasing size of the topographic features. Index Terms-Biological cells, image analysis, nanotechnology, shape measurement, surfaces.
Recent progress on attosecond science at RIKEN (2016)

We have been developing two types of intense attosecond beam lines for investigating attosecond wavepackt dynamics in atoms and molecules. One produces an attosecond pulse train for attosecond Fourier transform spectroscopy by attosecond-pump/attosecond-probe scheme, while the other produces an intense isolated attosecond pulse for attosecond nonlinear optics.
EXTRACTION OF CARBON DIOXIDE FROM THE ATMOSPHERE THROUGH ENGINEERED CHEMICAL SINKAGE (2001)

We present the case for C02 extraction from air as a means of sustaining fossil energy use by avoiding climate change. Our concept harnesses atmospheric circulation to transport C02 to sites where the C02 is extracted by binding it to an adsorbent. As a proof of concept, we show that an aqueous Ca(OH)2 solution efficiently converts C02 to a CaC03 solid that can be heated to obtain pure C02 and recover the CaO. Even with recycling costs, C02 extraction from air blown by wind through a 1 m2 aperture could eliminate the greenhouse gas impact of 100 kW gasoline engine, making it more favorable than renewable sources as solar, wind, or bio-mass. In addition it collects C02 from dispersed sources, preserves the energy infrastructure, can yield negative emissions, and provide free C02 transport to sequestration sites. We report economic and scaling arguments, atmospheric simulations and experiments that support pursuing air-extraction as an advanced C02 capture technology. This method could process today's world output of C02 with many collection units with a net area of 103-104 km2 at costs of -5/liter of gasoline, a manageable scale for this massive undertaking.
Obliteration of a coronary artery aneurysm with percutaneous transluminal coronary angioplasty and stent placement (1997)

We report the first case of obliteration of a coronary artery aneurysm by angioplasty and Palmaz-Schatz stenting. Cathet. Cardiovasc. Diagn. 41:51–52, 1997. © 1997 Wiley-Liss, Inc.
Application of mesenchymal stem cells as a vehicle to deliver replication-competent adenovirus for treating malignant glioma (2012)

Although gene therapy was regarded as a promising approach for glioma treatment, its therapeutic efficacy was often disappointing because of the lack of efficient drug delivery systems. Mesenchymal stem cells(MSCs) have been reported to have a tropism for brain tumors and thus could be used as delivery vehicles for glioma therapy. Therefore, in this study, we attempted to treat glioma by using MSCs as a vehicle for delivering replication-competent adenovirus. We firstly compared the infectivity of type 3, type 5, and type 35 fiber-modified adenoviruses in MSCs. We also determined suitable adenovirus titer in vitro and then used this titer to analyze the ability of MSCs to deliver replication-competent adenovirus into glioma in vivo. Our results indicated that type 35 fiber-modified adenovirus showed higher infectivity than did naked type 3 or type 5 fiber-modified adenovirus. MSCs carrying replication-competent adenovirus significantly inhibited tumor growth in vivo compared with other control groups. In conclusion, MSCs are an effective vehicle that can successfully transport replication-competent adenovirus into glioma, making it a potential therapeutic strategy for treating malignant glioma.
The Interconversion between Variotin and Ketovariotin (1973)

Journal Article The Interconversion between Variotin and Ketovariotin Get access Masayuki Sakaklbara, Masayuki Sakaklbara Department of Agricultural Chemistry, Faculty of Agriculture, The University of Tokyo, Tokyo Search for other works by this author on: Oxford Academic Google Scholar Taketoshi Okami, Taketoshi Okami Department of Agricultural Chemistry, Faculty of Agriculture, The University of Tokyo, Tokyo Search for other works by this author on: Oxford Academic Google Scholar Takeshi Kitahara, Takeshi Kitahara Department of Agricultural Chemistry, Faculty of Agriculture, The University of Tokyo, Tokyo Search for other works by this author on: Oxford Academic Google Scholar Masanao Matsui Masanao Matsui Department of Agricultural Chemistry, Faculty of Agriculture, The University of Tokyo, Tokyo Search for other works by this author on: Oxford Academic Google Scholar Agricultural and Biological Chemistry, Volume 37, Issue 4, 1 April 1973, Pages 903–904, https://doi.org/10.1080/00021369.1973.10860741 Published: 01 April 1973 Article history Received: 16 November 1972 Published: 01 April 1973
Very high data rate television using the parametric acoustic source (1980)

Television pictures with a video bandwidth of 35 kHz were transmitted acoustically over a 4-km water path in Seneca Lake, New York State. The parametric source used a 25-cm-diam projector having a mean primary frequency of 245 kHz. A combination of a scan converter and a speed changing tape recorder resulted in a 265-line picture with a frame rate of one per second. The narrow 2° beam-width minimizes multipath distortion and makes high speed acoustic: transmission feasible.
Prognostic significance of DNA index by flowcytometry in acute lymphoblastic leukaemia. (1995)

DNA index (DI) is considered an important prognostic factor in acute lymphoblastic leukaemia (ALL). We undertook this study to correlate DI with other presenting features and response to therapy. Of the 30 patients of ALL treated at our hospital and entered in this study, 15 were put on the aggressive MCP (multi center protocol) 841 protocol and equal number on the Alternate protocol. Eighteen achieved complete remission (13/15 on the former protocol and 5/15 on the later). DI was less than 0.8 in 8 (27%) patients, between 0.8 and 1.2 in 18 (60%) and more than 1.2 in 4 patients (13%). These figures are different from those reported in Caucasians. On multivariate regression analysis, the DI significantly correlated with percentage of blasts in peripheral blood (P = 0.0035). There was no correlation with outcome or response to treatment.
Inference of epistatic effects in a key mitochondrial protein (2018)

We use Potts model inference to predict pair epistatic effects in a key mitochondrial protein – cytochrome c oxidase subunit 2 – for ray–finned fishes. We examine the effect of phylogenetic correlations on our predictions using a simple exact fitness model, and we find that, although epistatic effects are under–predicted, they maintain a roughly linear relationship to their true (model) values. After accounting for these corrections, epistatic effects in the protein are still relatively weak, leading to fitness valleys of depth 2 N s ~ −5 in compensatory double mutants. Positive epistasis is more pronounced than negative epistasis, and the strongest positive effects capture nearly all sites subject to positive selection in fishes, similar to virus proteins evolving under selection pressure in the context of drug therapy.
Improving ancient DNA read mapping against modern reference genomes (2012)

We have shown that Illumina and Helicos sequences recovered from aDNA extracts could not be aligned to modern reference genomes with the same efficiency unless mapping parameters are optimized for the specific types of errors generated by these platforms and by post-mortem DNA damage. Our findings have important implications for future aDNA research, as we define mapping guidelines that improve our ability to identify genuine aDNA sequences, which in turn could improve the genotyping accuracy of ancient specimens. Our framework provides a significant improvement to the standard procedures used for characterizing ancient genomes, which is challenged by contamination and often low amounts of DNA material.
A Harmless Method for Determining Trenbolone Acetate Together with 17 -Trenbolone in Beef (2009)

An inexpensive, harmless, and quick technique of sample preparation followed by a reversed-phase high-performance liquid chromatography (HPLC) for the simultaneous quantification of trenbolone acetate and 17beta-trenbolone in cattle muscle is presented. Analysis by HPLC with photo-diode array detector was performed using a short C1 column with an isocratic mobile phase. The method was validated by the analyses of spiked samples, resulting recoveries (> or = 87.9%; relative standard deviations < or = 3.4%), analytical total time (< 20 min/sample, where, a batch of 12 samples in 2 h), and quantitation limits (< or = 1.8 ng/g). No harmful organic solvents and reagents were used at all.
Development of the human choriocapillaris (2010)

Vasculogenesis and/or angiogenesis are thought to be the major mechanisms for new vessel formation during development. A third mechanism, haemo-vasculogenesis, has been described in which blood vessel and blood cells (haematopoiesis (expression of CD34(+)) and erythropoiesis (presence of epsilon chain of haemoglobin or Hb-epsilon(+))) differentiate from a common precursor, the haemangioblast. This review describes the mechanism(s) for development of human choroidal vascular from 6 until 22 weeks gestation (WG). Endothelial cell or EC (CD31, CD34, CD39, VEGFR-2) and angioblast (CD39, VEGFR-2) markers were present in choriocapillaris (CC) by 7 WG through 22 WG. From 6 to 8 WG, many erythroblasts (nucleated Hb-epsilon(+) RBCs) were observed in the CC layer. Erythroblasts (Hb-epsilon(+)) were also positive for CD34, CD31, and/or VEGFR-2. Proliferation of vascular cells (Ki67+), suggesting angiogenesis, was not observed until 12 WG. TEM analysis demonstrated that CC was structurally immature even at 11 WG: no basement membrane, absence of pericytes, and poorly formed lumens that were filled with filopodia. Contiguous fenestrations and significant PV-1 (protein in diaphragms of fenestrations) were not observed until 21-22 WG. Smooth muscle actin was prominent at 20 WG and the maturation of pericytes was confirmed by TEM. Therefore, the embryonic CC appears to form initially by haemo-vasculogenesis (Hb-epsilon(+)/CD31(+) cells), whereas angiogenesis (CD34(+)/Ki67(+)) appears to be the mode of intermediate and large choroidal vessel development later in the foetus. Contiguous fenestrations, mature pericytes, and EC basal lamina occur late in development, around 22 WG, which coincides with photoreceptors developing inner segments.
Nickel-Catalyzed Suzuki–Miyaura Couplings in Green Solvents (2013)

The nickel-catalyzed Suzuki-Miyaura coupling of aryl halides and phenol-derived substrates with aryl boronic acids using green solvents, such as 2-Me-THF and tert-amyl alcohol, is reported. This methodology employs the commercially available and air-stable precatalyst, NiCl2(PCy3)2, and gives biaryl products in synthetically useful to excellent yields. Using this protocol, bis(heterocyclic) frameworks can be assembled efficiently.
The effect of iron doping on the structural, optical, surface morphological, and temperature-dependent magnetic properties of ZnO nanoparticles (2020)

This study reports the role of temperature on the magnetic properties of the Fe-doped (0, 1, 3, and 5 wt%) ZnO nanoparticles (NPs) synthesized using the facile co-precipitation procedure. Powder x-ray diffraction analysis revealed the crystallinity deterioration of the ZnO matrix on trivalent cationic doping and the shifting of peak position due to the mismatch in ionic radius between the Zn<sup>2+</sup> and Fe<sup>3+</sup>. A clear redshift in the bandgap of the iron-doped ZnO samples is observed from the UV-vis diffused reflectance spectroscopic studies. The existence of lattice defects including the zinc interstitials, zinc vacancies, and oxygen vacancies are confirmed by the room temperature photoluminescence analysis. Scanning electron microscopic investigations showed the synthesized NPs possesses agglomerated spherical morphology. The role of temperature on the magnetization of the iron-doped ZnO nanoparticles has been examined at 300 and 100 K. A 3-fold enhancement of magnetization value perceived for the 5% iron-doped ZnO nanoparticles at 100 K compared to the magnetization value of such sample at 300 K.
Radiofrequency and microwave ablation controls hepatic oligoprogression of advanced gastroenteropancreatic neuroendocrine tumors (2023)

In progression of multifocal liver metastases of gastroenteropancreatic neuroendocrine tumors (GEP-NET) escalation of systemic therapy is indicated. The aim of this retrospective study was to investigate the potential of local thermal ablation in hepatic oligoprogression and otherwise stable disease in GEP-NET. Patients with hepatic oligoprogression and otherwise stable disease, who underwent radiofrequency ablation (RFA) or microwave ablation (MWA) for local control, were included in the study. Thermal ablation was performed while maintaining the ongoing systemic therapy or without addition of a systemic therapy. The effectiveness of this therapeutic approach was evaluated by determination of local treatment success, improvement of progression-free survival (PFS) and the safety. Seventeen thermal ablation procedures were performed in 13 patients with well differentiated NET including seven ileum NET, four pancreatic NET, one appendix NET and one rectum NET. RFA and MWA of liver metastases were well tolerated without major complications. Thermal ablation resulted in an estimated median PFS of 62.6 weeks (mean 50.5 weeks; range 10.1-78.9 weeks) per procedure. In four patients, two ablation procedures were performed throughout the course of their disease resulting in an estimated median PFS of 69.1 weeks (mean 71.6 weeks; range 10.1-123.1 weeks) per patient. Start or change of systemic therapy could be delayed up to 123.1 weeks by using thermal ablations for isolated progression of single liver metastases. 88% of thermal ablations prolonged PFS. Thermal ablation of liver metastases in a non-curative intent has the potential to provide focal growth control and to prolong PFS in GEP-NET patients with hepatic oligoprogression.
Apnea Detection by Acoustical Means (2006)

In this paper a new non-invasive method for apnea detection is proposed. Eight healthy subjects participated in this study. They were instructed to breathe very shallow with different periods of breath hold to simulate sleep apnea. Following our previous study in successful use of entropy for flow estimation, in this study the Otsu threshold was used to classify the calculated entropy into two classes of breathing and apnea. The results show that the method is capable of detecting the apnea periods even when the subjects breathe at very shallow flow rates. The overall lag and duration errors between the estimated and actual apnea periods were found to be 0.207+/-0.062 and 0.289+/-0.258 s, respectively. The results are encouraging for the use of the proposed method as a fast, easy and promising tool for apnea detection.