gebhart/patrepeval huggingface dataset:
A Mutation That Improves Soluble Recombinant Hemoglobin Accumulation in <i>Escherichia coli</i> in Heme Excess (1999)

High-level expression of soluble recombinant human hemoglobin (rHb) in Escherichia coli was obtained with several hemoglobin variants. Under identical conditions, two rHbs containing the Presbyterian mutation (Asn-108-->Lys) in beta-globin accumulated to approximately twofold less soluble globin than rHbs containing the corresponding wild-type beta-globin subunit accumulated. The beta-globin Providence(asp) mutation (Lys-82-->Asp) significantly improved soluble rHb accumulation compared to the wild-type beta-globin subunit and restored soluble accumulation of rHbs containing the Presbyterian mutation to wild-type levels. The Providenceasp substitution introduced a negatively charged residue into the normally cationic 2,3-bisphosphoglycerate binding pocket, potentially reducing the electrostatic repulsion in the absence of the polyanion. The average soluble globin accumulation when there was coexpression of di-alpha-globin and beta-Lys-82-->Asp-globin (rHb9.1) and heme was present in at least a threefold molar excess was 36% +/- 3% of the soluble cell protein in E. coli. The average total accumulation (soluble globin plus insoluble globin) was 56% +/- 7% of the soluble cell protein. Fermentations yielded 6.0 +/- 0. 3 g of soluble rHb9.1 per liter 16 h after induction and 6.4 +/- 0.2 g/liter 24 h after induction. The average total globin yield was 9.4 g/liter 16 h after induction. High-level accumulation of soluble rHb in E. coli depends on culture conditions, the protein sequence, and the molar ratio of the heme cofactor added.
Reconstructing and segmenting hyperspectral images from compressed measurements (2011)

A joint reconstruction and segmentation model for hyperspectral data obtained from a compressive measurement system is proposed, and some preliminary tests are described. Although hyperspectral imaging (HSI) technology has incredible potential, its utility is currently limited because of the quantity and complexity of the data it gathers. Yet, often the scene to be reconstructed from the HSI data contains far less information, typically consisting of spectrally and spatially homogeneous segments that can be represented sparsely in an appropriate basis. Such vast informational redundancy thus implicitly contained in the HSI data warrants a compressed sensing (CS) strategy that acquires appropriately coded spectral-spatial data from which one can reconstruct the original image more efficiently, while still enabling target identification procedures. A coded-aperture snapshot spectral imager (CASSI) is considered here, and a joint reconstruction and segmentation model for data obtained from CASSI compressive measurements is proposed and preliminary numerical experiments are presented.
Optimum Conditions for Separation in Gas Chromatography (1960)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTOptimum Conditions for Separation in Gas ChromatographyJ. C. GiddingsCite this: Anal. Chem. 1960, 32, 12, 1707–1711Publication Date (Print):November 1, 1960Publication History Published online1 May 2002Published inissue 1 November 1960https://pubs.acs.org/doi/10.1021/ac60168a050https://doi.org/10.1021/ac60168a050research-articleACS PublicationsRequest reuse permissionsArticle Views264Altmetric-Citations32LEARN 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 Get e-Alerts
Multidentate 1,2,3-Triazole-Containing Chelators from Tandem Deprotection/Click Reactions of (Trimethylsilyl)alkynes and Comparison of Their Ruthenium(II) Complexes (2008)

A variation of the copper-catalyzed Huisgen 1,3-dipolar cycloaddition involving a one-pot two-step transformation of trimethylsilyl-protected alkyne reactants was used to prepare multidentate N-heterocyclic chelators containing 1,2,3-triazole rings in high yields. This includes the first reported examples of 1,1′-disubstituted 4,4′-bis(triazole) bidentate chelators derived from click preparations.
Synthesis of 7-Desoxypanepoxydol (1975)

Journal Article Synthesis of 7-Desoxypanepoxydol Get access Akitami Ichihara, Akitami Ichihara Department of Agricultural Chemistry, Faculty of Agriculture Hokkaido, University Sapporo, 060 Search for other works by this author on: Oxford Academic Google Scholar Ryoji Kimura, Ryoji Kimura Department of Agricultural Chemistry, Faculty of Agriculture Hokkaido, University Sapporo, 060 Search for other works by this author on: Oxford Academic Google Scholar Sadao Sakamura Sadao Sakamura Department of Agricultural Chemistry, Faculty of Agriculture Hokkaido, University Sapporo, 060 Search for other works by this author on: Oxford Academic Google Scholar Agricultural and Biological Chemistry, Volume 39, Issue 2, 1 February 1975, Pages 555–556, https://doi.org/10.1080/00021369.1975.10861634 Published: 01 February 1975 Article history Received: 22 July 1974 Published: 01 February 1975
Highly Reliable and Large-Capacity Packet Transport Networks: Technologies, Perspectives, and Standardization (2014)

With the recent prevalence of Internet protocol-based services, packet traffic is rapidly becoming the mainstream of data traffic. This has increased the demand for transport network technology that can efficiently accommodate the large capacity of both packet-based and circuit-based traffic while achieving high reliability, sufficient operation, and maintenance capability comparable to that of traditional transport networks such as synchronous digital hierarchy or optical transport networks. This study gives an overview of packet transport technologies including Ethernet and multiprotocol label switching (MPLS), and provides details of MPLS-TP (transport profile), recently developed as a promising next-generation packet transport technology. Its standardization in International Telecommunication Union, Telecommunication Standardization Sector and Internet Engineering Task Force is also described. Then, further perspectives are given on MPLS-TP applications including layer convergence of transport networks for cost-effective and simple operation.
The invariants of the Clifford groups (2000)

The automorphism group of the Barnes-Wall lattice L_m in dimension 2^m (m not 3) is a subgroup of index 2 in a certain ``Clifford group'' C_m (an extraspecial group of order 2^(1+2m) extended by an orthogonal group). This group and its complex analogue CC_m have arisen in recent years in connection with the construction of orthogonal spreads, Kerdock sets, packings in Grassmannian spaces, quantum codes, Siegel modular forms and spherical designs. In this paper we give a simpler proof of Runge's 1996 result that the space of invariants for C_m of degree 2k is spanned by the complete weight enumerators of the codes obtained by tensoring binary self-dual codes of length 2k with the field GF(2^m); these are a basis if m >= k-1. We also give new constructions for L_m and C_m: let M be the Z[sqrt(2)]-lattice with Gram matrix [2, sqrt(2); sqrt(2), 2]. Then L_m is the rational part of the mth tensor power of M, and C_m is the automorphism group of this tensor power. Also, if C is a binary self-dual code not generated by vectors of weight 2, then C_m is precisely the automorphism group of the complete weight enumerator of the tensor product of C and GF(2^m). There are analogues of all these results for the complex group CC_m, with ``doubly-even self-dual code'' instead of ``self-dual code''.
El Proceso de Morir en un Servicio de Medicina Intensiva y aspectos relacionados (2010)

espanolObjetivo: Describir como se muere en un Servicio de Medicina Intensiva. Diseno y ambito: Estudio observacional realizado en un Servicio de Medicina Intensiva durante los meses comprendidos entre octubre 2008 y marzo 2009. Pacientes: Todos los que murieron en el periodo de estudio. Intervencion: Enfermeria se encargaba de rellenar la hoja de recogida de datos de cada paciente que fallecio. Resultados: Ingresaron 372 pacientes, fallecieron 44 (12%) de los que se estudiaron 41, con edad mediana de 71 anos y el 63% fueron hombres, la estancia media de los fallecidos fue de 3 dias. En 37 la muerte era esperable y de estos en 30 se practico algun tipo de limitacion de tratamiento de soporte vital (LTSV), en 25 casos la familia o representantes participaron de la decision de aplicar LTSV. La familia acompano el proceso de muerte en 28 ocasiones. Todos los pacientes que lo requirieron recibieron sedo-analgesia. Conclusiones: Alta previsibilidad de muerte en los enfermos que fallecen, alta utilizacion de LTSV asi como de acompanamiento por parte de la familia y administracion de sedo-analgesia. EnglishObjective: Describe the process of dying in an Intensive Care Unit (ICU). Design and scope: Observational study carried out in an Intensive Medicine Unit in the months of October 2008 and November 2009. Subjects: All the patients that died in the study period. Clinical implications: Nursery was in charge of filling in the data collection sheet of each of the dying patients. Results: 372 inpatients. 44 of them died (12%), 41 of those were studied, with mean age of 71. Men account for a 63%. The period of hospitalisation of the deceased was of 3 days. Death was expected in 37 of them and 30 of them had some sort of limitation in the life-support treatment (LLST). In 25 of the cases, the family or representatives participated in the process of decision-making of withholding or withdrawing the treatment. The family provided support in the dying process in 28 of the cases. All the patients who requested it, received sedoanalgesia. Conclusions: High death predictability in the deceased patients, high use of LLST as well as the family support and sedoanalgesia admninistration in the deceased patients.
The Infrared Sky (1999)

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The relationship between angiotensin-converting enzyme (insertion/deletion) gene polymorphism and left ventricular remodeling in acute myocardial infarction (2007)

ACE gene polymorphism may influence early cardiac remodeling after acute myocardial infarction. Patients with the deletion/deletion-insertion/deletion genotype may be particularly more sensitive to ACE-I treatment possibly owing to the more prominent role of the renin-angiotensin system.
Distributed collaborative key agreement protocols for dynamic peer groups (2003)

We consider several distributed collaborative key agreement protocols for dynamic peer groups. This problem has several important characteristics which make it different from traditional secure group communication. They are (1) the distributed nature in which there is no centralized key server, (2) collaborative nature in which the group key is contributory; i.e., each group member will collaboratively contribute its part to the global group key, and (3) the dynamic nature in which existing members can leave the group while new members may join. Instead of performing individual rekey operations, i.e., recomputing the group key after every join or leave request, we consider an interval-based approach of rekeying. In particular, we consider three distributed algorithms for updating the group key: (1) the rebuild algorithm, (2) the batch algorithm, and (3) the queue-batch algorithm. Performance of these distributed algorithms under different settings, such as different join and leave probabilities, is analyzed. We show that these three distributed algorithms significantly outperform the individual rekey algorithm, and that the queue-batch algorithm performs the best among the three distributed algorithms. Moreover the queue-batch algorithm has the intrinsic property of balancing the computation/communication workload such that the dynamic peer group can quickly begin secure group communication. This provides a fundamental understanding about establishing a collaborative group key for a distributed dynamic peer group.
Independent Risk Factors for Atrial Fibrillation in a Population-Based Cohort (1994)

<h3>Objective.</h3> —To determine the independent risk factors for atrial fibrillation. <h3>Design.</h3> —Cohort study. <h3>Setting.</h3> —The Framingham Heart Study. <h3>Subjects.</h3> —A total of 2090 men and 2641 women members of the original cohort, free of a history of atrial fibrillation, between the ages of 55 and 94 years. <h3>Main Outcome Measures.</h3> —Sex-specific multiple logistic regression models to identify independent risk factors for atrial fibrillation, including age, smoking, diabetes, electrocardiographic left ventricular hypertrophy, hypertension, myocardial infarction, congestive heart failure, and valve disease. <h3>Results.</h3> —During up to 38 years of follow-up, 264 men and 298 women developed atrial fibrillation. After adjusting for age and other risk factors for atrial fibrillation, men had a 1.5 times greater risk of developing atrial fibrillation than women. In the full multivariable model, the odds ratio (OR) of atrial fibrillation for each decade of advancing age was 2.1 for men and 2.2 for women (<i>P</i><.0001). In addition, after multivariable adjustment, diabetes (OR, 1.4 for men and 1.6 for women), hypertension (OR, 1.5 for men and 1.4 for women), congestive heart failure (OR, 4.5 for men and 5.9 for women), and valve disease (OR, 1.8 for men and 3.4 for women) were significantly associated with risk for atrial fibrillation in both sexes. Myocardial infarction (OR, 1.4) was significantly associated with the development of atrial fibrillation in men. Women were significantly more likely than men to have valvular heart disease as a risk factor for atrial fibrillation. The multivariable models were largely unchanged after eliminating subjects with valvular heart disease. <h3>Conclusion.</h3> —In addition to intrinsic cardiac causes such as valve disease and congestive heart failure, risk factors for cardiovascular disease also predispose to atrial fibrillation. Modification of risk factors for cardiovascular disease may have the added benefit of diminishing the incidence of atrial fibrillation. (<i>JAMA</i>. 1994;271:840-844)
Study of micromanipulation using stereoscopic microscope (2002)

In this paper, we describe a visual feedback system using a stereoscopic microscope that controls a micromanipulator so that a needle may pierce a target with as much length as desired. First, in order to achieve the manipulation at a realistic rate, we proposed a strategy for moving the needle head. Next, we developed an algorithm for prediction of the tip position of the needle head within the target. Before the needle pierces the target, the shape of the needle head is preserved as a reference pattern. After the needle pierces the target, the shape of the needle head within the target is predicted using the reference pattern, and the tip position of the needle head can be detected. Experimental results indicate that the proposed system may be useful in micromanipulation such as microinjection to seeds.
Out-of-Sample Extrapolation of Learned Manifolds (2008)

We investigate the problem of extrapolating the embedding of a manifold learned from finite samples to novel out-of-sample data. We concentrate on the manifold learning method called Maximum Variance Unfolding (MVU) for which the extrapolation problem is still largely unsolved. Taking the perspective of MVU learning being equivalent to Kernel PCA, our problem reduces to extending a kernel matrix generated from an unknown kernel function to novel points. Leveraging on previous developments, we propose a novel solution which involves approximating the kernel eigenfunction using Gaussian basis functions. We also show how the width of the Gaussian can be tuned to achieve extrapolation. Experimental results which demonstrate the effectiveness of the proposed approach are also included.
Criteria for the Diagnosis of Alzheimer's Disease with Positron Emission Tomography (1990)

In the first part of the study, a comparison of 19 patients with Alzheimer''s disease (AD) with 19 age-matched controls was performed to establish diagnostic criteria of AD with positron emission tomography and <sup>18</sup>F-2-fluoro-2-deoxygIucose. Patients had a mean age of 60.6 ± 7.1 years, and a mean score of 14.5 ± 7.3 in Mini Mental Status examination, and of 4.9 ± 0.9 on the Global Deterioration Scale. They fulfilled current research criteria (NINCDS-ADRDA) for probable AD and had been screened rigorously to exclude other potentially dementing conditions, in particular cerebrovascular disease. Regional glucose metabolism was always abnormal in temporoparietal association areas, at least unilaterally, and in most patients also in fronto-lateral association areas. Regional metabolism relative to whole-brain metabolism was always normal in cerebellum, brain stem, and lentiform nucleus, and in most patients also in visual and sensorimotor cortex. A metabolic ratio of typically affected to typically unaffected regions was designed to represent this characteristic pattern. It provided a complete separation of AD patients from normals. In the second part of the study, the diagnostic power of this ratio was tested in an independent sample of 56 patients with a mean age of 59.9 ± 11.3 years. Eight of these patients had subjective memory complaints, but were found completely normal at neuropsychological and clinical examination. Twenty-two had cognitive deficits due to diseases other than AD, among them 7 with cerebrovascular disease, and 26 had probable AD. The classification by the metabolic ratio as AD or non-AD was correct in 85%, with a sensitivity of 92, and a specificity of 80%.
Gassmann's fluid substitution and shear modulus variability in carbonates at laboratory seismic and ultrasonic frequencies (2006)

Abstract Carbonates have become important targets for rock property research in recent years because they represent many of the major oil and gas reservoirs in the world. Some are undergoing enhanced oil recovery. Most laboratory studies to understand fluid and pressure effects on reservoir rocks have been performed on sandstones, but applying relations developed for sandstones to carbonates is problematic, at best. We measure in the laboratory nine carbonate samples from the same reservoir at seismic (3–3000 Hz) and ultrasonic (0.8MHz) frequencies. Samples are measured dry (humidified) and saturated with liquid butane and brine. Our carbonate samples showed typical changes in moduli as a function of porosity and fluid saturation. However, we explore the applicability of Gassmann's theory on limestone and dolomite rocks in the context of shear- and bulk-modulus dispersion and Gassmann's theory assumptions. For our carbonate set at high differential pressures and seismic frequencies, the bulk modulus of rocks with high-aspect-ratio pores and dolomite mineralogy is predicted by Gassmann's relation. We also explore in detail some of the assumptions of Gassmann's relation, especially rock-frame sensitivity to fluid saturation. Our carbonate samples show rock shear-modulus change from dry to brine saturation conditions, and we investigate several rock-fluid mechanisms responsible for this change. To our knowledge, these are the first controlled laboratory experiments on carbonates in the seismic frequency range.
Irreversible Protein Labeling by Paal–Knorr Conjugation (2017)

Abstract The application of new chemical reactions in a biological context has advanced bioconjugation methods for both fundamental research and commercial arenas. Recent adaptations of reactions such as Huisgen 1,3‐dipolar or Diels–Alder cycloadditions have enabled the labeling of specific residues in biomolecules by the attachment of molecules carrying azides, alkynes, or strained alkenes. Although these are fundamental tools, there is a need for the discovery of reactions that can label native proteins. We report herein the adaptation of the Paal–Knorr reaction to label lysine residues in proteins via pyrrole linkages.
Non small cell lung cancer (NSCLC) xenografts as models for the prediction of response to tyrosine kinase inhibitors (2007)

C5 The epidermal growth factor receptor (EGFR) plays an important role in cell proliferation and differentiation. It is expressed in almost all tissues and is overexpressed in many cancer types among them lung cancer. With the newly developed tyrosine kinase inhibitors (TKI) Gefitinib and Erlotinib as well as the monoclonal antibody Cetuximab new drugs are available for the targeted treatment of patients with lung cancer. The evaluation of clinical trials using Erlotinib and Gefitinib revealed no correlation between the EGFR expression and the response to therapy. It was demonstrated that only a small group (women, never-smokers and people with asian origin) did benefit from the treatment with TKIs. In addition, patients with mutations in the exons 19 to 21 of the EGFR gene showed a better response to a therapy with TKIs.We have developed a series of novel lung cancer xenograft models. Fresh tumor material of patients with non small cell lung cancer (NSCLC) was subcutaneously transplanted to immunodeficient mice shortly after removal. Up to now more than 100 samples have been transplanted from which 23 passagable models could be generated. 54% of the established xenograft lines were derived from squamous cell carcinomas and 22% from adenocarcinomas. They mainly belonged to T2 or T3 stages of TNM classification and all except one originated from long-term smokers. It was demonstrated that the early murine passages (maximum 10) correlated with the original tumor regarding histology, the expression of the surface proteins E-cadherin, EpCAM, the cell proliferation marker Ki-67 and in gene profiling (Affymetrix).8/23 xenografts were sensitive towards Cetuximab and 5/19 towards Erlotinib showing more than 50% tumor growth inhibition.The analysis of the EGFR gene revealed 2/23 tumors with mutations but these were not related to a better response to TKIs Erlotinib or Cetuximab. 4/23 models with K-ras mutations were found among the xenografts and in 10/23 different models mutations in the p53 gene could be located. But none of these mutations alone or in combination was correlated with a specific response towards anti-EGFR therapies. Western analysis was performed for the expression of different pathway related proteins (EGFR, ERK 1/2, Stat1, and phosphorylated forms). All investigated tumors were positive for E-cadherin and negative for Vimentin suggesting that the potential for EMT (epidermal-mesenchymal transition) is not correlated with any therapeutic response. While none of the constitutive expression levels was related to therapeutic response, the EGFR protein was down-regulated after TKI treatment only in the sensitive xenografts but not in the resistant ones identifying the ability for dynamic regulation as potential prediction marker.  In summary, we have available a panel of well characterized NSCLC xenografts correlating with the clinical situation and being able to identify biomarkers and their regulation after therapeutic interventions both at genetic and at protein level.