gebhart/patrepeval huggingface dataset:
GFR Measurement and Chemotherapy Dosing in Patients with Kidney Disease and Cancer (2020)

Chemotherapeutic agents require precise dosing to ensure optimal efficacy and minimize complications. For those agents that are removed from the body by the kidney, accurate knowledge of GFR is critical. In addition, GFR needs to be determined rapidly, easily, and, if possible, with little additional cost. The ability to easily measure GFR also allows for rapid detection of nephrotoxicity. Current methodologies include direct clearance measurement of an indicator substance or estimation of creatinine clearance or GFR through regression equations that use a serum marker, such as creatinine or cystatin C. These methodologies all have shortfalls and limitations, some of which are specific to the patient with cancer. Newer methodologies that directly measure GFR are in clinical trials and offer the ability to rapidly and noninvasively provide accurate estimates of drug clearance as well as detection of nephrotoxicity. These methods offer the opportunity to refine drug dosing and improve outcomes.
Semantic web service adaptation model for a pervasive learning scenario (2008)

With the proliferation of mobile devices, pervasive learning has become a new wave in technology-enhanced learning (TEL). One of the key problems to solve in this area is to adapt learning content and services according to a learner’s needs and wants to different learning contexts at the workplace. We propose using semantic web services as a solution to context -adaptive pervasive learning. Another problem lies in web service search, which may return many services that do not match the requirements and context of a learner. This wastes resources and poses more problems to the formulation of just-in-time learning activities. In this paper, we define a service requirement specification to model a service request and a semantic description metadata schema to sufficiently annotate web service functionalities and behavior. On top of that, we propose an adaptation model to match and adapt relevant web services. The technique and algorithm presented in this paper are aimed at improving the efficiency and accuracy in selecting the right web service for a scenario at the workplace.
Cerebrospinal fluid F 2 -isoprostanes are elevated in Huntington’s disease (1999)

Numerous investigations using a variety of experimental model systems have suggested that oxidative stress in the context of impaired energy metabolism may be an important element in the pathogenesis of Huntington’s disease (HD).1 To test further the hypothesis that oxidative damage may contribute to the progression of HD, we measured a quantitative and specific marker of lipid peroxidation, F2-isoprostanes (F2-IsoP), in CSF from HD patients early in the course of disease. This was then compared with control subjects and patients with another degenerative disease of the basal ganglia that also has been associated with increased oxidative damage: multiple system atrophy—striatonigral degeneration type (MSA-P).2

Following informed consent, CSF was aspirated from the lumbar cistern, and 1 to 2 mL were immediately frozen at −80 °C and later used for F2-IsoP quantification as described.3 All CSF had protein and glucose concentrations as well as cell counts within normal ranges. Statistical comparisons were made with GraphPad Prism 2.0 software (San Diego, CA).

Control subjects (n = 23) were hospitalized patients who underwent diagnostic evaluation …
Revision of basic structures (2007)

The cartesian product of no sets is the special set 1, with precisely one element, which should technically be denoted by empty parentheses (). Particular cases of the canonical bijections are
Molecular analysis of the gat genes from Escherichia coli and of their roles in galactitol transport and metabolism (1996)

In enteric bacteria, the hexitol galactitol (Gat) (formerly dulcitol) is taken up through enzyme II (II(Gat)) of the phosphoenolpyruvate-dependent phosphotransferase system (PTS), and accumulated as galactitol 1-phosphate (Gat1P). The gat genes involved in galactitol metabolism have been isolated from the wild-type isolate Escherichia coli EC3132 and cloned on a 7.8-kbp PstI DNA fragment. They comprise six complete open reading frames and one truncated open reading frame in the order gatYZABCDR'. The genes gatABC code for the proteins GatA (150 residues) and GatB (94 residues), which correspond to the hydrophilic domains IIA(Gat) and IIB(Gat), and GatC, which represents a membrane-bound transporter domain IIC(Gat) (35 kDa, 427 residues). The three polypeptides together constitute a II(Gat) of average size (671 residues). Gene gatD codes for a Gat1P-specific NAD-dependent dehydrogenase (38 kDa, 346 residues), gatZ codes for a protein (42 kDa, 378 residues) of unknown function, and gatY (31 kDa, 286 residues) codes for a D-tagatose-1,6-bisphosphate aldolase with similarity to other known ketose-bisphosphate aldolases. The truncated gatR' gene, whose product shows similarity to the glucitol repressor GutR, closely resembles a gatR gene fragment from E. coli K-12. The gat genes map in both organisms at similar positions, in E. coli K-12, where they are transcribed counterclockwise at precisely 46.7 min or 2,173 to 2,180 kbp. The genes are expressed constitutively in both strains, probably due to a mutation(s) in gatR. Transcription initiation sites for the gatYp and the gatRp promoters were determined by primer extension analysis.
Thermodynamic Properties of Block Copolymer Electrolytes Containing Imidazolium and Lithium Salts (2010)

We report on the thermal properties, phase behavior, and thermodynamics of a series of polystyrene-block-poly(ethylene oxide) copolymers (SEO) mixed with the ionic species Li[N(SO2CF3)2] (LiTFSI), imidazolium TFSI (ImTFSI), and an equimolar mixture of LiTFSI and ImTFSI (Mix). Differential scanning calorimetric scans reveal similar thermal behavior of SEO/LiTFSI and SEO/ImTFSI at the same salt concentrations. Phase behavior and thermodynamics were determined using a combination of small-angle X-ray scattering and birefringence. The thermodynamics of our mixtures can be mapped on to the theory of neat block copolymer phase behavior provided the Flory−Huggins interaction parameter, χ, between the blocks is replaced by an effective χ (χeff) that increases linearly with salt concentration. The phase behavior and the value of m, the slope of the χeff versus salt concentration data, were similar for SEO/LiTFSI, SEO/ImTFSI, and SEO/Mix blends. The theory developed by Wang [J. Phys. Chem. B. 2008, 41, 16205] provides a basis for understanding the fundamental underpinnings of the measured value of m. We compare our experimental results with the predictions of this theory with no adjustable parameters.
Identification and characterization of a novel herpes simplex virus glycoprotein, gK, involved in cell fusion (1992)

Antipeptide sera were used to identify a novel glycoprotein encoded by the UL53 gene of herpes simplex virus type 1 (HSV-1). The UL53 gene product is thought to play a central role in regulating membrane fusion because mutations giving rise to the syncytial phenotype, wherein cells are extensively fused, frequently map to this gene. A single 40-kDa protein, designated gK (the ninth HSV-1 glycoprotein to be described), was detected with antipeptide sera in cells infected with both wild-type and syncytial strains of HSV-1 which were labelled with [35S]methionine and [35S]cysteine or with [3H]glucosamine, and this protein was sensitive to treatment of cells with tunicamycin. With all other HSV glycoproteins studied to date, at least two glycosylated species, often differing substantially in electrophoretic mobility, have been observed in infected cells; thus, gK is unusual in this respect. The 40-kDa gK protein was also immunoprecipitated from cells infected with a recombinant adenovirus vector carrying the UL53 gene. Two glycosylated species of 39 and 41 kDa were produced when UL53 mRNA was translated in vitro in the presence of microsomes, and these proteins differed from gK produced in infected cells not only because they possessed different electrophoretic mobilities but also because they were unable to enter gels after being heated. In addition, a 36-kDa protein was detected in extracts from cells infected with HSV-2 with use of these sera.
Purification and properties of prolylcarboxypeptidase (angiotensinase C) from human kidney. (1978)

Prolylcarboxypeptidase was purified from human kidney 1200-fold with 18% yield. The enzyme had no cathepsin A activity and appeared to be homogeneous in gel electrophoresis. The molecular weight of prolylcarboxypeptidase was estimated to be 115,000 by gel filtration. Under denaturing conditions the enzyme dissociated into subunits of 45,000 and 66,500 molecular weight. The enzyme cleaved benzyloxycarbonyl (Cbz)-Pro-Phe, representing the COOH-terminal end of angiotensin II and des-Asp1-angiotensin II (angiotensin III), at a rate of 31 micronmol/h/mg of protein. The rate of hydrolysis increased when phenylalanine in the N-protected dipeptide was replaced with alanine, valine, or leucine or when the octapeptide angiotensin II or the heptapeptide angiotensin III were the substrates. The enzyme also cleaved the angiotensin II antagonist saralasin (Sar1-Ala8-angiotensin II). The Km values were 1 mM, 2mM, and 0.77 mM with Cbz-Pro-Phe, angiotensin II, and angiotensin III, respectively. The enzyme had an acid pH optimum (4.5 to 5.5), but hydrolyzed angiotensin III at pH 7 at 50% of the optimal rate. Prolylcarboxypeptidase was inhibited by diisopropyl phosphorofluoridate and pepstatin, but not by sequestering agents or -SH reagents.
Nanoscale Protein Patterning by Imprint Lithography (2004)

Selective localization of active proteins to patterns or specific sites is important for development of biosensors, bioMEMS, tissue engineering, and basic proteomic research. We present a flexible technique for selectively patterning bioactive proteins with nanoscale resolution using nanoimprint lithography and fluoropolymer surface passivation, and exploiting the specificity of the biotin/streptavidin linkage. This technique achieves high throughput reproducible nanoscale protein patterns with high selectivity and retained biofunctionality, as demonstrated by interactions between patterned antibodies and their antigen.
Monochromatic Ophthalmoscopy and Fundus Photography (1977)

Anatomical details in the ocular fundus can be seen with increased contrast when appropriate monochromatic illumination is used. This technique permits more accurate visualization and documentation than can be achieved with white light. This article reports the optimal spectral ranges for visualization of the different fundus structures. It describes and illustrates the appearance of individual structures and areas of the fundus under different spectral illuminations. There is a detailed discussion of the optical properties of the fundus layers that provides a background for interpreting the data and a baseline for examination of pathologic conditions.
Comparison of Different Intravenous Bisphosphonate Regimens for Paget's Disease of Bone (2007)

Single neridronate and zoledronate infusion showed a similar efficacy in achieving biochemical remission in up to 90% of patients nonresponders to pamidronate. Therapeutic response to zoledronate seems to be maintained in most patients at 15 mo.
A series of mammalian expression vectors and characterisation of their expression of a reporter gene in stably and transiently transfected cells (1990)

Journal Article A series of mammalian expression vectors and characterisation of their expression of a reporter gene in stably and transiently transfected cells Get access Jay P. Morgenstern, Jay P. Morgenstern Imperial Cancer Research Fund, Lincoln's Inn FieldsLondon WC2A 3PX, UK Search for other works by this author on: Oxford Academic PubMed Google Scholar Hartmut Land Hartmut Land Imperial Cancer Research Fund, Lincoln's Inn FieldsLondon WC2A 3PX, UK Search for other works by this author on: Oxford Academic PubMed Google Scholar Nucleic Acids Research, Volume 18, Issue 4, 25 February 1990, Page 1068, https://doi.org/10.1093/nar/18.4.1068 Published: 25 February 1990 Article history Received: 24 January 1990 Published: 25 February 1990
A Mechanistic Approach for Estimation of Track Modulus (1998)

Track modulus is a key parameter in predicting track behaviour under passing traffic. As the prime measure of track stiffness, it affects calculations of track deflections, rail bending stresses, bearing stresses in track components, and the response of track to dynamic loadings from trains. Traditionally, rail authorities use a range of empirical moduli drawn from measurements of various types of track, but conducting in-field measurements is time consuming and costly. A mechanistic model is needed so that any type of track structure can be considered for the prediction of degradation. This paper describes a mechanistic method initially developed at Queen's university in Canada for estimation of static track modulus using elastic foundation models. The paper then goes on to discuss calibration of the method for local conditions and to present sample applications for typical Australian railway tracks. It is found that the mechanistic method gives reasonable estimations of track modulus. The effect of rail gauge on track modulus is not as dramatic as perceived by Australian railway authorities, nor is the effect of different sizes of rails lying on the same track foundation. The method provides a practical means for eliminating large-scale time-consuming field tests.
Passive immunity to yersiniae mediated by anti-recombinant V antigen and protein A-V antigen fusion peptide (1994)

LcrV (V antigen), a known unstable 37.3-kDa monomeric peptide encoded on the ca. 70-kb Lcr plasmid of Yersinia pestis, Yersinia pseudotuberculosis, and Yersinia enterocolitica, has been implicated as a regulator of the low-calcium response, virulence factor, and protective antigen. In this study, lcrV of Y. pestis was cloned into protease-deficient Escherichia coli BL21. The resulting recombinant V antigen underwent marked degradation from the C-terminal end during purification, yielding major peptides of 36, 35, 34, and 32 to 29 kDa. Rabbit gamma globulin raised against this mixture of cleavage products provided significant protection against 10 minimum lethal doses of Y. pestis (P < 0.01) and Y. pseudotuberculosis (P < 0.02). To both stabilize V antigen and facilitate its purification, plasmid pPAV13 was constructed so as to encode a fusion of lcrV and the structural gene for protein A (i.e., all but the first 67 N-terminal amino acids of V antigen plus the signal sequence and immunoglobulin G-binding domains but not the cell wall-associated region of protein A). The resulting fusion peptide, termed PAV, could be purified to homogeneity in one step by immunoglobulin G affinity chromatography and was stable thereafter. Rabbit polyclonal gamma globulin directed against PAV provided excellent passive immunity against 10 minimum lethal doses of Y. pestis (P < 0.005) and Y. pseudotuberculosis (P < 0.005) but was ineffective against Y. enterocolitica. Protection failed after absorption with excess PAV, cloned whole V antigen, or a large (31.5-kDa) truncated derivative of the latter but was retained (P < 0.005) upon similar absorption with a smaller (19.3-kDa) truncated variant, indicating that at least one protective epitope resides internally between amino acids 168 and 275.
Renin-angiotensin system involvement in pressure-overload cardiac hypertrophy in rats (1990)

We have recently shown that the octapeptide angiotensin II is a potent stimulus of protein synthesis and growth in cultured cardiomyocytes. The present study was performed to determine if the renin-angiotensin system was involved in regulating cardiac cell growth in vivo. The pressure-overload cardiac hypertrophy model that develops in abdominal aorta-constricted rats was studied. At 7 and 15 days after abdominal aorta constriction, rats developed significant left ventricular hypertrophy. The increase in left ventricular mass was completely prevented in animals fed the angiotensin-converting enzyme inhibitor, enalapril maleate (0.2 mg/ml) in their drinking water. Cardiac afterload was the same in both groups of animals in that carotid artery pressures were not different in conscious awake aortic-constricted animals receiving and not receiving enalapril. These data suggest a direct growth effect of angiotensin II on the left ventricle and indicate a role for the renin-angiotensin system in the cardiac hypertrophy that develops in response to pressure overload. The presence and chamber localization of angiotensinogen mRNA was determined using Northern hybridization and S1 nuclease mapping analysis. Angiotensinogen mRNA, as determined by dot-blot hybridization analysis, was significantly increased in hypertrophied left ventricles at both 7 and 15 days after the surgery, when compared with sham-operated controls. The activity of the circulating renin-angiotensin system, as indexed by plasma renin activity was increased at 1 day following surgery [6.0 +/- 2.0 ng.ml-1.h-1 angiotensin I (control) vs. 41.8 +/- 10.9 ng.ml-1.h-1 angiotensin I (experimental)], but returned to control values by day 3 postoperatively.(ABSTRACT TRUNCATED AT 250 WORDS)
Mutation-dependent aggregation of tau protein and its selective depletion from the soluble fraction in brain of P301L FTDP-17 patients (2000)

Mutations in the gene for the microtubule-associated protein tau are associated with frontotemporal dementia and parkinsonism linked to chromosome 17 (FTDP-17). In this study we compared the presence of the P301L mutated tau protein from brain material of patients with that of the normal 4-repeat, using polyclonal antibodies specific for the P301L point mutation and its normal counterpart. We determined the relative ratio of mutated versus normal tau protein in the sarkosyl-soluble and -insoluble protein fractions from several brain regions. Although mutated and normal tau proteins are both present in the sarkosyl-insoluble deposits, quantitative analysis showed that the mutated protein is the major component. In the sarkosyl-soluble fraction of frontal and temporal cortex the overall ratio of 3-repeat versus 4-repeat tau isoforms is unchanged but there is a dramatic depletion of mutant tau protein. Furthermore, we observed an increase in tau-immunoreactive cleavage products with the P301L antibody, suggesting that the mutant protein is partly resistant to degradation and this is confirmed by pulse-chase experiments. This is the first direct evidence using patient material that shows a selective aggregation of mutant tau protein resulting in sarkosyl-insoluble deposits and the specific depletion of mutated tau protein in the soluble fraction.
In vitro gamma-carboxylation of a 59-residue recombinant peptide including the propeptide and the gamma-carboxyglutamic acid domain of coagulation factor IX. Effect of mutations near the propeptide cleavage site. (1990)

We report the expression in Escherichia coli of a fusion protein that contains the propeptide sequence and gamma-carboxyglutamic acid domain (residues -18 to 41) of human factor IX (FIXGla). CNBr was used to release FIXGla from the fusion protein. The 59-amino acid peptide is an efficient substrate for in vitro gamma-carboxylation. Its Km,app (0.55 microM) is several thousand-fold lower than that of the commonly used substrate FLEEL and about 5 times lower than proPT28 or proFIX28, (Hubbard, B. R., Jacobs, M., Ulrich, M. M. W., Walsh, C., Furie, B., and Furie, B. C. (1989) J. Biol. Chem. 264, 14145-14150). In addition, FIXGla is the first peptide substrate that is carboxylated in vitro to more than one gamma-carboxyglutamic acid/molecule (6-11 gamma-carboxyglutamic acids/molecule). We created peptides with mutations identical to FIXSan Dimas or FIXCambridge as well as a peptide with both mutations in the propeptide sequence and examined the effect of the mutations on in vitro carboxylation. Enzyme kinetic studies revealed no significant difference in Vmax/Km values between normal and mutant substrates. Maximum carbon dioxide incorporation was achieved with the double mutant. From these data we conclude the following. 1) FIXGla and its mutants are excellent substrates for studying the mechanism of gamma-carboxylase. 2) Although arginines at positions -4 and -1 are highly conserved in the propeptide sequence of all the vitamin K-dependent proteins, neither is critical for gamma-carboxylation.
Molecular Cloning and Functional Characterization of a Novel Mammalian Sphingosine Kinase Type 2 Isoform (2000)

Sphingosine-1-phosphate (SPP) has diverse biological functions acting inside cells as a second messenger to regulate proliferation and survival, and extracellularly, as a ligand for G protein-coupled receptors of the endothelial differentiation gene-1 subfamily. Based on sequence homology to murine and human sphingosine kinase-1 (SPHK1), which we recently cloned (Kohama, T., Oliver, A., Edsall, L. , Nagiec, M. M., Dickson, R., and Spiegel, S. (1998) J. Biol. Chem. 273, 23722-23728), we have now cloned a second type of mouse and human sphingosine kinase (mSPHK2 and hSPHK2). mSPHK2 and hSPHK2 encode proteins of 617 and 618 amino acids, respectively, both much larger than SPHK1, and though diverging considerably, both contain the conserved domains found in all SPHK1s. Northern blot analysis revealed that SPHK2 mRNA expression had a strikingly different tissue distribution from that of SPHK1 and appeared later in embryonic development. Expression of SPHK2 in HEK 293 cells resulted in elevated SPP levels. d-erythro-dihydrosphingosine was a better substrate than d-erythro-sphingosine for SPHK2. Surprisingly, d, l-threo-dihydrosphingosine was also phosphorylated by SPHK2. In contrast to the inhibitory effects on SPHK1, high salt concentrations markedly stimulated SPHK2. Triton X-100 inhibited SPHK2 and stimulated SPHK1, whereas phosphatidylserine stimulated both type 1 and type 2 SPHK. Thus, SPHK2 is another member of a growing class of sphingolipid kinases that may have novel functions.
Reactions of PTIO and Carboxy-PTIO with ·NO, ·NO2, andO2.¯ (2003)

Nitronyl nitroxides, such as derivatives of 2-phenyl-4,4,5,5,-tetramethylimidazoline-1-oxyl 3-oxide (PTIOs), react with *NO to form the corresponding imino nitroxides (PTIs) and *NO2. PTIOs are considered as monitors of *NO, stoichiometric sources of *NO2, biochemical and physiological effectors, specific tools for the elimination of *NO, and potential therapeutic agents. However, a better understanding of the chemical properties of PTIOs, especially following their reaction with *NO, is necessary to resolve many of the reported discrepancies surrounding the effects of PTIOs and to better characterize their potential therapeutic activity. We have generated electrochemically the oxidized and reduced forms of PTIO and carboxy-PTIO (C-PTIO), characterized their absorption spectra, and determined the reduction potentials for the oxoammonium/nitroxide and nitroxide/hydroxylamine couples. The rate constants for the reaction of *NO2 with PTIO and C-PTIO to form the corresponding oxoammonium cations (PTIO+s) and nitrite were determined to be (1.5 - 2) x 10(7) m-1 s-1. We have also shown that the reactions of PTIO+s with *NO form PTIOs and NO2-. The rate constants for these reactions are approximately 30-fold higher than those for the reactions of PTIOs with *NO or O2-*. The present results show that (i) the reaction of PTIOs with *NO forms solely PTIs and NO2- where [NO2-]/[PTI] varies between 1 and 2 depending on the steady-state concentrations of *NO. Consequently, quantitation of *NO is valid only at sufficiently low fluxes of *NO; (ii) the reaction of PTIOs with *NO can be used as a valid source of *NO2 only when the latter is effectively scavenged by an appropriate reductant; and (iii) the formation of peroxynitrite cannot be efficiently inhibited by PTIOs even under relatively low fluxes of *NO and O2-* and millimolar levels of PTIOs.