gebhart/patrepeval huggingface dataset:
Cloning and sequencing of the cDNA encoding the human homologue of the murine immunoglobulin‐associated protein B29 (1992)

Membrane-bound immunoglobulins (Ig) on the surface of murine B cells are noncovalently associated with a heterodimeric protein complex of MB-1 and B29 (also called Ig-alpha and Ig-beta). The Ig-associated proteins are predicted to regulate the assembly and transport of the Ig complex to the cell surface and to couple membrane-bound Ig to intracellular signal transduction pathways. We have isolated and sequenced a full-length cDNA clone encoding the human homologue of the B29 protein. The predicted amino acid sequence was compared to its murine counterpart, to MB-1 and to the human T cell receptor (TcR)-associated CD3 proteins. The alignment of the human B29 protein with its murine counterpart revealed 90% homology in the C-terminal portion comprising the cytoplasmic tails, the transmembrane regions and the adjacent 26 amino acids of the extracellular regions. Only 59% homology was found in the rest of the Ig-like extracellular domains. The high degree of conservation observed for the C-terminal amino acids suggested that these domains of the proteins play important functional roles for the Ig complex. Indicative of this was the conservation of the antigen receptor tail motif D-(X)7-E/D-(X)2-Y-(X)2-L-(X)7-Y-(X)2-L/I which is thought to be a component of signal transduction pathways. This motif is also found in the human and murine MB-1 proteins as well as in the TcR-associated CD3 molecules. Further regions of homology between B29, MB-1 and the CD3 proteins included extracellular residues which were predicted to maintain the Ig-like structure, and hydrophilic residues within the transmembrane regions which may be utilized during the intracellular assembly and transport of the oligomeric Ig/MB-1/B29 or TcR/CD3 complexes. Thus the similarities found between B29, MB-1 and the CD3 proteins suggest conserved functions for both the Ig- and TcR-associated proteins.
Early Prediction of Response to Sunitinib After Imatinib Failure by 18F-Fluorodeoxyglucose Positron Emission Tomography in Patients With Gastrointestinal Stromal Tumor (2008)

Week 4 FDG-PET is useful for early assessment of treatment response and for the prediction of clinical outcome. Thus, it offers opportunities to individualize and optimize patient therapy.
Electromechanical coupling and output efficiency of piezoelectric bending actuators (1999)

Electromechanical coupling mechanisms in piezoelectric bending actuators are discussed in this paper based on the constitutive equations of cantilever bimorph and unimorph actuators. Three actuator characteristic parameters, (e.g., electromechanical coupling coefficient, maximum energy transmission coefficient, and maximum mechanical output energy) are discussed for cantilever bimorph and unimorph actuators. In the case of the bimorph actuator, if the effect of the bonding layer is negligible, these parameters are directly related to the transverse coupling factor lest. In the case of the unimorph actuator, these parameters also depend on the Young's modulus and the thickness of the elastic layer. Maximum values for these parameters can be obtained by choosing proper thickness ratio and Young's modulus ratio of elastic and piezoelectric layers. Calculation results on four unimorph actuators indicate that the use of stiffer elastic material is preferred to increase electromechanical coupling and output mechanical energy in unimorph actuators.
Adenoviral Gene Delivery Can Reprogram Human Fibroblasts to Induced Pluripotent Stem Cells (2009)

Mouse and human fibroblasts have been transformed into induced pluripotent stem (iPS) cells by retroviral transduction or plasmid transfection with four genes. Unfortunately, viral and plasmid DNA incorporation into chromosomes can lead to disruption of gene transcription and malignant transformation. Tumor formation has been found in offspring of mice generated from blastocysts made mosaic with iPS cells. To proceed with iPS cells for human therapy, reprogramming should be done with transient gene expression. Recently, adenoviral vectors have been used to produce mouse iPS cells without viral integration. Here, we report the successful creation of human iPS cells from embryonic fibroblasts using adenoviral vectors expressing c-Myc, Klf4, Oct4, and Sox2. After screening 12 colonies, three stable iPS cell lines were established. Each cell line showed human embryonic stem cell morphology and surface markers. Southern blots and polymerase chain reaction demonstrated that there was no viral DNA integration into iPS cells. Fingerprinting and karyotype analysis confirmed that these iPS cell lines are derived from the parent human fibroblasts. The three human iPS cell lines can differentiate to all three germ layers in vitro, including dopaminergic neurons. After s.c. injection into nonobese diabetic-severe combined immunodeficient mice, each human iPS line produced teratomas within 5 weeks postimplantation. We conclude that adenoviral vectors can reprogram human fibroblasts to pluripotent stem cells for use in individualized cell therapy without the risk for viral or oncogene incorporation.
Synthesis of pyrazoles and condensed pyrazoles (1999)

Abstract This review introduces the synthesis of various pyrazoles reported by us and some other research groups during 1989–1998. Some of papers in this review deal with the development of potent pyrazoles or with the synthesis of potential pyrazoles aiming at agrochemicals and/or drugs.
Water-soluble CO-releasing molecules reduce the development of postoperative ileus via modulation of MAPK/HO-1 signalling and reduction of oxidative stress (2008)

Pre-treatment with CO-RMs markedly reduced IM-induced intestinal muscularis inflammation. These protective effects are, at least in part, mediated through induction of HO-1, in a p38-dependent manner, as well as reduction of ERK1/2 activation. In addition, CORM-induced HO-1 induction reduces the early "oxidative burst" in the mucosa following IM.
Nucleotide sequence and the encoded amino acids of human apolipoprotein A-I mRNA. (1984)

The cDNA clones encoding the precursor form of human liver apolipoprotein A-I (apoA-I), preproapoA-I, have been isolated from a cDNA library. A 17-base synthetic oligonucleotide based on residues 108-113 of apoA-I and a 26-base primer-extended, dideoxynucleotide-terminated cDNA were used as hybridization probes to select for recombinant plasmids bearing the apoA-I sequence. The complete nucleic acid sequence of human liver preproapoA-I has been determined by analysis of the cloned cDNA. The sequence is composed of 801 nucleotides encoding 267 amino acid residues. PreproapoA-I contains an 18-amino-acid prepeptide and a 6-amino-acid propeptide connected to the amino terminus of the 243-amino acid mature apoA-I. Southern blotting analysis of chromosomal DNA obtained from peripheral blood indicated the apoA-I gene is contained in a 2.1-kilobase-pair Pst I fragment and there is no gross difference in structural organization between the normal apoA-I gene and the Tangier disease apoA-I gene.
Production of K5 Polysaccharides of Different Molecular Weight by Escherichia Coli (1996)

An investigation was made of the molecular weight of the Escherichia coli antigenic K5 polysaccharide. Two components with molecular weights of 16,000 and 1,500 were observed. The ratio of these two components depended on a lyase produced by the same E. coli. This lyase acts by a β-elimination mechanism to depolymerize the K5. At the end of the fermentation the thermally treated (to inactivate the lyase) and untreated twenty-four-hour-old cultures each contained two K5 components of different M w , in different ratios. The two components were monitored over a fermentation time-course. "3C-NMR spectrometry was employed to verify the lyase mechanism of action.
A spectroscopic and molecular mechanics investigation on a series of AIB-based linear peptides and a peptide template, both containing tryptophan and a nitroxide derivative as probes (2000)

Linear Aib-based hexapeptides, of the general formula Ac-Toac-(Aib)(n) -Trp-(Aib)(r) -OtBu [T(Aib)(n) Trp], where n + r = 4, and Toac is a nitroxide spin-labeled C(alpha,alpha)-disubstituted glycine, were investigated by steady-state and time-resolved fluorescence measurements in different solvent media. A related peptide, i.e., cyclo-¿Orn-[(Aib)(2)-Trp-(Aib)(2)-Z]-Asp-[(Aib)(2)-Toac-(Aib)(2)-+ ++OtBu ]¿ [T-cyclo-Trp], was also studied by the same techniques. It is a L-Orn, L-Asp diketopiperazine template, to which two Aib-based chains are covalently attached, each one containing one chromophore only, i.e., Trp or Toac. Whatever the solvent, in the former series of peptides quenching of the excited Trp exhibits three lifetime components and proceeds on a time scale from subnanoseconds to a few nanoseconds, while in the case of the template the same process occurs entirely on the nanoscale time scale, exhibiting two lifetimes only. The ir absorption spectral patterns suggest that the backbone of the peptides examined is in the 3(10)-helical conformation, as earlier determined by x-ray diffraction for T(Aib)(3)Trp in the crystal state. In all cases, the fluorescence results are satisfactorily described by a dipole-dipole interaction mechanism, in which electronic energy transfer takes place from the excited Trp to Toac, provided the mutual orientation between the fluorophore and Toac is taken into account. This implies that interconversion among conformational substates is slow on the time scale of the transfer process, allowing us to estimate the dynamics of the process. Molecular mechanics calculations coupled with time decay data made it possible to build up the most probable structures of these peptides in solution.
Effectiveness of home respiratory polygraphy for the diagnosis of sleep apnoea and hypopnoea syndrome (2011)

HRP is an alternative to polysomnography in patients with suspected SAHS. Telematic procedures may help patients with limited mobility and those who live a long way from the sleep centre.
Stochastic cloning: a generalized framework for processing relative state measurements (2003)

Introduces a generalized framework, termed "stochastic cloning," for processing relative state measurements within a Kalman filter estimator. The main motivation and application for this methodology is the problem of fusing displacement measurements with position estimates for mobile robot localization. Previous approaches have ignored the developed interdependencies (cross-correlation terms) between state estimates of the same quantities at different time instants. By directly expressing relative state measurements in terms of previous and current state estimates, the effect of these crosscorrelation terms on the estimation process is analyzed and considered during updates. Simulation and experimental results validate this approach.
Making global digital libraries work (1998)

There are many technical challenges in designing the architecture of globally-distributed, federated digital libraries. This paper focuses on the problem of global resource discovery and describes a service architecture and server topology for improving the performance and reliability of that process. The technique described is based on three concepts. Connectivity regions are groups of sites with relatively good network connectivity. Collection services provide the necessary metainformation so that a group of digital library servers can interoperate as a collection. Collection views represent the configuration of the collection that conforms to connectivity regions. The work that is described here is based on experience with the NCSTRL international digital library of computer science research and is implemented as part of the Dienst architecture upon which NCSTRL is based.
Progress in document reconstruction (2003)

We combine information from a language model and character image pattern matching to iteratively reduce ambiguity in document images. Combining word shape information and lists of similar bitmap patterns in a document at least partially resolves the character content without optical character recognition. We present the output in various ways. suitable for human readers or for differing downstream processes.
Preclinical Characteristics of the Hepatitis C Virus NS3/4A Protease Inhibitor ITMN-191 (R7227) (2008)

Future treatments for chronic hepatitis C virus (HCV) infection are likely to include agents that target viral components directly. Here, the preclinical characteristics of ITMN-191, a peptidomimetic inhibitor of the NS3/4A protease of HCV, are described. ITMN-191 inhibited a reference genotype 1 NS3/4A protein in a time-dependent fashion, a hallmark of an inhibitor with a two-step binding mechanism and a low dissociation rate. Under preequilibrium conditions, 290 pM ITMN-191 half-maximally inhibited the reference NS3/4A protease, but a 35,000-fold-higher concentration did not appreciably inhibit a panel of 79 proteases, ion channels, transporters, and cell surface receptors. Subnanomolar biochemical potency was maintained against NS3/4A derived from HCV genotypes 4, 5, and 6, while single-digit nanomolar potency was observed against NS3/4A from genotypes 2b and 3a. Dilution of a preformed enzyme inhibitor complex indicated ITMN-191 remained bound to and inhibited NS3/4A for more than 5 h after its initial association. In cell-based potency assays, half-maximal reduction of genotype 1b HCV replicon RNA was afforded by 1.8 nM; 45 nM eliminated the HCV replicon from cells. Peginterferon alfa-2a displayed a significant degree of antiviral synergy with ITMN-191 and reduced the concentration of ITMN-191 required for HCV replicon elimination. A 30-mg/kg of body weight oral dose administered to rats or monkeys yielded liver concentrations 12 h after dosing that exceeded the ITMN-191 concentration required to eliminate replicon RNA from cells. These preclinical characteristics compare favorably to those of other inhibitors of NS3/4A in clinical development and therefore support the clinical investigation of ITMN-191 for the treatment of chronic hepatitis C.
Effects of Erythropoietin-Dextran Microparticle-Based PLGA/PLA Microspheres on RGCs (2012)

A single intravitreal injection of EPO-dextran PLGA/PLA microspheres appeared to have a prolonged protective effect on RGCs in optic nerve crush rats. The PLGA/PLA microspheres may be a feasible protein delivery system, such as EPO, to intravitreal injection for retinal degeneration diseases.
Tetrahydro-pyrrolo-[2,3-b]indole-1,2,8-tricarboxylic acid ester in enantiospecific preparation of α-methyltryptophan: application in the preparation of carbon-14 labeled PD 145942 and PD 154075 (1997)

[2R-(2α,3aβ,8aβ)]-2,3,3a,8a-Tetrahydro-pyrrolo[2,3-b]indole-1,2,8-tricarboxylic acid-1,8-dibenzyl ester 2-methyl ester, its [2S-(2β,3aα,8aα)]-isomer, and the tribenzyl ester analogs were prepared. From these [2,3-b]indole-1,2,8-tricarboxylic acid esters we accomplished a simple, high yielding preparation of enantiopure α-methyltryptophan and methyl ester derivatives. Using this protocol, we inexpensively made (R)-α-[14C]methyltryptophan methyl ester, and in subsequent reactions converted it into [1-(2-hydroxy-cyclohexylcarbamoyl)-2-(1H-indol-3-yl)-1-[14C]methyl-ethyl]carbamic acid adamantan-2-yl ester (PD 145942) and [2-(1H-indole-3-yl)-1-[14C]methyl-1(1-phenyl-ethylcarbamoyl)-ethyl]carbamic acid benzofuran-2-yl methyl ester (PD 154075). Both of these compounds are drug candidates in preclinical study for the treatment of anxiety and emesis respectively. © 1997 John Wiley & Sons, Ltd.
Ultrasensitive immunoassay techniques (1993)

Ultrasensitive detection of clinically important substances using assays based on ligand:binder interactions has revolutionized laboratory medicine. Various strategies have been perfected to push the analytical sensitivity of ligand:binder assays (e.g., immunoassay, blotting, nucleic acid hybridization assay) into the attomole and zeptomole region (10(-18)-10(-21) mol). These include the use of labels with amplifying properties (e.g., enzymes), multiple labeling, and cascade reactions. In addition a wide range of ultrasensitive luminescent detection reactions have been developed for conventional enzyme labels based on chemiluminescent, bioluminescent, and time-resolved fluorescent reactions.
Smith's Blood Diseases of Infancy and Childhood (1979)

The authors of this lucid and comprehensive textbook have spared me from an awkward position. When I first received this textbook for review from the editor, I was tempted to return it and ask him to seek another critic. I felt that I had valid reasons to decline comment: the coeditors of the book were either my friends or respected colleagues, I was the coeditor of a competing textbook in the field that contained contributions from some of these writers, and, finally, I had great respect for the late Carl Smith, the father of this book. Criticism might be painful or appear self-serving. The moment I began thumbing through the book I was trapped. It was well organized, clearly written, and well designed for its intended audience of "medical students, pediatric house staff officer, trainee in pediatric hematology-oncology, pediatrician, family physician, laboratory technologist, pathologist, and internist-hematologist who dabbles in pediatrics."
Therapeutic strategies in an outbreak scenario to treat the novel coronavirus originating in Wuhan, China (2020)

A novel coronavirus (2019-nCoV) originating in Wuhan, China presents a potential respiratory viral pandemic to the world population. Current efforts are focused on containment and quarantine of infected individuals. Ultimately, the outbreak could be controlled with a protective vaccine to prevent 2019-nCoV infection. While vaccine research should be pursued intensely, there exists today no therapy to treat 2019-nCoV upon infection, despite an urgent need to find options to help these patients and preclude potential death. Herein, I review the potential options to treat 2019-nCoV in patients, with an emphasis on the necessity for speed and timeliness in developing new and effective therapies in this outbreak. I consider the options of drug repurposing, developing neutralizing monoclonal antibody therapy, and an oligonucleotide strategy targeting the viral RNA genome, emphasizing the promise and pitfalls of these approaches. Finally, I advocate for the fastest strategy to develop a treatment now, which could be resistant to any mutations the virus may have in the future. The proposal is a biologic that blocks 2019-nCoV entry using a soluble version of the viral receptor, angiotensin-converting enzyme 2 (ACE2), fused to an immunoglobulin Fc domain, providing a neutralizing antibody with maximal breath to avoid any viral escape, while also helping to recruit the immune system to build lasting immunity. The sequence of the ACE2-Fc protein is provided to investigators, allowing its possible use in recombinant protein expression systems to start producing drug today to treat patients under compassionate use, while formal clinical trials are later undertaken. Such a treatment could help infected patients before a protective vaccine is developed and widely available in the coming months to year(s).
Universal modeling and coding (1981)

The problems arising in the modeling and coding of strings for compression purposes are discussed. The notion of an information source that simplifies and sharpens the traditional one is axiomatized, and adaptive and nonadaptive models are defined. With a measure of complexity assigned to the models, a fundamental theorem is proved which states that models that use any kind of alphabet extension are inferior to the best models using no alphabet extensions at all. A general class of so-called first-in first-out (FIFO) arithmetic codes is described which require no alphabet extension devices and which therefore can be used in conjunction with the best models. Because the coding parameters are the probabilities that define the model, their design is easy, and the application of the code is straightforward even with adaptively changing source models.
Self healing of defected graphene (2013)

For electronics applications, defects in graphene are usually undesirable because of their ability to scatter charge carriers, thereby reduce the carrier mobility. It would be extremely useful if the damage can be repaired. In this work, we employ Raman spectroscopy, X-ray photoemission spectroscopy, transmission electron microscopy, and electrical measurements to study defects in graphene introduced by argon plasma bombardment. We have found that majority of these defects can be cured by a simple thermal annealing process. The self-healing is attributed to recombination of mobile carbon adatoms with vacancies. With increasing level of plasma induced damage, the self-healing becomes less effective.
Hereditary inclusion body myopathy (2003)

<b><i>Background:</i></b> Recessively inherited hereditary inclusion body myopathy (HIBM) with quadriceps sparing was initially described only in Jews originating from the region of Persia. The recent identification of the gene responsible for this myopathy and the common “Persian Jewish mutation” (M712T) enabled the re-evaluation of atypical phenotypes and the epidemiology of HIBM in various communities in the Middle East. <b><i>Objective:</i></b> To test for the M712T mutation in the DNA from HIBM patients in the Middle East. <b><i>Methods:</i></b> DNA from all suspected HIBM patients was tested for the M712T mutation. Unaffected members of families with genetically proven HIBM were studied too. In the majority of families, haplotype construction with markers spanning the 700-kb region of the HIBM gene was performed. <b><i>Results:</i></b> One hundred twenty-nine HIBM patients of 55 families (Middle Eastern Jews, Karaites, and Arab Muslims of Palestinian and Bedouin origin) were homozygous for the M712T mutation, and all carried the same haplotype. Five clinically unaffected subjects were also homozygous for the common mutation and haplotype, including two older adults (ages 50 and 68 years). Atypical features with this same mutation were marked quadriceps weakness in five patients, proximal weakness only in two patients, facial weakness in three patients, and a muscle biopsy showing perivascular inflammation in one patient. <b><i>Conclusions:</i></b> The phenotypic spectrum of recessive HIBM is wider than previously described, and the diagnostic criteria for this myopathy must be changed. The Middle Eastern cluster is the result of a founder mutation, with incomplete penetrance, that is approximately 1,300 years old and is not limited to Jews.
Color science : concepts and methods, quantitative data and formulas (1967)

NRC publication: Yes
Development of a Sandwich ELISA Test for Arginase Measurement Based on Monoclonal Antibodies (2001)

Human arginase was purified from liver and two monoclonal antibodies (MAbs), HA1 and HA2, were produced by fusion of spleen cells from an arginase-immunized BALB/c mouse and the NS-1 myeloma cell line. Both MAbs were of the IgG3 subclass and contained the kappa light chain. HA1 inhibited arginase activity, suggesting that it binds to the arginase catalytic site. HA1 and a horseradish peroxidase-conjugated polyclonal rabbit anti-human arginase antibody were used to develop a sandwich enzyme-linked immunoadsorbent assay (ELISA) for the quantification of human arginase, which can be used in the 1 to 300 ng/mL range. Because of its sensitivity and specificity, this MAb can be successfully applied to the ELISA quantification of arginase in serum and culture supernatants.