gebhart/patrepeval huggingface dataset:
Molecular cloning of dog mast cell tryptase and a related protease: structural evidence of a unique mode of serine protease activation (1989)

Mast cell tryptase is a secretory granule associated serine protease with trypsin-like specificity released extracellularly during mast cell degranulation. To determine the full primary structure of the catalytic domain and precursor forms of tryptase and to gain insight into its mode of activation, we cloned cDNAs coding for the complete amino acid sequence of dog mast cell tryptase and a second, possibly related, serine protease. Using RNA from dog mastocytoma cells, we constructed a cDNA library in lambda gt 10. Screening of the library with an oligonucleotide probe based on the N-terminal sequence of tryptase purified from the same cell source allowed us to isolate and sequence overlapping clones coding for dog mast cell tryptase. The tryptase sequence includes the essential residues of the catalytic triad and an aspartic acid at the base of the putative substrate binding pocket that confers P1 Arg and Lys specificity on tryptic serine proteases. The apparent N-terminal signal/activation peptide terminates in a glycine. A glycine in this position has not been observed previously in serine proteases and suggests a novel mode of activation. Additional screening of the library with a trypsinogen cDNA led to the isolation and sequencing of a full-length clone apparently coding for the complete sequence of a second tryptic serine protease (DMP) which is only 53.4% identical with the dog tryptase sequence but which contains an apparent signal/activation peptide also terminating in a glycine. Thus, the proteases encoded by these cloned cDNAs may share a common mode of activation from N-terminally extended precursors.
Fer Protein-Tyrosine Kinase Promotes Lung Adenocarcinoma Cell Invasion and Tumor Metastasis (2013)

Fer protein-tyrosine kinase is a potential therapeutic target in metastatic lung cancer. Mol Cancer Res; 11(8); 952-63. ©2013 AACR.
Diverse Sources of C. difficile Infection Identified on Whole-Genome Sequencing (2013)

Over a 3-year period, 45% of C. difficile cases in Oxfordshire were genetically distinct from all previous cases. Genetically diverse sources, in addition to symptomatic patients, play a major part in C. difficile transmission. (Funded by the U.K. Clinical Research Collaboration Translational Infection Research Initiative and others.).
Release and Recovery of Porcine Pepsin and Bovine Chymosin from Reverse Micelles: A New Technique Based on Isopropyl Alcohol Addition (1992)

After complete solubilization by the direct method, porcine pepsin was not released from AOT in isooctane reverse micelles even under aqueous-phase conditions which would not ordinarily allow uptake. Similarly, bovine chymosin, once forward-transferred at a pH below its isoelectric point, was not back-transferred into an aqueous contact phase buffered at a pH value above its isoelectric point. These results show that there is significant hysteresis in the forward- and backward-transfer processes and further imply that kinetics, and not equilibrium, control uptake or release processes for these enzymes. The addition of 10-15% isopropyl alcohol to the aqueous phase increases the rate of protein release dramatically and allows for nearly complete back-transfer of porcine pepsin and 70% back-transfer of bovine chymosin. IPA addition does not destroy the functional integrity of the system since forward transfer of bovine chymosin still occurs at pH values below (but not above) the pI of the protein.
Dibutyryl cyclic adenosine monophosphate effects in the ischemic-hypoxic cat. (1977)

The effects of dibutyryl cyclic adenosine monophosphate (dB-cAMP) were studied in fifty cats, twenty anesthetized with pentobarbital and thirty with halothane. Nasopharyngeal temperature and Paco2 were maintained at normal values. Somatosensory evoked response was monitored and used as an indicator of cerebral cortical function. Ischemic hypoxic injury was produced by an orthopedic tourniquet snugly applied around the animal's neck and inflated for a period of fifteen minutes. This method produces a reliable and reproducible injury. Times for recovery of the evoked response to 10% of control value, as well as immediate and long-term animal survival, were noted. The dBcAMP was administered at the end of the hypoxic insult. Treated animals recovered the evoked response earlier than the untreated controls and had better immediate and long-term survival rates.
HIF1 regulates WSB‐1 expression to promote hypoxia‐induced chemoresistance in hepatocellular carcinoma cells (2013)

WSB-1 is involved in DNA damage response by targeting homeodomain-interacting protein kinase 2 (HIPK2) for ubiquitination and degradation. Here, we report that hypoxia significantly up-regulates the expression of WSB-1 in human hepatocellular carcinoma (HCC) cells. We also provide evidence that WSB-1 is a target of hypoxia-inducible factor 1 (HIF-1). Silencing the expression of HIF-1α in HCC cells by RNA interference abolishes hypoxia-induced WSB-1 expression. Using chromatin immunoprecipitation and luciferase reporter assays, we identified a HRE of the WSB-1 gene. Moreover, silencing the expression of WSB-1 by RNA interference rescues HIPK2 expression in hypoxic HCC cells and promotes etoposide-induced cell death in hypoxic HCC cells. Taken together, these data shed light on the mechanisms underlying hypoxia-induced chemoresistance in HCC cells.
Antibodies Against a Peptide Sequence within the HIV Envelope Protein Crossreacts with Human Interleukin-2 (1988)

Recent investigations have identified a homologous sequence between the lymphokine interleukin 2 (IL-2) and the envelope protein of HIV. This homology is one of six amino acids corresponding to interleukin-2 (IL-2) residues 14-19 (Leu-Glu-His-Leu-Leu-Leu) and to the carboxy terminal six amino acids of HIV envelope protein gp41 (Leu-Glu-Arg-Ile-Leu-Leu). Thus, it is conceivable that an anti-HIV antibody response would generate antibodies which would crossreact with IL-2. We show here that the two peptides are recognized by the immune system as being almost identical. More importantly, antibodies against the HIV envelope peptide bind IL-2. Thus, these studies are the first step in investigating what could be characterized as an HIV-induced autoimmune response, that is, the induction of antibodies to the HIV envelope protein which also crossreact with IL-2.
Linking simulation model specification and parallel execution through UNITY (1991)

Presents the results of an attempt to bridge the gap between the requirements and philosophy of parallel programming (attention being focused on crucial efficiency-related implementation details) and the requirements and philosophy of a simulation model specification (attention being focused on correctly and simply describing the model behavior). K.M. Chandry and J. Misra's (1988) UNITY system is found to offer (or be amenable to) many of the features required to bridge this gap. UNITY can handle both a state-transition-based specification, which is a conventional parallel simulation program, and a data-flow-based specification. For the G/G/1 problem, the data-flow view leads to a more efficient solution. >
Immunohistochemical analysis of nestin and c‐kit and their significance in pancreatic tumors (2007)

The purpose of the present study was to clarify the difference of expression of two stem cell markers, nestin and c-kit, among various pancreatic epithelial tumors and evaluate their utility. Immunohistochemistry was done for 99 surgically resected pancreatic tumor specimens, including 20 ductal adenocarcinoma (DAC), two undifferentiated carcinomas (UC), 31 intraductal papillary-mucinous neoplasms (IPMN), six mucinous cystic neoplasms (MCN), five serous cystadenomas (SCA), six acinar cell carcinomas, two pancreatoblastoma (PB), eight solid-pseudopapillary neoplasms (SPN), and 19 endocrine neoplasms (EN). Nestin was widely expressed in four SPN, one PB, one SCA, sarcoma areas in two UC, one MCN, and one DAC, and an area of oncocytic component in one IPMN. Some of these SPN, SCA and sarcomatous or oncocytic components in which nestin was expressed, also coexpressed c-kit. Additionally, partial (scattered) expression of c-kit was observed in ductal elements of 16 DAC, eight IPMN, five MCN, and one UC, one SCA, and three EN. The eight c-kit-positive IPMN included four of 23 adenoma-to-border lesions and four of eight non-invasive-to-invasive carcinomas. The three EN were all carcinomas. These indicate that expression of two stem cell markers is different by tumor type, but the utility of judging direction or degree of differentiation and malignant grade on the basis of their expression status is suggested.
P4–407: A ketogenic diet reduces amyloid beta 40 and 42 in a mouse model of Alzheimer's disease (2006)

A well–defined risk factor for late onset Alzheimer's disease (AD) is possession of one or more alleles of the epsilon–4 variant (E4) of the apolipoprotein E gene. E4 is rare in populations with long historical exposure to agriculture, suggesting that consumption of a high carbohydrate (HC) diet may have selected against E4 carriers. The combination of E4 and a HC diet may explain the increased incidence of heart disease in E4 carriers and the reduced allele frequency in agriculture based populations. Similarly, it has been proposed that evolutionarily discordant HC diets may be primary cause of AD by two general mechanisms: (1) Prolonged excessive insulin/IGF signaling and (2) Disturbances in lipid metabolism. To test this hypothesis we examined the effect of low carbohydrate diet on a transgenic mouse model of AD. Studies in both humans and animal models have linked the consumption of cholesterol and saturated fats with amyloid–β (Aβ) deposition and development of AD. Yet, these studies did not examine high fat diets in combination with reduced carbohydrate intake. Starting at three months of age, two groups of female transgenic mice carrying the ‘London‘ APP mutation (APP/V717I) were fed either, a standard diet (SD) composed of high carbohydrate / low fat chow, or a ketogenic diet (KD) composed of very low carbohydrate / high saturated fat chow for 43 days. Animals fed the KD exhibited greatly elevated serum ketone body levels, as measured by β–hydroxybutyrate (3.85 ± 2.6 mM), compared to SD fed animals (0.29 ± 0.06 mM). In addition, animals fed the KD lost body weight (SD 22.2 ± 0.6 g vs. KD 17.5 ± 1.4 g, p = 0.0067). In contrast to earlier studies, the brief KD feeding regime significantly reduced total brain Aβ levels by approximately 25%. Therefore, dietary strategies aimed at reducing Aβ levels should take into account interactions of dietary components and the metabolic outcomes, in particular, levels of carbohydrates, total calories, and the presence of ketone bodies should be considered.
240-kDa proteasome inhibitor (CF-2) is identical to delta-aminolevulinic acid dehydratase. (1994)

The 240-kDa proteasome inhibitor has been reported to be an ATP-stabilized component (CF-2) of the 26 S proteasome complex. We now report that this inhibitory factor is indistinguishable from delta-aminolevulinic acid dehydratase (ALAD), the second enzyme in the pathway of heme synthesis, based upon the following observations: 1) common sequence of the first 14 N-terminal amino acids; 2) identical migration on native and SDS-polyacrylamide gel electrophoresis; 3) identical isoelectric points of pH 7.1; 4) cross-reactivity of specific polyclonal antibodies; 5) similar dehydratase and proteasome inhibitor specific activities in both proteins; and 6) the presence of both activities in recombinant ALAD. The dual role of this protein as CF-2 in the ATP/ubiquitin-dependent pathway and in heme synthesis may be an example of "gene sharing" and explains the unexpected abundance of ALAD noted in earlier studies.
Non-Intrusive Gaze Tracking Using Artificial Neural Networks (1993)

We have developed an artificial neural network based gaze tracking, system which can be customized to individual users. A three layer feed forward network, trained with standard error back propagation, is used to determine the position of a user's gaze from the appearance of the user's eye. Unlike other gaze trackers. Which normally require the user to wear cumbersome headgear, or to use a chin rest to ensure head mobility our system is entirely non-intrusive. Currently, the best intrusive gaze tracking systems are accurate to approximately O.75 degrees. In our experiments, we have been able to achieve an accuracy of 1.5 degrees, while allowing head mobility. In its current implementation, our system at 15 hz. In this paper we present an empirical analysis of the performance of a large number of artificial neural network architectures for this task. Suggestions for further explorations for neurally based gaze trackers are presented, and are related to other similar artificial neural network applications such as autonomous road following.
Pharmacologic marrow purging in murine T cell leukemia (1988)

Deoxycoformycin in combination with deoxyadenosine was used to purge 6C3HED malignant T cells from murine marrow in vitro. Adenosine deaminase activity of 6C3HED cells was ablated by incubation with 10(-6) mol/L deoxycoformycin (dCF). During a 12-hour incubation with 10(-6) mol/L dCF and 10(-4) mol/L deoxyadenosine, tumor cells sequentially accumulated dATP, became depleted of NAD followed by ATP, then died. More than 5 logs of 6C3HED cells were killed as measured by survival of mice injected with treated tumor cells. Identical incubation of 5 x 10(6) marrow cells did not interfere with rescue of syngeneic lethally irradiated mice. Long-term survival was demonstrated in 12 of 14 mice that received marrow that had been contaminated with 5% 6C3HED cells, incubated with deoxycoformycin and deoxyadenosine, then used to rescue lethally irradiated mice. This murine model provides information not available from in vitro assays and may be useful in the development of strategies to purge malignant T cells from marrow.
Self-assembly of novel trimers using dipyrromethene ligands (1999)

A. Thompson, S. J. Rettig and D. Dolphin, Chem. Commun., 1999, 631 DOI: 10.1039/A809192G
Microwave thin-film transistors using Si nanomembranes on flexible polymer substrate (2006)

Large-feature-size single-crystal Si thin-film transistors (TFTs) with fT of 1.9GHz and fmax of 3.1GHz were demonstrated on flexible polymer substrate. In this letter, the authors detail the fabrication process that enables TFTs, made on low-temperature flexible substrates, to operate at microwave frequencies under low bias voltages. The outstanding electrical performance results measured from these devices, such as high electron mobility, high current drive capability, and high frequency response characteristics, and the simple process procedures for producing these devices on flexible substrate make flexible electronics highly promising for power-efficient large-area radio-frequency and microwave applications.
An object infrastructure for Internet middleware. IBM on Component Broker (1998)

Middleware covers a variety of rapidly evolving capabilities. It began as software to fill the gaps as industry moved first to client-server and then to multi-tier distributed systems. As monolithic software was broken up and dispersed across servers, it became necessary to reconnect capabilities, manage disparate resources and functions, and access information and functions from remote requesters. This resulted in a host of software offerings for the middle tier. Component Broker is Internet middleware for distributed objects. It is designed to absorb complexity in the operational and development environment so that applications appear to be transparent, local and fully resourced. Component Broker is a complete package, with everything a developer needs to build, run and manage Web-enabled business objects, components and applications.
Reduction of Tumorigenicity by α3Integrin in a Rhabdomyosarcoma Cell Line (1996)

International audience
The Serine Protease Omi/HtrA2 Regulates Apoptosis by Binding XIAP through a Reaper-like Motif (2002)

The inhibitor-of-apoptosis proteins (IAPs) play a critical role in the regulation of apoptosis by binding and inhibiting caspases. Reaper family proteins and Smac/DIABLO use a conserved amino-terminal sequence to bind to IAPs in flies and mammals, respectively, blocking their ability to inhibit caspases and thus promoting apoptosis. Here we have identified the serine protease Omi/HtrA2 as a second mammalian XIAP-binding protein with a Reaper-like motif. This protease autoprocesses to form a protein with amino-terminal homology to Smac/DIABLO and Reaper family proteins. Full-length Omi/HtrA2 is localized to mitochondria but fails to interact with XIAP. Mitochondria also contain processed Omi/HtrA2, which, following apoptotic insult, translocates to the cytosol, where it interacts with XIAP. Overexpression of Omi/HtrA2 sensitizes cells to apoptosis, and its removal by RNA interference reduces cell death. Omi/HtrA2 thus extends the set of mammalian proteins with Reaper-like function that are released from the mitochondria during apoptosis.
Equilibrium Studies of Polynucleating Ligands. I. The Interaction of Tetrakis(aminomethyl)methane with Copper(II) and Hydrogen Ions1 (1966)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTEquilibrium Studies of Polynucleating Ligands. I. The Interaction of Tetrakis(aminomethyl)methane with Copper(II) and Hydrogen Ions1L. J. Zompa and R. F. BoguckiCite this: J. Am. Chem. Soc. 1966, 88, 22, 5186–5191Publication Date (Print):November 1, 1966Publication History Published online1 May 2002Published inissue 1 November 1966https://pubs.acs.org/doi/10.1021/ja00974a028https://doi.org/10.1021/ja00974a028research-articleACS PublicationsRequest reuse permissionsArticle Views85Altmetric-Citations4LEARN 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
Heme-Containing Oxygenases (1996)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTHeme-Containing OxygenasesMasanori Sono, Mark P. Roach, Eric D. Coulter, and John H. DawsonView Author Information Department of Chemistry and Biochemistry, University of South Carolina, Columbia, South Carolina 29208 Cite this: Chem. Rev. 1996, 96, 7, 2841–2888Publication Date (Web):November 7, 1996Publication History Received1 May 1996Revised13 August 1996Published online7 November 1996Published inissue 1 January 1996https://pubs.acs.org/doi/10.1021/cr9500500https://doi.org/10.1021/cr9500500research-articleACS PublicationsCopyright © 1996 American Chemical SocietyRequest reuse permissionsArticle Views13686Altmetric-Citations2122LEARN 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 SUBJECTS:Bioinorganic chemistry,Monomers,Oxides,Oxygen,Peptides and proteins Get e-Alerts
Targeted disruption ofSlc2a8(GLUT8) reduces motility and mitochondrial potential of spermatozoa (2008)

GLUT8 is a class 3 sugar transport facilitator which is predominantly expressed in testis and also detected in brain, heart, skeletal muscle, adipose tissue, adrenal gland, and liver. Since its physiological function in these tissues is unknown, we generated a Slc2a8 null mouse and characterized its phenotype. Slc2a8 knockout mice appeared healthy and exhibited normal growth, body weight development and glycemic control, indicating that GLUT8 does not play a significant role for maintenance of whole body glucose homeostasis. However, analysis of the offspring distribution of heterozygous mating indicated a lower number of Slc2a8 knockout offspring (30.5:47.3:22.1%, Slc2a8(+/+), Slc2a8(+/-), and Slc2a8(-/-) mice, respectively) resulting in a deviation (p=0.0024) from the expected Mendelian distribution. This difference was associated with lower ATP levels, a reduced mitochondrial membrane potential and a significant reduction of sperm motility of the Slc2a8 knockout in comparison to wild-type spermatozoa. In contrast, number and survival rate of spermatozoa were not altered. These data indicate that GLUT8 plays an important role in the energy metabolism of sperm cells.
Radial Distribution Load Flow Using Conic Programming (2006)

This paper shows that the load flow problem of a radial distribution system can be modeled as a convex optimization problem, particularly a conic program. The implications of the conic programming formulation are threefold. First, the solution of the distribution load flow problem can be obtained in polynomial time using interior-point methods. Second, numerical ill-conditioning can be automatically alleviated by the use of scaling in the interior-point algorithm. Third, the conic formulation facilitates the inclusion of the distribution power flow equations in radial system optimization problems. A state-of-the-art implementation of an interior-point method for conic programming is used to obtain the solution of nine different distribution systems. Comparisons are carried out with a previously published radial load flow program by R. Cespedes
[Tumor marker diagnosis in non-seminomatous testicular tumors using human chorionic gonadotropin (HCG) and alpha fetoprotein (AFP)]. (1985)

In 28 patients with non-seminomatous testicle tumour the tumour markers human chorionic gonadotropin (HCG) and alpha-fetoprotein (AFP) were determined radioimmunologically and enzymeimmunologically, respectively. While tumours with chorionic carcinoma (n = 8) always were marker-positive, in the embryonic carcinoma in 2 out of 10 cases falsely negative findings appeared. On 5 patients the biochemical monitoring of the course of the testicle tumour disease is demonstrated in detail by means of HCG and AFP and estimated as very helpful method. Advantages and problems of the marker diagnostics are shown and discussed. The positive marker findings were absolutely evident for a metastasation. On the other hand, marker negativation was not always to be equated with absence of a tumour and demanded a further control of the patient by means of all other available methods of diagnostics up to the second-look-operation.