gebhart/patrepeval huggingface dataset:
A 3-Phosphoinositide-dependent Protein Kinase-1 (PDK1) Docking Site Is Required for the Phosphorylation of Protein Kinase Cζ (PKCζ) and PKC-related Kinase 2 by PDK1 (2000)

Members of the AGC subfamily of protein kinases including protein kinase B, p70 S6 kinase, and protein kinase C (PKC) isoforms are activated and/or stabilized by phosphorylation of two residues, one that resides in the T-loop of the kinase domain and the other that is located C-terminal to the kinase domain in a region known as the hydrophobic motif. Atypical PKC isoforms, such as PKCzeta, and the PKC-related kinases, like PRK2, are also activated by phosphorylation of their T-loop site but, instead of possessing a phosphorylatable Ser/Thr in their hydrophobic motif, contain an acidic residue. The 3-phosphoinositide-dependent protein kinase (PDK1) activates many members of the AGC subfamily of kinases in vitro, including PKCzeta and PRK2 by phosphorylating the T-loop residue. In the present study we demonstrate that the hydrophobic motifs of PKCzeta and PKCiota, as well as PRK1 and PRK2, interact with the kinase domain of PDK1. Mutation of the conserved residues of the hydrophobic motif of full-length PKCzeta, full-length PRK2, or PRK2 lacking its N-terminal regulatory domain abolishes or significantly reduces the ability of these kinases to interact with PDK1 and to become phosphorylated at their T-loop sites in vivo. Furthermore, overexpression of the hydrophobic motif of PRK2 in cells prevents the T-loop phosphorylation and thus inhibits the activation of PRK2 and PKCzeta. These findings indicate that the hydrophobic motif of PRK2 and PKCzeta acts as a "docking site" enabling the recruitment of PDK1 to these substrates. This is essential for their phosphorylation by PDK1 in cells.
Clustering in packet radio networks (1983)

Packet Radio Networks (PRNET) have developed rapidly during recent years. One basic problem is how to organize a PRNET. In this report we consider the architectural organization of PRNET as a cluster head set problem. We prove that the optimal cluster head set problem is NPcomplete. Several suboptimal cluster head set algorithms are proposed. Computer simulation programs to implement these algorithms are given, and the results are discussed.
A Brief History of the Department of Archaeology, University of Calgary (1993)

During the early 1960s, largely as a result of the "baby boom" of the 1940s, large numbers of students of college age surfaced. They demanded a wider scope for higher education in Canada. The period saw not only the expansion of facilities in already established universities, but also the creation of many new institutions, among them the University of Calgary.<br /><br />During the early 1960s, the number of full-time professionals practicing and teaching anthropological archaeology in Canada could be counted on the fingers of two hands. The centre of gravity was the National Museum of Canada in Ottawa; of the three to four research archaeologists there, Dr. James V. Wright and Dr. George MacDonald offered occasional instruction at nearby universities. As for other universities, Dr. J. Norman Emerson held a full-time position at the University of Toronto, as did Dr. William J. Mayer-Oakes at the University of British Columbia. Mayer-Oakes was then able to devote part of his valuable time to archaeology while Dr. Richard G. Forbis of the Glenbow Foundation served as sessional lecturer at the University of Alberta, Calgary Branch.
Panoramic Video Techniques for Improving Presence in Virtual Environments (2011)

Photo-realistic techniques that use sequences of images captured from a real environment can be used to create virtual environments (VEs). Unlike 3D modelling techniques, the required human work and computation are independent of the amounts of detail and complexity that exist in the scene, and in addition they provide great visual realism. In this study we created virtual environments using three different photo-realistic techniques: panoramic video, regular video, and a slide show of panoramic still images. While panoramic video offered continuous movement and the ability to interactively change the view, it was the most expensive and time consuming to produce among the three techniques. To assess whether the extra effort needed to create panoramic video is warranted, we analysed how effectively each of these techniques supported a sense of presence in participants. We analysed participants' subjective sense of presence in the context of a navigation task where they travelled along a route in a VE and tried to learn the relative locations of the landmarks on the route. Participants' sense of presence was highest in the panoramic video condition. This suggests that the effort in creating panoramic video might be warranted whenever high presence is desired.
Frequence (2014)

Extracting insights from temporal event sequences is an important challenge. In particular, mining frequent patterns from event sequences is a desired capability for many domains. However, most techniques for mining frequent patterns are ineffective for real-world data that may be low-resolution, concurrent, or feature many types of events, or the algorithms may produce results too complex to interpret. To address these challenges, we propose Frequence, an intelligent user interface that integrates data mining and visualization in an interactive hierarchical information exploration system for finding frequent patterns from longitudinal event sequences. Frequence features a novel frequent sequence mining algorithm to handle multiple levels-of-detail, temporal context, concurrency, and outcome analysis. Frequence also features a visual interface designed to support insights, and support exploration of patterns of the level-of-detail relevant to users. Frequence's effectiveness is demonstrated with two use cases: medical research mining event sequences from clinical records to understand the progression of a disease, and social network research using frequent sequences from Foursquare to understand the mobility of people in an urban environment.
Species-specific oligonucleotide probes for the detection and identification ofLactobacillusisolated from mouse faeces (2005)

The oligonucleotide probe set for Lactobacillus species harboured in the mouse intestine, can be used for rapid identification of lactobacilli and monitoring of the faecal Lactobacillus community.
Biodegradable Injectable In Situ Depot‐Forming Drug Delivery Systems (2006)

The scope of drug-delivery systems has expanded significantly in recent years providing new ways to deliver life saving therapeutics to patients. The development of new injectable drug-delivery systems has provided new vistas and opened up unexplored horizons in the field of science, particularly in controlled drug delivery since these systems possess unique advantages over traditional ones, which include ease of application, and localized and prolonged drug delivery. In the past few years, an increasing number of such systems has been reported in the literature for various biomedical applications, including drug delivery, cell encapsulation, and tissue repair. These are injectable fluids that can be introduced into the body in a minimally invasive manner prior to solidifying or gelling within the desired site. For this purpose both natural (chitosan, alginates) as well as synthetic polymers (PEGylated polyesters, ricinoleic acid-based polymers) have been utilized. These systems have been explored widely for the delivery of various therapeutic agents ranging for anti-neoplastic agents like paclitaxel to proteins and peptides such as insulin, almost covering every segment of the pharmaceutical field. This manuscript focuses on the recent advancements in the area of in situ forming biodegradable polymeric drug-delivery systems.
Pharmacology of botulinum toxin and implications for use in disorders of muscle tone (1993)

1Assistant Professor, Department of Rehabilitation Medicine, Tufts University School of Medicine, Boston, Massachusetts 2Attending Physician, Department of Rehabilitation Medicine, Spaulding Rehabilitation Hospital, Boston, Massachusetts
Cytochrome P450 CYP1B1 over-expression in primary and metastatic ovarian cancer (2001)

Ovarian cancer is the most frequent cause of death from gynaecological malignancies world wide. Little improvement has been made in the long-term outcome of this disease, with the 5-year survival of patients only 30%. This poor prognosis is due to the late presentation of the disease and to the unpredictable response of ovarian cancer to chemotherapy. The cytochrome P450 enzymes are a superfamily of haemoproteins, known to be involved in the metabolic activation and/or detoxification of a number of anti-cancer drugs. CYP1B1 is a tumour-related form of cytochrome P450 which is over expressed in a wide variety of primary tumours of different histological type. The presence of CYP1B1 may be of importance in the modulation of these tumours to anti-cancer drugs. We have conducted a comprehensive immunohistochemical investigation, into the presence of cytochrome P450 CYP1B1 in primary and metastatic ovarian cancer. The key findings of this study are the increased expression of CYP1B1 in the majority of ovarian cancers investigated (92%), with a strong correlation demonstrated between CYP1B1 expression in both primary and metastatic ovarian cancer (P = 0.005 Spearman's rank correlation test). In contrast no detectable CYP1B1 was found in normal ovary.
Identification of Cell Surface Glycoprotein Markers for Glioblastoma-Derived Stem-Like Cells Using a Lectin Microarray and LC−MS/MS Approach (2010)

Despite progress in the treatment of glioblastoma, more than 95% of patients suffering from this disease still die within 2 years. Recent findings support the belief that cancer stem-like cells are responsible for tumor formation and ongoing growth. Here a method combining lectin microarray and LC-MS/MS was used to discover the cell surface glycoprotein markers of a glioblastoma-derived stem-like cell line. Lectin microarray analysis of cell surface glycans showed that two galactose-specific lectins Trichosanthes kirilowii agglutinin (TKA) and Peanut agglutinin (PNA) could distinguish the stem-like glioblastoma neurosphere culture from a traditional adherent glioblastoma cell line. Agarose-bound TKA and PNA were used to capture the glycoproteins from the two cell cultures, which were analyzed by LC-MS/MS. The glycoproteins were quantified by spectral counting, resulting in the identification of 12 and 11 potential glycoprotein markers from the TKA and PNA captured fractions respectively. Almost all of these proteins were membrane proteins. Differential expression was verified by Western blotting analysis of 6 interesting proteins, including the up-regulated Receptor-type tyrosine-protein phosphatase zeta, Tenascin-C, Chondroitin sulfate proteoglycan NG2, Podocalyxin-like protein 1 and CD90, and the down-regulated CD44. An improved understanding of these proteins may be important for earlier diagnosis and better therapeutic targeting of glioblastoma.
HIV-1 encoded candidate micro-RNAs and their cellular targets (2004)

MicroRNAs (miRNAs) are small RNAs of 21-25 nucleotides that specifically regulate cellular gene expression at the post-transcriptional level. miRNAs are derived from the maturation by cellular RNases III of imperfect stem loop structures of ~ 70 nucleotides. Evidence for hundreds of miRNAs and their corresponding targets has been reported in the literature for plants, insects, invertebrate animals, and mammals. While not all of these miRNA/target pairs have been functionally verified, some clearly serve roles in regulating normal development and physiology. Recently, it has been queried whether the genome of human viruses like their cellular counterpart also encode miRNA. To date, there has been only one report pertaining to this question. The Epstein-Barr virus (EBV) has been shown to encode five miRNAs. Here, we extend the analysis of miRNA-encoding potential to the human immunodeficiency virus (HIV). Using computer-directed analyses, we found that HIV putatively encodes five candidate pre-miRNAs. We then matched deduced mature miRNA sequences from these 5 pre-miRNAs against a database of 3' untranslated sequences (UTR) from the human genome. These searches revealed a large number of cellular transcripts that could potentially be targeted by these viral miRNA (vmiRNA) sequences. We propose that HIV has evolved to use vmiRNAs as a means to regulate cellular milieu for its benefit.
Human Mesenchymal Stem Cells Differentiate to a Cardiomyocyte Phenotype in the Adult Murine Heart (2002)

The purified hMSCs from adult bone marrow engrafted in the myocardium appeared to differentiate into cardiomyocytes. The persistence of the engrafted hMSCs and their in situ differentiation in the heart may represent the basis for using these adult stem cells for cellular cardiomyoplasty.
Lack of efficacy of polysorbate 60 in the treatment of male pattern baldness (1985)

• Anecdotal reports have indicated that the nonionic detergent polysorbate 60 may be of some value in male pattern baldness. In this double-blind placebo-controlled trial, a photographic and objective scalp measurement system was developed to assess new hair growth. No significant difference was detected between subjects treated for 16 weeks with polysorbate 60 and control subjects treated with glycerin, indicating that polysorbate 60 is ineffective. Of the 141 subjects who completed the trial, 25% perceived that they grew new hair, 67% said they did not, and 8% were uncertain. Subject-reported new hair growth did not correlate with measurements, indicating that the placebo effect may be a major factor in reports of baldness "cures." (<i>Arch Intern Med</i>1985;145:1454-1458)
Model for parametric acoustic sources (1977)

A theoretical model for the difference-frequency radiation from a parametric acoustic array is developed. The (two-frequency) primary wave is assumed to be radiated by a piston source and may be effectively limited in either the nearfield or the farfield of the piston. Either small-signal absorption or saturation of the primary beam may serve as the limiting mechanism. The parametric gain is defined as a complex number whose (i) magnitude is the ratio of secondary and primary source pressures and (ii) phase is an indication of how much generation occurs within the nearfield and how much within the farfield of the primary beam. The parametric gain is evaluated as a function of the primary-to-secondary frequency (downshift) ratio, the amount of small-signal primary absorption within the nearfield, and a ’’scaled’’ primary source level. Then, the parametric gain may be used to determine the beam pattern characteristics via a simple closed-form expression. The theoretical results are found to be in good agreement with other theoretical treatments (within their realms of applicability) and in fair agreement with experimental results from various types of parametric sources. The discrepancies that do exist appear to stem from the approximation that the primary nearfield can be treated as a plane wave.
Differences in multidrug resistance phenotype and matrix metalloproteinases activity between endothelial cells from normal brain and glioma (2003)

Endothelial cells (ECs) are new targets for tumor therapy. In this work, we purified endothelial cells from intracerebral and subcutaneous experimental gliomas as well as from normal brain in order to define some of the phenotypical differences between angiogenic and quiescent brain vasculature. We show that the multidrug resistance genes encoding drug efflux pumps at the brain endothelium are expressed differently in normal and tumoral vasculature. We also show that ECs from gliomas present increased activity of gelatinase B (MMP9), key enzyme in the angiogenic process. Importantly, we observe a different phenotype between ECs in the intracerebral and subcutaneous models. Our results provide molecular evidence of phenotypic distinction between tumoral and normal brain vasculature and indicate that the EC phenotype depends on interactions both with tumor cells and also with the microenvironment.
VEGF overexpression induces post-ischaemic neuroprotection, but facilitates haemodynamic steal phenomena (2004)

Therapeutic angiogenesis with vascular endothelial growth factor (VEGF) is a clinically promising strategy in ischaemic disease. The pathophysiological consequences of enhanced vessel formation, however, are poorly understood. We established mice overexpressing human VEGF165 under a neuron-specific promoter, which exhibited an increased density of brain vessels under physiological conditions and enhanced angiogenesis after brain ischaemia. Following transient intraluminal middle cerebral artery (MCA) occlusions, VEGF overexpression significantly alleviated neurological deficits and infarct volume, and reduced disseminated neuronal injury and caspase-3 activity, confirming earlier observations that VEGF has neuroprotective properties. Brain swelling was not influenced in VEGF-overexpressing animals, while sodium fluorescein extravasation was moderately increased, suggesting that VEGF induces a mild blood-brain barrier leakage. To elucidate whether enhanced angiogenesis improves regional cerebral blood flow in the ischaemic brain, [14C]iodoantipyrine autoradiography was performed. Autoradiographies revealed that VEGF induces haemodynamic steal phenomena with reduced blood flow in ischaemic areas and increased flow values only outside the MCA territory. Our data demonstrate that VEGF protects neurons from ischaemic cell death by a direct action rather than by promoting angiogenesis, and suggest that strategies aiming at increasing vascular density in the whole brain, e.g. by VEGF overexpression, may worsen rather than improve cerebral haemodynamics after stroke.
Genome-Wide Association Studies Identifies Seven Major Regions Responsible for Iron Deficiency Chlorosis in Soybean (Glycine max) (2014)

Iron deficiency chlorosis (IDC) is a yield limiting problem in soybean (Glycine max (L.) Merr) production regions with calcareous soils. Genome-wide association study (GWAS) was performed using a high density SNP map to discover significant markers, QTL and candidate genes associated with IDC trait variation. A stepwise regression model included eight markers after considering LD between markers, and identified seven major effect QTL on seven chromosomes. Twelve candidate genes known to be associated with iron metabolism mapped near these QTL supporting the polygenic nature of IDC. A non-synonymous substitution with the highest significance in a major QTL region suggests soybean orthologs of FRE1 on Gm03 is a major gene responsible for trait variation. NAS3, a gene that encodes the enzyme nicotianamine synthase which synthesizes the iron chelator nicotianamine also maps to the same QTL region. Disease resistant genes also map to the major QTL, supporting the hypothesis that pathogens compete with the plant for Fe and increase iron deficiency. The markers and the allelic combinations identified here can be further used for marker assisted selection.
Hairy cell leukemia. What is new forty years after the first description? (1998)

Hairy cell leukemia represent 2% of all the leukemias. The etiology is unknown. The diagnosis is based on the peripheral blood examination, showing characteristic lymphoid B cells, with loose lacy chromatin and unconstant cytoplasmic projections. The abnormal lymphoid cells express CD19, CD20, CD22, CD79a, CD25 and CD103. The tumor cells are Sig + with clonal light chain restriction. The treatment is based on recombinant IFN: we discuss the interest and the risks of second malignancy related to the prescription of the purine analogues.
Better Tests, Better Care: Improved Diagnostics for Infectious Diseases (2013)

In this IDSA policy paper, we review the current diagnostic landscape, including unmet needs and emerging technologies, and assess the challenges to the development and clinical integration of improved tests. To fulfill the promise of emerging diagnostics, IDSA presents recommendations that address a host of identified barriers. Achieving these goals will require the engagement and coordination of a number of stakeholders, including Congress, funding and regulatory bodies, public health agencies, the diagnostics industry, healthcare systems, professional societies, and individual clinicians.
IMMUNIZATION AGAINST BRUCELLA INFECTION II (1953)

the isolation and characteristics of a streptomycin-dependent mutant of Brucella melitenis were described.2
Luminescence of ZnO films implanted with Au+ ions and annealed in oxygen radicals (2007)

Visible and ultraviolet luminescence spectra of ZnO:Au+ samples with various dose of implanted gold were studied at a temperature of 77 K. Luminescence peaks of bound and free excitons, D-A pairs, and electron recombination to the gold acceptor level were detected. The optical depth (0.117 eV) of the AuZn impurity acceptor level was determined. Diffusive spreading of the implanted impurity profile upon annealing of the zinc oxide film was observed by SIMS.
Novel pharmacology: asimadoline, a κ‐opioid agonist, and visceral sensation (2008)

Asimadoline is a potent kappa-opioid receptor agonist with a diaryl acetamide structure. It has high affinity for the kappa receptor, with IC(50) of 5.6 nmol L(-1) (guinea pig) and 1.2 nmol L(-1) (human recombinant), and high selectively with kappa : micro : delta binding ratios of 1 : 501 : 498 in human recombinant receptors. It acts as a complete agonist in in vitro assay. Asimadoline reduced sensation in response to colonic distension at subnoxious pressures in healthy volunteers and in irritable bowel syndrome (IBS) patients without alteration of colonic compliance. Asimadoline reduced satiation and enhanced the postprandial gastric volume (in female volunteers). However, there were no significant effects on gastrointestinal transit, colonic compliance, fasting or postprandial colonic tone. In a clinical trial in 40 patients with functional dyspepsia (Rome II), asimadoline did not significantly alter satiation or symptoms over 8 weeks. However, asimadoline, 0.5 mg, significantly decreased satiation in patients with higher postprandial fullness scores, and daily postprandial fullness severity (over 8 weeks); the asimadoline 1.0 mg group was borderline significant. In a clinical trial in patients with IBS, average pain 2 h post-on-demand treatment with asimadoline was not significantly reduced. Post hoc analyses suggest that asimadoline was effective in mixed IBS. In a 12-week study in 596 patients, chronic treatment with 0.5 mg and 1.0 mg asimadoline was associated with adequate relief of pain and discomfort, improvement in pain score and number of pain-free days in patients with IBS-D. The 1.0 mg dose was also efficacious in IBS-alternating. There were also weeks with significant reduction in bowel frequency and urgency. Asimadoline has been well tolerated in human trials to date.