gebhart/patrepeval huggingface dataset:
Nitro–Fatty Acids Reduce Atherosclerosis in Apolipoprotein E–Deficient Mice (2010)

These results reveal the antiatherogenic actions of electrophilic nitro-fatty acids in a murine model of atherosclerosis.
Regulation of in vitro and in vivo transcription of early-region IV of adenovirus type 5 by multiple cis-acting elements. (1987)

A series of deletion mutants spanning the promoter of the adenovirus early-region IV (EIV) gene were tested for transcriptional activity, using both in vitro and in vivo assays. Four distinct domains had additive effects on efficient transcription from the EIV promoter in HeLa whole-cell extracts. The first resided 20 to 27 bases upstream of the initiation site and included the TATA box. Deletion of the TATA box drastically reduced the transcriptional activity in vitro but had a lesser effect in vivo. The second region extended from -32 to -177 and contained two 17-base-pair inverted repeats, centered around -40 and -162. Sequences lying between -140 and -173 were important for efficient transcription since deletion of this region reduced the activity fourfold. Deletion of either one of the two inverted repeats or insertion of DNA fragments between them resulted in the synthesis of extra transcripts that initiated at sites upstream from the EIV site. The third region was located between -198 and -250 and contains three guanosine-plus-cytosine-rich sequences, present around -212 (GGGCGG), -233 (GGGCGG), and -251 (CGCGGG). The fourth, most upstream region was located between -260 and -307. Deletion of this region, which contains the NF-1 factor-binding site, slightly reduced transcriptional activity both in vivo and in vitro. The data indicate that multiple cis-acting elements are required for efficient transcription from the EIV promoter in both in vitro and in vivo systems.
The pathology of HIV infection (2002)

The acquired immunodeficiency syndrome (AIDS) is the result of a human immunodeficiency virus (HIV) infection damaging the cell-mediated immune system. A wide range of opportunistic infections (OI) and tumours develop; additionally, HIV directly damages some organs. The patterns of opportunistic diseases (OD) are different in different parts of the world, depending on the local prevalence of latent and acquired infections and on the survival of HIV-infected patients. OD patterns change as people migrate. Recently introduced highly active anti-retroviral chemotherapy prevents many of the common OIs, but also introduces a new range of toxic pathological damage. Longer survival permits development of new HIV-related diseases. The pathology of HIV/AIDS is not static but changing.
Transcutaneous powering of implantable micro-stimulators for functional restoration of impaired gastrointestinal motility (2004)

Recent experiments in functional electrical stimulation of gastrointestinal organs have demonstrated effective techniques for producing controlled movement of content in dogs and humans. However, as a result of the substantive power requirements of the proposed stimulation techniques, which impede the use of traditional power supply methods such as implantable batteries, the feasibility of transcutaneously powering multiple implanted micro-stimulators through inductive coupling remains an unresolved issue. This paper proposes the use of a well-established circuit model for calculating the transcutaneous power transfer to an implanted micro-stimulator. In addition, techniques for modeling all aspects of the inductive link are proposed. The comprehensive model is then used in the design of an inductive link capable of delivering over 80 mW of power to multiple implanted micro-stimulators.
A generalized Maxwell-Wagner theory for membrane polarization in shaly sands (1992)

Abstract The effects of charged clay platelets on the frequency dependent electrical properties of shaly materials are analyzed using simplified models for the membrane polarization around charged spheres immersed in electrolytic solutions, under a thin double layer approximation. The polarization is defined through two possible mechanisms: (1) a surface conductivity related with a modified Stern double layer model (S-model) according to Schurr-Schwarz theory; (2) a coupled electro-diffusional mechanism occurring in a Guoy-Chapman double layer using Fixman's approach (D-model). By comparing the electric potential in such microscopic models with the external potentials derived for the equivalent homogeneous sphere using a Maxwell-Wagner approach, we obtain the total current conductivity functions for these two models. The theory, therefore, provides explicit expressions relating the total conductivity functions to the model parameters.The behavior of the S-model is described by a complex conductivity exhibiting a simple Debye characteristic. In the D-model, both the conductivity and the dielectric permittivity are given as complex properties, showing similar but much wider dispersion than that of a Debye substance. Our representation of the grains and their associated ionic double layers by an equivalent sphere with effective properties allows us to extend our results to simulate rocks containing clays. This is accomplished using generalized mixture equations written in terms of the total conductivity functions. The frequency behavior of both models are compared and their fit to experimental data on clay-water systems and shaly materials suggest that the D-model is more appropriate for representing the dielectric behavior of clay bearing rocks. The theory can be adapted to estimate the clay parameters of a shaly sandstone using electromagnetic borehole measurements.
Functional order of assembly of herpes simplex virus DNA replication proteins into prereplicative site structures (1996)

Herpes simplex virus replicates its DNA within nuclear structures called replication compartments. In contrast, in cells in which viral DNA replication is inhibited, viral replication proteins localize to punctate structures called prereplicative sites. We have utilized viruses individually mutated in each of the seven essential replication genes to assess the function of each replication protein in the assembly of these proteins into prereplicative sites. We observed that four replication proteins, UL5, UL8 UL52, and UL9, are necessary for the localization of ICP8 (UL29) to prereplicative sites natural infection conditions. Likewise, four of the seven viral DNA replication proteins, UL5, UL52, UL9, and ICP8, are necessary for the localization of the viral DNA polymerase to prereplicative sites. On the basis of these results, we present a model for prereplicative site formation in infected cells in which the helicase-primase components (UL5, UL8, and UL52), the origin-binding protein (UL9), and the viral single-stranded DNA-binding protein (ICP8) assemble together to initiate the process. This is followed by the recruitment of the viral polymerase into the structures, a step facilitated by the polymerase accessory protein, UL42. Host cell factors can apparently substitute for some of these viral proteins under certain conditions, because the viral protein requirements for prereplicative site formation are reduced in transfected cells and in infected cells treated with drugs that inhibit DNA synthesis.
Maturation of erythroid cells and erythroleukemia development are affected by the kinase activity of Lyn. (2001)

This study examined the impact of the tyrosine kinase Lyn on erythropoietin-induced intracellular signaling in erythroid cells. In J2E erythroleukemic cells, Lyn coimmunoprecipitated with numerous proteins, including SHP-1, SHP-2, ras-GTPase-activating protein, signal transducers and activators of transcription (STAT) 5a, STAT5b, and mitogen-activated protein kinase; however, introduction of a dominant-negative Lyn (Y397F Lyn) inhibited the interaction of Lyn with all of these molecules except SHP-1. Cells containing the dominant-negative Lyn displayed altered intracellular phosphorylation patterns, including mitogen-actiated protein kinase, but not erythropoietin receptor, Janus-activated kinase (JAK) 2, or STAT5. As a consequence, erythropoietin-initiated differentiation and basal proliferation were severely impaired. Y397F Lyn reduced the protein levels of erythroid transcription factors erythroid Kruppel-like factor and GATA-1 up to 90%, which accounts for the inability of J2E cells expressing Y397F Lyn to synthesize hemoglobin. Although Lyn was shown to bind several sites on the cytoplasmic domain of the erythropoietin receptor, it was not activated when a receptor mutated at the JAK2 binding site was ectopically expressed in J2E cells indicating that JAK2 is the primary kinase in erythropoietin signaling and that Lyn is a secondary kinase. In normal erythroid progenitors, erythropoietin enhanced phosphorylation of Lyn; moreover, exogenous Lyn increased colony forming unit-erythroid, but not burst forming uniterythroid, colonies from normal progenitors, demonstrating a stage-specific effect of the kinase. Significantly, altering Lyn activity in J2E cells had a profound effect on the development of erythroleukemias in vivo: the mortality rate was markedly reduced and latent period extended when either wild-type Lyn or Y397F Lyn was introduced into these cells. Taken together, these data show that Lyn plays an important role in intracellular signaling in nontransformed and leukemic erythroid cells.
The Human Papillomavirus Oncoprotein E7 Attenuates NF-κB Activation by Targeting the IκB Kinase Complex (2002)

Infection with high-risk human papillomaviruses (HPV) can lead to the development of cervical carcinomas. This process critically depends on the virus-encoded E6 and E7 oncoproteins, which stimulate proliferation by manipulating the function of a variety of host key regulatory proteins. Here we show that both viral proteins dose-dependently interfere with the transcriptional activity of NF-kappaB. A variety of experimental approaches revealed that a fraction of the E7 proteins is found in association with the IkappaB kinase complex and attenuates induced kinase activity of IkappaB kinase alpha (IKKalpha) and IKKbeta, thus resulting in impaired IkappaBalpha phosphorylation and degradation. Indirect immunofluorescence shows that E7 impairs TNFalpha-induced nuclear translocation of NF-kappaB, thus preventing NF-kappaB from binding to its cognate DNA. While E7 obviates IKK activation in the cytoplasm, the E6 protein reduces NF-kappaB p65-dependent transcriptional activity within the nucleus. We suggest that HPV oncogene-mediated suppression of NF-kappaB activity contributes to HPV escape from the immune system.
Feature and score level combination of subspace Gaussinas in LVCSR task (2013)

In this paper, we investigate employment of discriminatively trained acoustic features modeled by Subspace Gaussian Mixture Models (SGMMs) for Rich Transcription meeting recognition. More specifically, first, we focus on exploiting various types of complex features estimated using neural network combined with conventional cepstral features and modeled by standard HMM/GMMs and SGMMs. Then, outputs (word sequences) from individual recognizers trained using different features are also combined on a score-level using ROVER for the both acoustic modeling techniques. Experimental results indicate three important findings: (1) SGMMs consistently outperform HMM/GMMs (relative improvement on average by about 6% in terms of WER) when both techniques are exploited on single features; (2) SGMMs benefit much less from feature-level combination (1% relative improvement) as opposed to HMM/GMMs (4% relative improvement) which can eventually match the performance of SGMMs; (3) SGMMs can be significantly improved when individual systems are combined on a score-level. This suggests that the SGMM systems provide complementary recognition outputs. Overall relative improvements of the combined SGMMand HMM/GMM systems are 21% and 17% respectively compared to a standard ASR baseline.
Mining frequent patterns without candidate generation (2000)

Mining frequent patterns in transaction databases, time-series databases, and many other kinds of databases has been studied popularly in data mining research. Most of the previous studies adopt an Apriori-like candidate set generation-and-test approach. However, candidate set generation is still costly, especially when there exist prolific patterns and/or long patterns. In this study, we propose a novel frequent pattern tree (FP-tree) structure, which is an extended prefix-tree structure for storing compressed, crucial information about frequent patterns, and develop an efficient FP-tree-based mining method, FP-growth, for mining the complete set of frequent patterns by pattern fragment growth. Efficiency of mining is achieved with three techniques: (1) a large database is compressed into a highly condensed, much smaller data structure, which avoids costly, repeated database scans, (2) our FP-tree-based mining adopts a pattern fragment growth method to avoid the costly generation of a large number of candidate sets, and (3) a partitioning-based, divide-and-conquer method is used to decompose the mining task into a set of smaller tasks for mining confined patterns in conditional databases, which dramatically reduces the search space. Our performance study shows that the FP-growth method is efficient and scalable for mining both long and short frequent patterns, and is about an order of magnitude faster than the Apriori algorithm and also faster than some recently reported new frequent pattern mining methods.
Chromium compensated gallium arsenide detectors for X-ray and γ-ray spectroscopic imaging (2014)

Semi-insulating GaAs material of 500 μm thickness grown using the Liquid Encapsulated Czochralski (LEC) method has been compensated with chromium to produce high resistivity single crystals suitable for spectroscopic imaging applications. Results are presented for the performance of three small pixel detectors each with 80×80 pixels on a 250 μm pitch, fabricated with metal contacts and bonded to a spectroscopic imaging ASIC. Current–voltage measurements demonstrated a material resistivity of 2.5×109 Ω cm at room temperature. At an optimised bias voltage, the average energy resolution at 60 keV (FWHM) was in the range 2.8–3.3 keV per pixel. An analysis of the voltage dependent X-ray spectroscopy suggests that the electron mobility lifetime (μτe) for each detector is in the range 2.1–4.5×10−5 cm2 V−1. The spectroscopic imaging capability of the detectors is also demonstrated in X-ray absorption spectroscopy measurements.
Mocarhagin, a Novel Cobra Venom Metalloproteinase, Cleaves the Platelet von Willebrand Factor Receptor Glycoprotein Ibα. Identification of the Sulfated Tyrosine/Anionic Sequence Tyr-276−Glu-282 of Glycoprotein Ibα as a Binding Site for von Willebrand Factor and α-Thrombin (1996)

Platelet adhesion to the subendothelium is the initiating event in hemostasis and thrombosis and involves the binding of von Willebrand factor (vWF) by the platelet membrane glycoprotein (GP) Ib-IX complex. The alpha-chain of GP Ib contains binding sites for both vWF and alpha-thrombin within a 45-kDa N-terminal tryptic fragment. In the present study, we have further delineated these sites using smaller proteolytic fragments and functional antibodies. Mocarhagin, a cobra venom metallaproteinase, generates the fragment His-1-Glu-282, while cathepsin G, a neutrophil granule serine protease, generates a slightly smaller fragment, His-1-Leu-275. His-1-Glu-282 was as effective as intact soluble GP Ibalpha (glycocalicin) in inhibiting botrocetin-dependent binding of vWF to washed platelets (IC50 approximately 0.3 microM) whereas His-1-Leu-275 was an order of magnitude less effective (IC50 approximately 3 microM). Residues Tyr-276-Glu-282 (YDYYPEE) are part of an anionic region homologous to thrombin-binding molecules such as hirudin. In ligand blot analysis, thrombin blotted the His-1-Glu-282 fragment, but not His-1-Leu-275. The three tyrosine residues within Tyr-276-Glu-282 meet the consensus criteria for O-sulfation. A method was developed to distinguish O-sulfated from nonsulfated tyrosine residues based on differences in the UV absorbance spectra. Residues Tyr-276-Glu-282 were isolated from glycocalicin by proteolysis with mocarhagin and cathepsin G. Ion spray mass spectrometry confirmed that Tyr-278 and Tyr-279 was only approximately 50% O-sulfated. Four anti-GP Ibalpha monoclonal antibodies (SZ2, ES85, C34 and VM16d) were found to be modulator-specific, strongly inhibiting botrocetin-dependent binding of vWF, but having less or no effect on ristocetin-dependent vWF binding. These antibodies also inhibited the binding of thrombin to fixed platelets. Immunoprecipitation with GP ibalpha fragments defined the epitopes for these antibodies as SZ2 (Tyr-276-Glu-282), ES85 (Asp-283-Arg-293), C34 (His-1-Glu-282), and VM16d (His-1-Leu-275). An antibody which inhibited ristocetin-dependent, as well as botrocetin-dependent, vWF binding but had no effect on thrombin binding (Ak2) had an epitope within His-1-Leu-275. These findings indicate that the sulfated tyrosine/anionic GP Ibalpha residues Tyr-276-Glu-282 are important for the binding of thrombin and botrocetin-dependent binding of thrombin and the botrocetin-dependent binding of vWF, but that vWF also interacts with residues within His-1-Leu-275.
Control of mitochondrial motility and distribution by the calcium signal (2004)

Mitochondria are dynamic organelles in cells. The control of mitochondrial motility by signaling mechanisms and the significance of rapid changes in motility remains elusive. In cardiac myoblasts, mitochondria were observed close to the microtubular array and displayed both short- and long-range movements along microtubules. By clamping cytoplasmic [Ca2+] ([Ca2+]c) at various levels, mitochondrial motility was found to be regulated by Ca2+ in the physiological range. Maximal movement was obtained at resting [Ca2+]c with complete arrest at 1-2 microM. Movement was fully recovered by returning to resting [Ca2+]c, and inhibition could be repeated with no apparent desensitization. The inositol 1,4,5-trisphosphate- or ryanodine receptor-mediated [Ca2+]c signal also induced a decrease in mitochondrial motility. This decrease followed the spatial and temporal pattern of the [Ca2+]c signal. Diminished mitochondrial motility in the region of the [Ca2+]c rise promotes recruitment of mitochondria to enhance local Ca2+ buffering and energy supply. This mechanism may provide a novel homeostatic circuit in calcium signaling.
Cancer-testis antigen MAGE-C2 binds Rbx1 and inhibits ubiquitin ligase-mediated turnover of cyclin E (2015)

Cancer-testis antigen MAGE-C2 is normally expressed in testis but aberrantly expressed in various kinds of tumors. Its functions in tumor cells are mostly unknown. Here, we show that MAGE-C2 binds directly to the RING domain protein Rbx1, and participates in Skp1-Cullin1-F box protein (SCF) complex. Furthermore, MAGE-C2 can inhibit the E3 ubiquitin ligase activity of SCF complex. Ablation of endogenous MAGE-C2 decreases the level of cyclin E and accelerates cyclin E turnover by inhibiting ubiquitin-mediated proteasome degradation. Overexpression of MAGE-C2 increases the level of cyclin E and promotes G1-S transition and cell proliferation, and the results are further confirmed by knockdown of MAGE-C2. Overall, the study indicates that MAGE-C2 is involved in SCF complex and increases the stability of cyclin E in tumor cells.
Angiotensin-[1-7] (1990)

Structure-activity studies of angiotensin II (Ang II) have clearly established that the carboxyl-terminal phenylalanine is crucial for activation of angiotensin receptors associated with a broad range of effects including vasoconstriction, aldosterone release, and dipsogenesis. Thus, the heptapeptide angiotensin-[1-7] (Ang-[1-7]) has been classified as an inactive metabolite of the hormone Ang II. This assumption was seriously questioned in light of the report from our laboratory that Ang-[1-7] is the major metabolite of dog brainstem homogenates both in the absence and in the presence of angiotensin-converting enzyme inhibitors. These data raised the possibility of a functional role for Ang-[1-7] in the brain. Subsequent studies in the in vitro hypothalamoneurohypophysial system of the rat demonstrated that Ang-[1-7] is equipotent with Ang II in its activation of AVP release. Other Ang II-like actions have since been identified for Ang-[1-7] in the brain. For example, microinjection of Ang-[1-7] into brainstem nuclei of the rat promotes bradycardia and hypotension; in addition, Ang-[1-7] mimics the effect of Ang II in augmenting the intrinsic discharge rate of neurons within the vagal-solitary complex of the dog. Our laboratory has also provided evidence for synthesis and storage of Ang-[1-7] in the brain.(ABSTRACT TRUNCATED AT 250 WORDS)
Recombinant Soluble CD4 Therapy in Patients with the Acquired Immunodeficiency Syndrome (AIDS) and AIDS-Related Complex (1990)

Recombinant soluble CD4 is well tolerated by patients with AIDS or advanced AIDS-related complex. Our study has also provided preliminary evidence of antiviral activity of rsCD4 in vivo. Our data suggest that further trials of receptor-based therapies against HIV-1 are warranted.
Sensitivity to common allergens: relation to respiratory symptoms and bronchial hyper‐responsiveness in children from three different climatic areas of Australia (1991)

In order to examine further the relation between atopy, as defined by skin-prick tests, and respiratory illness, we studied three populations of schoolchildren aged 8-11 years and living in different climatic areas of New South Wales, Australia. Skin-prick tests were performed using 13 commercial allergen extracts. Respiratory and allergic symptoms were assessed using a self-administered questionnaire to parents and bronchial hyper-responsiveness (BHR) was measured by histamine inhalation test. We defined current asthma as BHR together with symptoms of wheeze in the 12 months prior to study. Children with one or more positive skin weals of greater than or equal to 3 mm had significantly more recent wheeze, hayfever, eczema and BHR than children with smaller weals (P less than 0.001). In each area, 95-97% of all atopic children were sensitized to one of the following seven allergens: house dust, Dermatophagoides farinae, D. pteronyssinus, cat dander, plantain, rye grass, and Alternaria tenuis. Thus, these seven selected allergen extracts and a skin weal of 3 mm could be used to detect clinically relevant atopy in these populations of children. Sensitivity to house dust mite had the strongest independent association with current asthma in all three areas. The associations of other allergen sensitivities with BHR or current asthma were area dependent, indicating the influence of local allergen levels on respiratory illness in children. The potency of house dust mite sensitivity in increasing the risk of children having BHR and current asthma is confirmed.