gebhart/patrepeval huggingface dataset:
Human papillomavirus (HPV) E6 interactions with Bak are conserved amongst E6 proteins from high and low risk HPV types. (1999)

Human papillomavirus (HPV) replication occurs in terminally differentiating epithelium, and requires the activation of cellular DNA replication proteins. Unscheduled DNA replication can result in the induction of apoptosis, and the viral E6 protein induces the degradation of p53 to prevent this. It has recently been shown that HPV-18 E6 can also stimulate the degradation of Bak, a pro-apoptotic member of the Bcl-2 family. This report shows that the E6 proteins from HPV-18, HPV-16 and HPV-11 can all bind to Bak in vitro, stimulate its degradation in vivo and reduce Bak-induced apoptosis. However, the non-oncogenic HPV-11 E6 is less effective than the oncogenic E6 proteins in each of these assays, indicating that the ability of HPV to circumvent the apoptosis induced by Bak may contribute to the oncogenic potential of the virus.
The Small-Scale Variability of Electrical Soil Properties − Influence on GPR Measurements (2008)

Abstract – The spatial variability of electrical conductivity and permittivity of sandy soils is measured in situ and statistically analysed. Conductivity is determined with high resolution geoelectrical dipole-dipole measurements. Permittivity is de-termined with two GPR techniques: i) the coefficient of reflec-tion is measured at the soil surface, ii) a new groundwave technique using two receiving antennas is presented which provides high spatial resolution. Variability of both electrical properties show to be high in sandy soils and feature correla-tion lengths of a few decimetres. Conductivity is log-normal distributed while permittivity is normal distributed. The sta-tistical properties are used to generate synthetic random mod-els which represent the soils in situ. These media are used for realistic FD calculations. The influence of soil heterogeneity is discussed by way of example for the problem of landmine detection with GPR. Variations of permittivity show to have greater influence on GPR measurements than variations of conductivity.
Genetic manipulation of mouse embryonic stem cells by mutant λ integrase (2002)

Mutant lambda integrases catalyze site-specific recombination reactions inside mammalian cells. Here we demonstrate that the integrase system can be used to eliminate resistance marker genes from the genome of mouse embryonic stem cells. So-called integrative and excisive recombination pathways led to the precise deletion of the neomycin gene, which was inserted together with a flanking pair of directly repeated recombination sites into the ROSA26 locus by standard targeting techniques. The excision of the resistance gene led to the expression of enhanced green fluorescence protein, which served as a means to sort out cells that had undergone site-specific recombination. Southern analysis and DNA sequencing confirmed that strand exchange reactions had occurred in the genome as expected. Hence, the integrase system may be used in conjunction with other site-specific recombinases as a tool in genome manipulation protocols.
The Community College as College: Should the Liberal Arts Survive in Community Colleges? (1982)

to their program? T -M-he -he community college's contribution to American higher education can be summarized in one word: access. By maintaining open admissions, designing programs for all types of students, and making it easy for anyone to attend, the community colleges have attracted a cohort of people who might not otherwise have participated in education beyond high school. They enroll one-third of all students in higher education, more than 40 percent of the entering fulltime freshmen. For years their enrollments have increased at a rate
Treatment of Reflux Esophagitis with Blockers, Antacids and Prokinetic Drugs:An Analysis of Randomized Clinical Trials (1989)

Randomized clinical trials comparing H2-receptor antagonists, antacids, antacid/alginate and prokinetic drugs with placebo and other substances were analyzed. Symptomatic improvement has been shown for H2-receptor antagonists, antacids in very high doses and prokinetic drugs. H2-receptor antagonists, the present mainstay of reflux therapy, improve esophagitis, but they are insufficient in the treatment of severe esophagitis where omeprazole may become the therapy of choice. The evidence is weak that antacids, antacid/alginate, metoclopramide and domperidone heal esophagitis.
The amphotropic and ecotropic murine leukemia virus envelope TM subunits are equivalent mediators of direct membrane fusion: implications for the role of the ecotropic envelope and receptor in syncytium formation and viral entry (1995)

The murine leukemia virus (MuLV) envelope protein was examined to determine which sequences are responsible for the differences in direct membrane fusion observed with the ecotropic and amphotropic MuLV subtypes. These determinants were studied by utilizing amphotropic-ecotropic chimeric envelope proteins that have switched their host range but retain their original fusion domain (TM subunit). Fusion was tested both in rodent cells and in 293 cells bearing the human homolog of the ecotropic MuLV receptor. The results demonstrate that the amphotropic TM is able to mediate cell-to-cell fusion to an extent equivalent to that mediated by the ecotropic TM, indicating that their fusion domains are equivalent. The "murinized" human homolog of the ecotropic receptor supports syncytium formation as well as the native murine receptor. These findings suggest that interactions between the ecotropic envelope protein and conserved sequences in the ecotropic receptor are the principal determinants of syncytium formation. The relationship of the fusion phenotype to pH-dependent infection and the route of viral entry was examined by studying virions bearing the chimeric envelope proteins. Such virions appear to enter cells via a pathway that is directed by the host range-determining region of their envelope rather than by sequences that confer pH dependence. Therefore, the pH dependence of infection may not reflect the initial steps in viral entry. Thus, it appears that both the syncytium phenotype and the route of viral entry are properties of the viral receptor, the amino-terminal half of the ecotropic envelope protein, or the interaction between the two.
A DNA Damage-Regulated BRCT-Containing Protein, TopBP1, Is Required for Cell Survival (2002)

BRCA1 carboxyl-terminal (BRCT) motifs are present in a number of proteins involved in DNA repair and/or DNA damage-signaling pathways. Human DNA topoisomerase II binding protein 1 (TopBP1) contains eight BRCT motifs and shares sequence similarity with the fission yeast Rad4/Cut5 protein and the budding yeast DPB11 protein, both of which are required for DNA damage and/or replication checkpoint controls. We report here that TopBP1 is phosphorylated in response to DNA double-strand breaks and replication blocks. TopBP1 forms nuclear foci and localizes to the sites of DNA damage or the arrested replication forks. In response to DNA strand breaks, TopBP1 phosphorylation depends on the ataxia telangiectasia mutated protein (ATM) in vivo. However, ATM-dependent phosphorylation of TopBP1 does not appear to be required for focus formation following DNA damage. Instead, focus formation relies on one of the BRCT motifs, BRCT5, in TopBP1. Antisense Morpholino oligomers against TopBP1 greatly reduced TopBP1 expression in vivo. Similar to that of ataxia telangiectasia-related protein (ATR), Chk1, or Hus1, downregulation of TopBP1 leads to reduced cell survival, probably due to increased apoptosis. Taken together, the data presented here suggest that, like its putative counterparts in yeast species, TopBP1 may be involved in DNA damage and replication checkpoint controls.
Near-optimal practical power control schemes for D2D communications in cellular networks (2014)

Device-to-device (D2D) communication has the potential of increasing the system capacity, energy efficiency and achievable peak rates while reducing the end-to-end latency. To realize these gains, recent works have proposed resource allocation (RA) and power control (PC) approaches that show near optimal performance in terms of spectral or energy efficiency. However, the proposed schemes either consider a single cell environment or assume instantaneous channel state information (CSI) and/or rely on iterative algorithms that require excessive inter-node message exchange and suffer from slow convergence time. For D2D user equipment (UE), we propose a distributed utility optimization based PC scheme that relies on locally available measurement data and is made practical by constraining the number of iterations and the interference caused to the cellular receiver, while legacy UEs employ the standard Long Term Evolution (LTE) PC. We investigate the performance of the proposed PC scheme when combined with two RA schemes that differ in terms of the required channel state information. We find that when properly tuned, this practical PC scheme combined with a RA algorithm that requires limited channel knowledge, not only shows near optimal performance, but it also constraints the impact of D2D communications on the cellular layer.
The Commander-in-Chief and the United Nations: Why the President Can Use the United Nations Security Council as the Constitutional Basis for Military Operations Short of War (2014)

This Note argues that the US. President can utilize military force for operations "short of war" based on a UN. Security Council Resolution without congressional authorization. In the post-WWII era, Presidents have relied on U.N. Security Council resolutions to argue that they have the constitutional power to use military force without Congress. In the Korean War and the Gulf War, the President argued that the Executive had the power to launch a full-scale war based on a UN. Resolution without going to Congress. In interventions in Somalia, Haiti, Bosnia, and Libya, the President has argued that the Executive has the power to use military force short of war to uphold the US. national interest in enforcing a UN Security Council Resolution. However, no scholar has examined this issue in over fifteen years. This Note argues that the President has the constitutional power to conduct military operations "short of war" without congressional authorization if the military action is based on a UN. Security Council Resolution.
Indoor localization without the pain (2010)

While WiFi-based indoor localization is attractive, the need for a significant degree of pre-deployment effort is a key challenge. In this paper, we ask the question: can we perform indoor localization with no pre-deployment effort? Our setting is an indoor space, such as an office building or a mall, with WiFi coverage but where we do not assume knowledge of the physical layout, including the placement of the APs. Users carrying WiFi-enabled devices such as smartphones traverse this space in normal course. The mobile devices record Received Signal Strength (RSS) measurements corresponding to APs in their view at various (unknown) locations and report these to a localization server. Occasionally, a mobile device will also obtain and report a location fix, say by obtaining a GPS lock at the entrance or near a window. The centerpiece of our work is the EZ Localization algorithm, which runs on the localization server. The key intuition is that all of the observations reported to the server, even the many from unknown locations, are constrained by the physics of wireless propagation. EZ models these constraints and then uses a genetic algorithm to solve them. The results from our deployment in two different buildings are promising. Despite the absence of any explicit pre-deployment calibration, EZ yields a median localization error of 2m and 7m, respectively, in a small building and a large building, which is only somewhat worse than the 0.7m and 4m yielded by the best-performing but calibration-intensive Horus scheme [29] from prior work.
COMBINATION EFFECT OF AN ANGIOGENESIS INHIBITOR AGM-1470 WITH 5'-DEOXY-5-FLUOROURIDINE, AND WITH HORMONAL DRUGS IN DMBA-INDUCED RAT MAMMARY-TUMORS (1995)

AGM-1470, a potent angiogenesis inhibitor, is known to suppress the growth of solid tumors in vivo. In this study, we investigated the combination effect of AGM-1470 with 5'-deoxy-5-fluorouridine (5'-DFUR) which is converted to 5-FU by pyrimidine nucleoside phosphorylase, with tamoxifen (TAM), and with medroxyprogesterone acetate (MPA) in dimethylebenz(a)-anthracene (DMBA) induced rat mammary tumors. Since 5'-DFUR and MPA are noted to have antiangiogenic activity, this combination study might imply not only the addition to chemotherapeutic or hormonal drugs for the angiogenesis inhibitor but also the combination of two angiogenesis inhibitors. The combination of AGM-1470 (20 mg/kg) with 5'-DFUR (200 mg/kg) and with TAM (0.8 mg/kg) markedly suppressed the tumor growth. There was a significant difference in the suppression of tumor growth between the combination group and either drug alone group (p<0.01). No statistical combination effect between AGM-1470 and MPA was found, however MPA markedly reversed the body weight loss induced by AGM-1470. This result will be informative for clinical studies on the combination effect of AGM-1470.
A High-Throughput Fluorescence Resonance Energy Transfer-Based Assay for DNA Ligase (2011)

DNA ligase is the enzyme that catalyzes the formation of the backbone phosphodiester bond between the 5'-PO(4) and 3'-OH of adjacent DNA nucleotides at single-stranded nicks. These nicks occur between Okazaki fragments during replication of the lagging strand of the DNA as well as during DNA repair and recombination. As essential enzymes for DNA replication, the NAD(+)-dependent DNA ligases of pathogenic bacteria are potential targets for the development of antibacterial drugs. For the purposes of drug discovery, a high-throughput assay for DNA ligase activity is invaluable. This article describes a straightforward, fluorescence resonance energy transfer-based DNA ligase assay that is well suited for high-throughput screening for DNA ligase inhibitors as well as for use in enzyme kinetics studies. Its use is demonstrated for measurement of the steady-state kinetic constants of Haemophilus influenzae NAD(+)-dependent DNA ligase and for measurement of the potency of an inhibitor of this enzyme.
Functional Diffusion Map As an Early Imaging Biomarker for High-Grade Glioma: Correlation With Conventional Radiologic Response and Overall Survival (2008)

Compared with conventional neuroimaging, fDM provided an earlier assessment of equal predictive value, and the combination of fDM and RR provided a more accurate prediction of patient survival than either metric alone.
Identification of a Novel Marker for Primordial Smooth Muscle and Its Differential Expression Pattern in Contractile vs Noncontractile Cells (1997)

The assembly of the vessel wall from its cellular and extracellular matrix components is an essential event in embryogenesis. Recently, we used the descending aorta of the embryonic quail to define the morphological events that initiate the formation of a multilayered vessel wall from a nascent endothelial cell tube (Hungerford, J.E., G.K. Owens, W.S. Argraves, and C.D. Little. 1996. Dev. Biol. 178:375-392). We generated an mAb, 1E12, that specifically labels smooth muscle cells from the early stages of development to adulthood. The goal of our present study was to characterize further the 1E12 antigen using both cytological and biochemical methods. The 1E12 antigen colocalizes with the actin cytoskeleton in smooth muscle cells grown on planar substrates in vitro; in contrast, embryonic vascular smooth muscle cells in situ contain 1E12 antigen that is distributed in threadlike filaments and in cytoplasmic rosette-like patterns. Initial biochemical analysis shows that the 1E12 mAb recognizes a protein, Mr = 100,000, in lysates of adult avian gizzard. An additional polypeptide band, Mr = 40,000, is also recognized in preparations of lysate, when stronger extraction conditions are used. We have identified the 100-kD polypeptide as smooth muscle alpha-actinin by tandem mass spectroscopy analysis. The 1E12 antibody is an IgM isotype. To prepare a more convenient 1E12 immunoreagent, we constructed a single chain antibody (sFv) using recombinant protein technology. The sFv recognizes a single 100-kD protein in gizzard lysates. Additionally, the recombinant antibody recognizes purified smooth muscle alpha-actinin. Our results suggest that the 1E12 antigen is a member of the alpha-actinin family of cytoskeletal proteins; furthermore, the onset of its expression defines a primordial cell restricted to the smooth muscle lineage.
The Cannabinergic System as a Target for Anti-inflammatory Therapies (2006)

Habitual cannabis use has been shown to affect the human immune system, and recent advances in endocannabinoid research provide a basis for understanding these immunomodulatory effects. Cell-based experiments or in vivo animal testing suggest that regulation of the endocannabinoid circuitry can impact almost every major function associated with the immune system. These studies were assisted by the development of numerous novel molecules that exert their biological effects through the endocannabinoid system. Several of these compounds were tested for their effects on immune function, and the results suggest therapeutic opportunities for a variety of inflammatory diseases such as multiple sclerosis, rheumatoid arthritis, inflammatory bowel disease, atherosclerosis, allergic asthma, and autoimmune diabetes through modulation of the endocannabinoid system.
Dynamic Hand Pose Recognition Using Depth Data (2010)

Hand pose recognition has been a problem of great interest to the Computer Vision and Human Computer Interaction community for many years and the current solutions either require additional accessories at the user end or enormous computation time. These limitations arise mainly due to the high dexterity of human hand and occlusions created in the limited view of the camera. This work utilizes the depth information and a novel algorithm to recognize scale and rotation invariant hand poses dynamically. We have designed a volumetric shape descriptor enfolding the hand to generate a 3D cylindrical histogram and achieved robust pose recognition in real time.
Phytobilin biosynthesis: cloning and expression of a gene encoding soluble ferredoxin‐dependent heme oxygenase from Synechocystis sp. PCC 6803 (1998)

The phytobilin chromophores of phycobiliproteins and phytochromes are biosynthesized from heme in a pathway that begins with the opening of the tetrapyrrole macrocycle of protoheme to form biliverdin IX alpha, in a reaction catalyzed by heme oxygenase. A gene containing an open reading frame with a predicted polypeptide that has a sequence similar to that of a conserved region of animal microsomal heme oxygenases was identified in the published genomic sequence of Synechocystis sp. PCC 6803. This gene, named ho1, was cloned and expressed in Escherichia coli under the control of the lacZ promoter. Cells expressing the gene became green colored due to the accumulation of biliverdin IX alpha. The size of the expressed protein was equal to the predicted size of the Synechocystis gene product, named HO1. Heme oxygenase activity was assayed in incubations containing extract of transformed E. coli cells. Incubations containing extract of induced cells, but not those containing extract of uninduced cells, had ferredoxin-dependent heme oxygenase activity. With mesoheme as the substrate, the reaction product was identified as mesobiliverdin IX alpha by spectrophotometry and reverse-phase HPLC. Heme oxygenase activity was not sedimented by centrifugation at 100, 000 g. Expression of HO1 increased several-fold during incubation of the cells for 72 h in iron-deficient medium.
CD4+CD25+ T Regulatory Cells Suppress NK Cell-Mediated Immunotherapy of Cancer (2006)

CD4+CD25+ regulatory T cells (Treg) that suppress T cell-mediated immune responses may also regulate other arms of an effective immune response. In particular, in this study we show that Treg directly inhibit NKG2D-mediated NK cell cytotoxicity in vitro and in vivo, effectively suppressing NK cell-mediated tumor rejection. In vitro, Treg were shown to inhibit NKG2D-mediated cytolysis largely by a TGF-beta-dependent mechanism and independently of IL-10. Adoptively transferred Treg suppressed NK cell antimetastatic function in RAG-1-deficient mice. Depletion of Treg before NK cell activation via NKG2D and the activating IL-12 cytokine, dramatically enhanced NK cell-mediated suppression of tumor growth and metastases. Our data illustrate at least one mechanism by which Treg can suppress NK cell antitumor activity and highlight the effectiveness of combining Treg inhibition with subsequent NK cell activation to promote strong innate antitumor immunity.
Creatinine clearance predictions in acutely ill patients (1981)

In acutely ill patients, predicted creatinine clearance (Clcr) values [obtained using the Siersbaek-Nielsen nomogram (SNN) and ideal body weight (IBW)] were compared with actual Clcr based on measured urine creatinine concentrations. Timed urine collections were obtained from 118 patients (423 collections from 68 men, 400 collections from 50 women) before, during, and after aminoglycoside therapy. Patients were in intensive care units for management of acute exacerbations of sepsis, pneumonia, or abscess; most had other complicating conditions and were chronically ill. Urine was collected for 8 to 24 hours (70% for 24 hours) from Foley-catheterized patients. Patients were divided into low (less than 15 mg/kg/day), normal (15-25 mg/kg/day), and elevated (greater than 25 mg/kg/day) urinary creatinine excretion groups. Actual body weight (ABW) was used in some patient subgroups to explore differences between using IBW and ABW. SNN most accurately predicted Clcr in the 20% of the urine collections characterized by normal urinary creatinine excretion (Ucr). Most study patients excreted significantly less creatinine than the age-matched population tested in developing the SNN. In acutely ill patients with low Ucr, SNN overpredicted Clcr by 10-20 ml/min. SNN also overpredicted Clcr values in obese patients, but use of IBW rather than ABW improved the correlation between measured and predicted values in this subgroup. The SNN nomogram is applicable to critically ill patients if adjustments are made in predicted values. The characteristics of patients with low Ucr and the mechanism responsible for the decreased Ucr deserve further study.
Size Homogeneity of a Liposome Preparation is Crucial for Liposome Biodistribution in Vivo (1992)

Small liposomes, prepared by sonication or extrusion, were compared for their biodistribution patterns in mice. Significant difference was observed for a given lipid composition for liposomes prepared by these two different methods. Using gel filtration, negative stain EM, and quasi-elastic light scattering analysis of the liposome preparations, it appeared that such difference was resulted from the heterogeneity in liposome size. Sonicated liposomes, more heterogeneous in size, generally showed a lower uptake in the liver and spleen and higher level in the blood than the less heterogeneous extruded liposomes.