gebhart/patrepeval huggingface dataset:
The Anchor Site of Telomerase from Euplotes aediculatus Revealed by Photo-Cross-Linking to Single- and Double-Stranded DNA Primers (1997)

Telomerase is a ribonucleoprotein enzyme that adds telomeric sequence repeats to the ends of linear chromosomes. In vitro, telomerase has been observed to add repeats to a DNA oligonucleotide primer in a processive manner, leading to the postulation of a DNA anchor site separate from the catalytic site of the enzyme. We have substituted photoreactive 5-iododeoxypyrimidines into the DNA oligonucleotide primer d(T4G4T4G4T4G2) and, upon irradiation, obtained cross-links with the anchor site of telomerase from Euplotes aediculatus nuclear extract. No cross-linking occurred with a primer having the same 5' end and a nontelomeric 3' end. These cross-links were shown to be between the DNA primer and (i) a protein moiety of approximately 130 kDa and (ii) U51-U52 of the telomerase RNA. The cross-linked primer could be extended by telomerase in the presence of [alpha-32P]dGTP, thus indicating that the 3' end was bound in the enzyme active site. The locations of the cross-links within the single-stranded primers were 20 to 22 nucleotides upstream of the 3' end, providing a measure of the length of DNA required to span the telomerase active and anchor sites. When the single-stranded primers are aligned with the G-rich strand of a Euplotes telomere, the cross-linked nucleotides correspond to the duplex region. Consistent with this finding, a cross-link to telomerase was obtained by substitution of 5-iododeoxycytidine into the CA strand of the duplex region of telomere analogs. We conclude that the anchor site in the approximately 130-kDa protein can bind duplex as well as single-stranded DNA, which may be critical for its function at chromosome ends. Quantitation of the processivity with single-stranded DNA primers and double-stranded primers with 3' tails showed that only 60% of the primer remains bound after each repeat addition.
A Study on the Application of a Health Promotion Program about No Smoking in Industry (1994)

This study was conducted to diffusion of the health promotion program about no smoking in industry. No smoking program model composed of assessment, plan, implementation and evaluation was developed through the method of literature review and applied to 27 smokers of the management team and dept. of the 1st production in one industry, from October 27 to November 3D, 1993. For the analysis, descriptive statistics and paired t-test were used. The result of this study are summarized as follows: 1. The object was composed of no smoking and reduced smoking. The achievement rate of object was . 2. As a result of the implementation of no smoking program, of no smoking rate was obtained. 3. After application of no smoking program, the health age was a little lower but statistical significations was not found. 4. Health education and support of family were effective in health promotion program. Complementary measures about indivisual activity for no smoking were required in no smoking program. In conclusion, subject's response about no smoking program was high and health education and support of family were effective in health promotion· program. And nurses were expected to do their roles as a planner, intervener, manager and supporter in health promotion services.
Selective Epitaxial Growth of Germanium on Si Wafers with Shallow Trench Isolation: An Approach for Ge Virtual Substrates (2008)

Ge selective epitaxial growth (SEG) in shallow trench isolated windows is of great interest in advanced devices due to the good lateral electrical isolation of shallow trenches and the possibility of integrating Ge on Si wafers. However, the high density of threading dislocations in strain-relaxed Ge layers and facet formation are two major concerns in Ge SEG. In this work, we have obtained facet-free growth of Ge in shallow trench isolated Si windows with a threading dislocation density (TDD) of 4.2×108 cm-2. A mass transport model is developed to simulate the Ge faceting and the factors influencing the Ge deposition selectivity are studied.
Future development of tourism (1980)

Those who wish to look into the future are well advised to concern themselves first with the past, where all things originate. Accordingly, it seems appropriate to quote Homer, the great Greek poet, at the beginning of this presentation.
Recombinant Vaccinia Virus: Immunization Against Multiple Pathogens (1985)

The coding sequences for the hepatitis B virus surface antigen, the herpes simplex virus glycoprotein D, and the influenza virus hemagglutinin were inserted into a single vaccinia virus genome. Rabbits inoculated intravenously or intradermally with this polyvalent vaccinia virus recombinant produced antibodies reactive to all three authentic foreign antigens. In addition, the feasibility of multiple rounds of vaccination with recombinant vaccinia virus was demonstrated.
NMR in cancer: XVI. FONAR image of the live human body. (1977)

The FONAR technique that achieved the first chemical image of the live human being is described. Color and black-and-white video images of a cross-section through the chest at the level of the eighth thoracic vertebra were generated. The imaging showed the heart and mediastinum in the midline between the left and right lungs with the heart encroaching on the left lung space as it does at this level. Also seen was the descending aorta just left and anterior to the vertebral body.
Racial differences in prostate cancer growth: Apoptosis and cell proliferation in Caucasian and African-American patients (2000)

These findings provide a novel insight into the molecular determinants of tumor growth that may underlie the ethnic differences in prostate cancer incidence and clinical behavior. Downregulation of bcl-2 expression may be potentially responsible for the loss of apoptotic control in prostate tumors from African-American men. This study may have significant clinical implications in the development of novel diagnostic approaches for biologically aggressive prostate cancer from diverse racial origin.
Virtual angiography for visualization and validation of computational models of aneurysm hemodynamics (2005)

It has recently become possible to simulate aneurysmal blood flow dynamics in a patient-specific manner via the coupling of three-dimensional (3-D) X-ray angiography and cmputational fluid dynamics (CFD). Before such image-based CFD models can be used in a predictive capacity, however, it must be shown that they indeed reproduce the in vivo hemodynamic environment. Motivated by the fact that there are currently no techniques for adequately measuring complex blood velocity fields in vivo, in this paper we describe how cine X-ray angiograms may be simulated for the purpose of indirectly validating patient-sperific CFD models. Mimicking the radiological procedure, a virtual angiogram is constructed by first simulating the time-varying injection of contrast agent into a precomputed, patient-specific CFD model. A time-series of images is then constructed by simulating the attenuation of X-rays through the computed 3-D contrast-agent flow dynamics. Virtual angiographic images and residence time maps, here derived from an image-based CFD model of a giant aneurysm, are shown to be in excellent agreement wiith the corresponding clinical images and residence time maps, but only when the interaction between the quasisteady contrast agent injection and the pulsatile flow are properly accounted for. These virtual angiographic techniques pave the way for validating image-based CFD models against routinely available clinical data, and provide a means of visualizing complex, 3-D blood flow dynamics in a clinically relevant manner. They also clearly show how the contrast agent injection perturbs the noraml blood flow patterns, further highlighting the potential utility of image-based CFD as a window into the true aneurysmal hemodynamics.
Targeting DNA Repair in Cancer: Beyond PARP Inhibitors (2016)

Various inhibitors of DDR components are in preclinical and clinical development. A thorough understanding of DDR pathway complexities must now be combined with strategies and lessons learned from the successful registration of PARP inhibitors in order to fully exploit the potential of DDR inhibitors and to ensure their long-term clinical success. Cancer Discov; 7(1); 20-37. ©2016 AACR.
Predictors of and Longitudinal Changes in Insulin Sensitivity and Secretion Preceding Onset of Type 2 Diabetes (2005)

Identification of individuals at high risk of developing type 2 diabetes is a prerequisite for prevention of the disease. We therefore studied risk factors predicting type 2 diabetes in the Botnia Study in Western Finland. A total of 2,115 nondiabetic individuals were prospectively followed with repeated oral glucose tolerance tests. After a median follow-up of 6 years, 127 (6%) subjects developed diabetes. A family history of diabetes (hazard ratio [HR] 2.2, P = 0.008), BMI (HR for comparison of values below or above the median 2.1, P < 0.001), waist-to-height index (2.3, P < 0.001), insulin resistance (2.1, P = 0.0004), and beta-cell function adjusted for insulin resistance (2.7, P < 0.0001) predicted diabetes. Marked deterioration in beta-cell function with modest changes in insulin sensitivity was observed during the transition to diabetes. The combination of FPG > or =5.6 mmol/l, BMI > or =30 kg/m(2), and family history of diabetes was a strong predictor of diabetes (3.7, P < 0.0001). Of note, using FPG > or =6.1 mmol/l or 2-h glucose > or =7.8 mmol/l did not significantly improve prediction of type 2 diabetes. In conclusion, a marked deterioration in beta-cell function precedes the onset of type 2 diabetes. These individuals can be identified early by knowledge of FPG, BMI, and family history of diabetes.
Amorphous silicon/amorphous silicon carbide heterojunctionsapplied to memory device structures (1994)

It has been proposed and experimentally confirmed that band-engineered hydrogenated amorphous silicon (a-Si:H)/hydrogenated amorphous silicon carbide (a-SiC:H) heterojunctions on c-Si can be applied to electrically programmable and erasable memory devices. A test diode with the structure c-Si/graded a-SiC:H/a-Si:H/uniform a-SiC:H/Al exhibits a large hysteresis in the C-V characteristic with a retention time of 0.8 s at room temperature.
Density functional approach to the frontier-electron theory of chemical reactivity (1984)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTDensity functional approach to the frontier-electron theory of chemical reactivityRobert G. Parr and Weitao YangCite this: J. Am. Chem. Soc. 1984, 106, 14, 4049–4050Publication Date (Print):July 1, 1984Publication History Published online1 May 2002Published inissue 1 July 1984https://pubs.acs.org/doi/10.1021/ja00326a036https://doi.org/10.1021/ja00326a036research-articleACS PublicationsRequest reuse permissionsArticle Views5022Altmetric-Citations2872LEARN 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
Site‐specific recombination in mammalian cells catalyzed by γδ resolvase mutants: implications for the topology of episomal DNA (2000)

We have transferred the prokaryotic gammadelta resolvase system to mammalian cells and present a comparative analysis of recombination by wild-type and two mutant resolvases (E124Q and E102Y/E124Q). Transient co-transfection assays using beta-galactosidase as reporter for recombination reveal that episomal DNA does not contain a significant level of unconstrained negative supercoiling, since only mutant resolvases are recombination-proficient. We also show that the efficiency of recombination by the resolvase double mutant is comparable to that observed with Cre, which indicates that resolvase can be used as a new tool for controlled manipulations of episomal DNAs.
Respiratory, Neuromuscular, and Cardiovascular Effects of Neosaxitoxin in Isoflurane-Anesthetized Sheep (2012)

In our sheep model, neuromuscular, respiratory, and cardiovascular effects of NeoSTX were dose dependent and mild using the dose range anticipated for clinical use.
LACTOBACILLUS GG (L-GG) IMPROVES INTESTINAL BARRIER FUNCTION IN CHILDREN WITH CROHN'S DISEASE (1999)

47 It is well known that patients with Crohn's disease have an increase in intestinal permeability, as assessed by several means, including the "double sugar" test. Furthermore, it is known that such increased permeability correlates with the activity of the disease. In recent years, the probiotic L-GG has been shown to be able to promote intestinal barrier function in situations characterized by inflammation. Our aim was therefore to investigate the effect of L-GG on intestinal permeability and disease activity in children affected by Crohn's disease. Methods. After informed consent, Cellobiose/Mannitol intestinal permeability test, fecal a1-antitrypsin concentration, fecal search for L-GG, and pediatric Crohn's disease activity index (PCDAI) were determined prior to treatment and at 1 week, 1 month, 3 months and 6 months after daily intake of L-GG 1010 CFU twice a day in children affected by Crohn's disease. Results. Although 10 children were enrolled so far, preliminary data for the whole period under study are now available for 4 children, all males, ages 12-19. The graph reports the changes seen in Cellobiose/Mannitol ratio over time (Means ± SD). In the same timeframe, no significant change was seen for a1-antitrypsin fecal concentration. The PCDAI did show a decline that was however not statistically significant. We conclude that the administration of L-GG to children affected by Crohn's disease results in a significant improvement in the abnormally increased intestinal permeability and might prove to be also clinically beneficial. Clearly, more patients and longer-term investigations are needed. (Figure)FIG
Negative ion multiple-stage mass spectrometric analysis of complex oligosaccharides (everninomicins) in a quadruple ion trap: implications for charge-remote fragmentation (2003)

Negative ion electrospray ionization (ESI) tandem mass spectrometry (MS/MS) by a quadrupole ion-trap has been utilized to characterize a class of complex oligosaccharide antibiotics (everninomicins), that includes everninomicin-D, SCH 27899, amino everninomicin (SCH 27900), and SCH 49088 containing a hydroxylamino-ether sugar. The deprotonated molecules are dominant ions in the negative ion ESI mass spectra of these compounds. The multiple-stage mass spectrometric analysis (MS n ) of these deprotonated species indicates that the negative charge resides in the deprotonated dichlorophenoxyl group in the substituted aromatic ester ring (ring 1) and the fragmentation occurs remote to this charge site in generating simple sugar sequence-specific fragment ions. One exception to this process is SCH 49088 in which the side chain of the hydroxylamino-ether sugar dominates fragmentation pathway in a charge-driven mechanism and results in less structural information.
Simple multiplexing scheme for a fiber-optic grating sensor network (1993)

A new approach for the interrogation of a large number of fiber-optic grating sensors is proposed and demonstrated for a small number of sensors in which signal recovery is achieved by matching a receiving grating to its corresponding sensor. This technique is demonstrated for both quasi-static and periodic measurands, and the resolution achieved for a single sensor–receiving grating pair for quasi-static strain is 4.12 μ∊.
Carbon Dioxide Capture in Metal–Organic Frameworks (2011)

ADVERTISEMENT RETURN TO ISSUEPREVReviewNEXTCarbon Dioxide Capture in Metal–Organic FrameworksKenji Sumida, David L. Rogow, Jarad A. Mason, Thomas M. McDonald, Eric D. Bloch, Zoey R. Herm, Tae-Hyun Bae, and Jeffrey R. Long*View Author Information Department of Chemistry, University of California, Berkeley, California 94720-1460, United States*E-mail: [email protected]Cite this: Chem. Rev. 2012, 112, 2, 724–781Publication Date (Web):December 28, 2011Publication History Received19 August 2011Published online28 December 2011Published inissue 8 February 2012https://pubs.acs.org/doi/10.1021/cr2003272https://doi.org/10.1021/cr2003272review-articleACS PublicationsCopyright © 2011 American Chemical SocietyRequest reuse permissionsArticle Views81380Altmetric-Citations5582LEARN 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:Adsorption,Materials,Membranes,Metal organic frameworks,Selectivity Get e-Alerts
FURTHER STUDIES OF VETO ACTIVITY IN RHESUS MONKEY BONE MARROW IN RELATION TO ALLOGRAFT TOLERANCE AND CHIMERISM (1994)

Infusing the DR-/dim fraction of bone marrow cells (BMC) from an allogeneic kidney donor into rabbit antithymocyte globulin-treated transplant recipients delivers a tolerogenic signal, leading to functional allograft tolerance in rhesus monkeys without additional drug therapy. Our updated results in an expanded series show a median 131-day graft survival of recipients given DR-/dim donor BMC with a 23% 1-year survival (P < 0.00001 vs. rabbit antithymocyte globulin controls). Removing DRbright cells from donor BMC appeared to have a significant effect (P < 0.05). We have further investigated the tolerogenic mechanism within the experimental framework of the veto hypothesis in this preclinical model. In limiting dilution assays, we demonstrated the donor specificity of clonal inactivation of CTL precursors (CTLp) after in vitro or in vivo exposure to DR-/dim donor BMC, confirming specific tolerance. Additionally, in vitro studies confirmed the allogeneic specificity of CTLp inactivation in 3-cell MLR assays; minimal bystander effects were seen on normal CTLp responses to third party stimulator cells, while CTLp responses to the BMC donor's cells were abrogated in the same cultures. BMC mediating the veto effect were found to be resistant to L-leucyl-L-leucine methyl ester (Leu-leu-OMe), which excluded BMC-mediated cytotoxicity by NK or lymphokine-activated killer cells, CTL, or activated macrophages. In contrast, veto activity was abolished if the BMC were pretreated with either high dose UV-B light irradiation, mitomycin, or gamma-irradiation, indicating that BMC contained a UV-B-sensitive precursor of the veto effector, and that a proliferative step separated the two. Irradiation of DR-/dim donor BMC or administration of cyclophosphamide after infusion of nonirradiated BMC prevented the tolerogenic effect. Only recipients given nonirradiated DR-/dim donor BMC demonstrated PBL chimerism, which associated with functional deletion of antidonor CTLp and duration of graft survival. The Leu-leu-OMe resistance and the other properties of the allogeneic monkey CD3- CD2+ CD8+ BMC subpopulation that exhibits tolerance-promoting activity in vitro and in vivo lead us to postulate that a donor BMC-derived precursor population, possibly a dendritic cell population, may induce allogeneic unresponsiveness in this model.
Discovery and replication of gene influences on brain structure using LASSO regression (2012)

We implemented least absolute shrinkage and selection operator (LASSO) regression to evaluate gene effects in genome-wide association studies (GWAS) of brain images, using an MRI-derived temporal lobe volume measure from 729 subjects scanned as part of the Alzheimer's Disease Neuroimaging Initiative (ADNI). Sparse groups of SNPs in individual genes were selected by LASSO, which identifies efficient sets of variants influencing the data. These SNPs were considered jointly when assessing their association with neuroimaging measures. We discovered 22 genes that passed genome-wide significance for influencing temporal lobe volume. This was a substantially greater number of significant genes compared to those found with standard, univariate GWAS. These top genes are all expressed in the brain and include genes previously related to brain function or neuropsychiatric disorders such as MACROD2, SORCS2, GRIN2B, MAGI2, NPAS3, CLSTN2, GABRG3, NRXN3, PRKAG2, GAS7, RBFOX1, ADARB2, CHD4, and CDH13. The top genes we identified with this method also displayed significant and widespread post hoc effects on voxelwise, tensor-based morphometry (TBM) maps of the temporal lobes. The most significantly associated gene was an autism susceptibility gene known as MACROD2. We were able to successfully replicate the effect of the MACROD2 gene in an independent cohort of 564 young, Australian healthy adult twins and siblings scanned with MRI (mean age: 23.8 ± 2.2 SD years). Our approach powerfully complements univariate techniques in detecting influences of genes on the living brain.
Synthesizing operating system based device drivers in embedded systems (2003)

This paper presents a correct-by-construction synthesis method for generating operating system based device drivers from a formally specified device behavior model. Existing driver development is largely manual using an ad-hoc design methodology. Consequently, this task is error prone and becomes a bottleneck in embedded system design methodology.Our solution to this problem starts by accurately specifying device access behavior with a formal model, viz. extended event driven finite state machines. We state easy to check soundness conditions on the model that subsequently guarantee properties such as bounded execution time and deadlock-free behavior. We design a deadlock-free resource accessing scheme for our device access model. Finally, we synthesize an operating system (OS) based event processing mechanism, which is the core of the device driver, using a disciplined methodology that assures the correctness of the resulting driver.We validate our synthesis method using two case studies: an infrared port and the USB device controller for an SA1100 based handheld. Besides assuring a correct-by -construction driver, the size of the specification is 70% smaller than a manually written driver, which is a strong indicator of improved design productivity.