gebhart/patrepeval huggingface dataset:
Formation of N ε-(Hexanonyl)lysine in Protein Exposed to Lipid Hydroperoxide (1999)

The objectives of this study were to estimate the structure of the lipid hydroperoxide-modified lysine residue and to prove the presence of the adducts in vivo. The reaction of lipid hydroperoxide toward the lysine moiety was investigated employing N-benzoyl-glycyl-L-lysine (Bz-Gly-Lys) as a model compound of Lys residues in protein and 13-hydroperoxyoctadecadienoic acid (13-HPODE) as a model of the lipid hydroperoxides. One of the products, compound X, was isolated from the reaction mixture of 13-HPODE and Bz-Gly-Lys and was then identified as N-benzoyl-glycyl-Nepsilon-(hexanonyl)lysine. To prove the formation of Nepsilon-(hexanonyl)lysine, named HEL, in protein exposed to the lipid hydroperoxide, the antibody to the synthetic hexanonyl protein was prepared and then characterized in detail. Using the anti-HEL antibody, the presence of HEL in the lipid hydroperoxide-modified proteins and oxidized LDL was confirmed. Furthermore, the positive staining by anti-HEL antibody was observed in human atherosclerotic lesions using an immunohistochemical technique. The amide-type adduct may be a useful marker for the lipid hydroperoxide-derived modification of biomolecules.
An analysis of empirical testing for modal decision procedures (2000)

Recent years have seen the emergence of a new generation of heavily-optimised modal decision procedures. Several systems based on such procedures are now available and have proved to be much more effective than the previous generation of modal decision procedures. As both computational complexity and algorithm complexity are generally unchanged, neither is useful in analysing and comparing these new systems and their various optimisations. Instead, empirical testing has been widely used, both for comparison and as a tool for tuning systems and identifying their strengths and weaknesses. However, the very effectiveness of the new systems has revealed serious weaknesses in existing empirical test suites and methodologies. This paper provides a detailed survey of empirical testing methodologies, analyses the current state of the art and presents new results obtained with a recently developed test method.
Extracellular vesicles produced by airway epithelial cells from COPD patients contain miRNAs involved in cellular senescence (2022)

<b>Background:</b> COPD is a chronic lung inflammatory disease linked to lung aging and cellular senescence. MicroRNAs (miRNA) are 21-23 non-coding RNAs that induce post-transcriptional repression of their mRNA targets. Extracellular vesicles (EVs) carry miRNA, mRNA and proteins and play a key role in intercellular communication. Dysregulation of miRNA expression in cells and in EVs may participate in the induction and spreading of cellular senescence in COPD <b>Aim:</b> To compare miRNAs species encapsulated in EVs produced by small airway epithelial cells from healthy and COPD donors and their role on epithelial cells senescence <b>Methods:</b> Small airway epithelial cells (SAEC) from healthy donors and COPD patients were plated in submerged culture and EVs were isolated by differential ultracentrifugation of cell supernatants. Total RNAs from cells and EVs were isolated and miRNA species were analysed by miRNA sequencing <b>Results:</b> 13 miRNAs were significantly upregulated in EVs derived from COPD SAEC compared to healthy subjects (n=5). All miRNAs were also found upregulated in COPD SAEC compared to healthy subjects. Six miRNAs were implicated in senescence pathways: miR-100-5p (1.38 fold increase in COPD EVs), miR-424-5p (3.18-fold increase), miR-19b-3p (1.95-fold increase), miR-20a-5p (0.58-fold increase), miR-27a-3p (1.08-fold increase), miR-17-5p (0.68-fold increase) <b>Conclusion:</b> Our data suggest that EVs derived from COPD SAEC are enriched in miRNA involved in cellular senescence. This may contribute to COPD pathophysiology by inducing cellular senescence in adjacent cells. Further exploration of vesicular miRNAs in COPD may provide useful biomarkers and targets for therapy.
The design of a high-performance file server (2003)

The Bullet server is a file server that outperforms traditional file servers by more than a factor of three. It achieves high throughput and low delay by a software design radically different from that of file servers currently in use. Whereas files are normally stored as a sequence of disk blocks, each Bullet server file is stored contiguously, both on disk and in the server's random access memory cache. Furthermore, it uses the concept of an immutable file to improve performance, to enable caching, and to provide a clean semantic model to the user. The authors describe the design and implementation of the Bullet server in detail, present measurements of its performance, and compare this performance to that of the SUN file server running on the same hardware.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Wytyczne dla laboratoriów genetyki nowotworów litych (2016)

Niniejsze wytyczne skierowane s do laboratoriw wykonujcych diagnostyczne badania genetyczne technikami biologii molekularnej i cytogenetyki molekularnej (FISH) w zakresie genetyki nowotworw litych zarwno w obszarze zaburze genetycznych dziedzicznych,
Characterization of the human epidermal profilaggrin gene. Genomic organization and identification of an S-100-like calcium binding domain at the amino terminus. (1992)

Filaggrin is an intermediate filament-associated protein which functions to aggregate keratin intermediate filaments in the stratum corneum of mammalian epidermis. It is synthesized as a large precursor protein, profilaggrin, that consists of multiple filaggrin units and is localized in keratohyalin granules. In this report, we describe the characterization of cosmid genomic clones containing the human profilaggrin gene coding for 11 complete filaggrin repeats of 324 amino acids each. At the amino- and carboxyl-terminal ends of human profilaggrin are leader and tail peptide sequences of 293 and 157 amino acids, respectively, which differ from filaggrin. The leader peptide is composed of two distinct domains: an 81-residue segment which shows significant homology to the S-100 family of EF hand-containing calcium-binding proteins, and a hydrophilic second domain of 212 residues. The gene is divided into three exons, with one intron (approximately 9.6 kilobase pairs) in the 5' noncoding region and a second one of 570 base pairs between the EF hands. The position of intron 2 is identical to that of other members of the S-100-like family. The presence of an S-100-like domain suggests that profilaggrin binds calcium and that the calcium binding domain is functionally significant in the formation of keratohyalin and/or the subsequent processing of profilaggrin to filaggrin, both of which may be calcium-dependent events.
All-fibered high-quality low duty-cycle 160-GHz femtosecond pulse source (2008)

International audience
Resolution of Liver Fibrosis in Chronic CCl4 Administration in the Rat after Discontinuation of Treatment: Effect of Silymarin, Silibinin, Colchicine and Trimethylcolchicinic Acid (2005)

The aim of the present study was to investigate the hypothesis that liver tissue repair induced by exposure to chloroform (CHCl(3))+trichloroethylene binary mixture (BM) is dose-dependent similar to that elicited by exposure to these compounds individually. Male Sprague-Dawley rats (250-300 g) received three dose combinations of binary mixture (74+250, 185+500 and 370+1250 mg CHCl(3)+trichloroethylene/kg, intraperitoneally) in corn oil (maximum of 0.5 ml/kg). Liver injury was assessed by plasma alanine amino transaminase (ALT) activity and histopathology by haematoxylin & eosin. Liver tissue repair was measured by (3)H-thymidine incorporation into hepatonuclear DNA. Blood and liver levels of both the parent compounds and two major metabolites of trichloroethylene (trichloroacetic acid and trichloroethanol) were quantified by gas chromatography. The blood and liver CHCl(3) levels after the administration of binary mixture were similar compared to the administration of CHCl(3) alone. The blood and liver trichloroethylene levels after the binary mixture were significantly lower compared to trichloroethylene alone due to higher elimination in presence of CHCl(3), resulting in decreased production of metabolites. The antagonistic toxicokinetics resulted in lower liver injury than the summation of injury caused by the individual components at all three dose levels. On the other hand, tissue repair elicited by the binary mixture was dose-dependent. The interactive toxicity of this binary mixture of CHCl(3) and trichloroethylene led to subadditive initial liver injury because of a combined effect of higher elimination of TCE and mitigated progression of liver injury was prevented by timely dose-dependent stimulation of compensatory tissue repair. Even though the doses of the toxicants employed in this study are much higher than found in the environment, the results suggest that a mixture of these two compounds at environmental levels is unlikely to cause any exaggerated interactive acute liver toxicity of any biological significance.
A CENTRAL ROLE FOR CENTRAL TOLERANCE (2006)

Recent elucidation of the role of central tolerance in preventing organ-specific autoimmunity has changed our concepts of self/nonself discrimination. This paradigmatic shift is largely attributable to the discovery of promiscuous expression of tissue-restricted self-antigens (TRAs) by medullary thymic epithelial cells (mTECs). TRA expression in mTECs mirrors virtually all tissues of the body, irrespective of developmental or spatio-temporal expression patterns. This review summarizes current knowledge on the cellular and molecular regulation of TRA expression in mTECs, outlines relevant mechanisms of antigen presentation and modes of tolerance induction, and discusses implications for the pathogenesis of autoimmune diseases and other biological processes such as fertility, pregnancy, puberty, and tumor defense.
An SPDD p-MOSFET structure suitable for 0.1 and sub 0.1 micron channel length and its electrical characteristics (1992)

A new solid-phase diffused drain (SPDD) structure has been developed for 0.1 and sub-0.1 um p-MOSFET technology. Highly doped ultra-shallow p/sup +/ source and drain junctions were achieved by solid-phase diffusion from the highly doped BSG sidewall. The extremely shallow and high concentration drain profile significantly improved short channel effects without increasing parasitic resistance. The excellent electrical characteristics and good hot-carrier reliability of the SPDD p-MOSFET are demonstrated.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Weaving a social fabric into existing software (2005)

Contextual collaboration is a promising approach to embedding new collaborative features into existing applications. However, incorporating such new features may be too difficult for applications without extensible frameworks or too complex for legacy, custom, and mission-critical applications. We present Aspect-Oriented Retrofitting as a lightweight approach to embedding contextual collaboration in this class of applications, describe guidelines for designing retrofitting aspects, and walk through two examples.
The effect of vitamin D on neurocognitive functions in older vitamin D deficient adults: a pilot longitudinal interventional study (2023)

Vitamin D replacement has a positive effect on cognitive domains related to visuospatial, executive, and memory processing functions.
Magnetic-control-electric and reversal behavior of ZnO/NiFe/ZnO multilayer films (2017)

The magnetic-control-electric and corresponding dielectric behavior of the ZnO/NiFe/ZnO multilayer films have been demonstrated by applying an ultrathin bimetallic NiFe inserting layer into ZnO films, and fabricated by radio-frequency magnetron sputtering at room temperature without introducing any oxygen gas during deposition process. At first, a high quality crystalline ZnO(002) textured film was deposited and exhibited a dielectric constant value of around 10 confirmed at room temperature with the Agilent 42941B probe and 4294A impedance meters ranged from 40 Hz to 20 MHz. Once ZnO inserted with a 5 nm-thick NiFe inserting layer, the value of dielectric constant was dramatically increased from 10 to 12.5. This phenomenon can be attributed to redistribute the strongly interface charges between ZnO and NiFe layers and accompany with the relaxation of internal stress of ZnO. On the other hand, the external magnetic field induced dielectric variation can also be clearly observed, and the ZnO film with NiFe inserting layer demonstrates a 0.05%-0.10% dielectric tunability. The magnetic-control-electric and corresponding dielectric behavior of ZnO/NiFe/ZnO multilayers with a single inserting NiFe layer compared with that of pure ZnO film also conclude the magnetoelectric effect in present multilayered structures. Moreover, the grain size of the ZnO films was gradually increased from 32.5 nm to 40.5 nm while inserting with an ultrathin NiFe bimetallic layer. This grain structure transition can be attributed to the lattice misfit between ZnO and NiFe. This research work demonstrates that a single NiFe insering layer can effectively control the dielectric and magnetic characters in the ZnO/NiFe/ZnO multilayered structures and provide valuable multifunctional behaviors for potential novel applications design such as ferroic sensor.
Correlation of tumor gene expression profile and gleason score (GS) in patients (pts) with metastatic prostate cancer. (2023)

235 Background: GS is the most powerful prognostic predictor in prostate adenocarcinoma. However, the underlying reasons of disease aggressiveness as a function of GS are currently unknown. Herein we sought to investigate the corresponding differences in gene expression profiles of pts with prostate adenocarcinoma with respect to GS. Methods: In this IRB approved retrospective study, eligibility criteria included histologically confirmed prostate adenocarcinoma and available RNA sequencing results from treatment naïve primary prostate tissue by a CLIA certified lab. Pts were categorized into two cohorts: low GS (GS &lt;8) and high GS (GS ≥ 8). The DEseq2 pipeline was used to analyze differentially expressed genes between the groups. The data included the Log2 fold change, Wald-Test p-values, and Benjamini-Hochberg adjusted p-values for each differentially expressed gene. These results were subjected to Gene Set Enrichment software analysis (GSEA) in order to identify pathways enriched in each cohort. All bioinformatic analyses were undertaken using R v4.2. Results: Fifty-seven pts were eligible, of which 13 had a GS &lt;8 and 44 had a GS ≥8. Tumor tissues with high GS had a significantly higher expression of genes involved in the immune pathways (e.g., inflammatory response, interferon-γ, allograft rejection, and interferon-α), epithelial-mesenchymal transition, KRAS signaling, E2F targets and G2M checkpoint (q for all &lt;0.01). The genes involved in the androgen response pathway were significantly more expressed in biopsies with a low GS (q&lt;0.01). Normalized enrichment scores are reported in the table. Differential individual gene expression profiles will be presented at the meeting. Conclusions: Pts with prostatic adenocarcinoma with a GS ≥8 demonstrated a different transcriptomic profile than those with a GS &lt;8. Higher GS tumor tissues had upregulated of inflammatory, proliferation, and KRAS signaling. Lower GS tumor tissues had upregulated androgen signaling pathway. These hypothesis-generating results upon external validation may provide the rationale for personalized therapy in men with prostatic cancer. [Table: see text]
Efficacy and Safety of Midostaurin in Advanced Systemic Mastocytosis (2016)

In this open-label study, midostaurin showed efficacy in patients with advanced systemic mastocytosis, including the highly fatal variant mast-cell leukemia. (Funded by Novartis Pharmaceuticals and others; ClinicalTrials.gov number, NCT00782067.).
Intra-aortic Balloon Pump Counterpulsation in the Management of Concomitant Cerebral Vasospasm and Cardiac Failure after Subarachnoid Hemorrhage: Technical Case Report (1996)

We report two patients who had symptomatic cerebral vasospasm and cardiac failure after aneurysmal subarachnoid hemorrhage and who were treated successfully with intra-aortic balloon pump counterpulsation therapy. Both patients developed congestive heart failure and pulmonary edema while receiving postoperative hypertensive, hypervolemic, hemodilutional (Triple-H) therapy for symptomatic cerebral vasospasm. Both cases of cardiac failure were refractory to maximum pressor and inotropic infusions. Intra-aortic balloon pump counterpulsation was used to optimize cardiac performance to allow continuation of Triple-H therapy and to maintain adequate cerebral perfusion in an attempt to decrease the risk of cerebral ischemic complications. Both patients have had good long-term outcomes. These two cases illustrate the potential usefulness of the intra-aortic balloon pump as an adjunct to Triple-H therapy in patients with symptomatic cerebral vasospasm and cardiac failure. To our knowledge, this report documents the first clinical application of this adjunctive therapy for vasospasm after aneurysmal subarachnoid hemorrhage.
Ceramide generation by two distinct pathways in tumor necrosis factor α‐induced cell death (2001)

Ceramide accumulation in the cell can occur from either hydrolysis of sphingomyelin or by de novo synthesis. In this study, we found that blocking de novo ceramide synthesis significantly inhibits ceramide accumulation and subsequent cell death in response to tumor necrosis factor alpha. When cells were pre-treated with glutathione, a proposed cellular regulator of neutral sphingomyelinase, inhibition of ceramide accumulation at early time points was achieved with attenuation of cell death. Inhibition of both pathways achieved near-complete inhibition of ceramide accumulation and cell death indicating that both pathways of ceramide generation are stimulated. This illustrates the complexity of ceramide generation in cytokine action.
Steroids of unnatural configuration. Part XIII. Reactions of lumisterol Δ7-3-ketones with ethyl formate and with benzaldehyde (1969)

K. D. Bingham, W. R. T. Cottrell and G. D. Meakins, J. Chem. Soc. C, 1969, 674 DOI: 10.1039/J39690000674
Teflonoma presenting as a cystourethrocele. (2001)

We report an unusual case of teflonoma which appeared three years after teflon injection and presented as cystourethrocele. The pathology confirmed the presence of a giant cell reaction compatible with a teflonoma.
Independent evolution of tetraloop in enterovirus oriL replicative element and its putative binding partners in protein 3C (2017)

Background. Enteroviruses are small non-enveloped viruses with (+) ssRNA genome with one open reading frame. Enterovirus protein 3C (or 3CD for some species) binds the replicative element oriL to initiate replication. The replication of enteroviruses features low fidelity, which allows the virus to adapt to the changing environment on the one hand, and requires additional mechanisms to maintain the genome stability on the other. Structural disturbances in the apical region of oriL domain d can be compensated by amino acid substitutions in positions 154 or 156 of 3C (amino acid numeration corresponds to poliovirus 3C), thus suggesting the co-evolution of these interacting sequences in nature. The aim of this work was to understand co-evolution patterns of two interacting replication machinery elements in enteroviruses, the apical region of oriL domain d and its putative binding partners in the 3C protein. Methods. To evaluate the variability of the domain d loop sequence we retrieved all available full enterovirus sequences (&gt;6400 nucleotides), which were present in the NCBI database on February 2017 and analysed the variety and abundance of sequences in domain d of the replicative element oriL and in the protein 3C. Results. A total of 2,842 full genome sequences was analysed. The majority of domain d apical loops were tetraloops, which belonged to consensus YNHG (Y=U/C, N=any nucleotide, H=A/C/U). The putative RNA-binding tripeptide 154-156 (Enterovirus C 3C protein numeration) was less diverse than the apical domain d loop region and, in contrast to it, was species-specific. Discussion. Despite the suggestion that the RNA-binding tripeptide interacts with the apical region of domain d, they evolve independently in nature. Together, our data indicate the plastic evolution of both interplayers of 3C-oriL recognition.
Differential Effects of Genistein on Prostate Cancer Cells Depend on Mutational Status of the Androgen Receptor (2013)

Blocking the androgen receptor (AR) activity is the main goal of therapies for advanced prostate cancer (PCa). However, relapse with a more aggressive, hormone refractory PCa arises, which harbors restored AR activity. One mechanism of such reactivation occurs through acquisition of AR mutations that enable its activation by various steroidal and non-steroidal structures. Thus, natural and chemical compounds that contribute to inappropriate (androgen-independent) activation of the AR become an area of intensive research. Here, we demonstrate that genistein, a soy phytoestrogen binds to both the wild and the Thr877Ala (T877A) mutant types of AR competitively with androgen, nevertheless, it exerts a pleiotropic effect on PCa cell proliferation and AR activity depending on the mutational status of the AR. Genistein inhibited, in a dose-dependent way, cell proliferation and AR nuclear localization and expression in LAPC-4 cells that have wild AR. However, in LNCaP cells that express the T877A mutant AR, genistein induced a biphasic effect where physiological doses (0.5-5 µmol/L) stimulated cell growth and increased AR expression and transcriptional activity, and higher doses induced inhibitory effects. Similar biphasic results were achieved in PC-3 cells transfected with AR mutants; T877A, W741C and H874Y. These findings suggest that genistein, at physiological concentrations, potentially act as an agonist and activate the mutant AR that can be present in advanced PCa after androgen ablation therapy.
José María Blázquez, Religiones, ritos y creencias funerarias de la Hispania prerromana. Madrid, Biblioteca Nueva, 2001, 350 p. (2011)

Cet ouvrage, consacre aux religions du monde hispanique preromain et a leurs transformations et survivances durant la periode romaine, regroupe vingt-deux etudes originairement publiees entre 1990 et 1999. Le materiau, compose pour l'essentiel de l'examen des temoignages epigraphiques et archeologiques, est composite et souvent repetitif. On a un peu l'impression de se trouver devant le brouillon de ce qui aurait pu devenir un excellent ouvrage de synthese. Cependant, cette dispersion ne saur...