gebhart/patrepeval huggingface dataset:
From network design to dynamic provisioning and restoration in optical cross-connect mesh networks: an architectural and algorithmic overview (2001)

This article presents a broad overview of the architectural and algorithmic aspects involved in deploying an optical cross-connect mesh network, starting from the network design and capacity planning phase to the real-time network operation phase involving dynamic provisioning and restoration of lightpaths and online algorithms for route computation. Frameworks for offline design and capacity planning of optical networks based on projected future lightpath demands are discussed. The essential components of an IP-centric control architecture for dynamic provisioning and restoration of lightpaths in optical networks are outlined. These include neighbor discovery, topology discovery, route computation, lightpath establishment, and lightpath restoration. Online algorithms for route computation of unprotected, 1+1 protected and mesh-restored lightpaths are discussed in both the centralized and distributed scenarios.
Structure, Specificity, and Mode of Interaction for Bacterial Albumin-binding Modules (2002)

We have determined the solution structure of an albumin binding domain of protein G, a surface protein of group C and G streptococci. We find that it folds into a left handed three-helix bundle similar to the albumin binding domain of protein PAB from Peptostreptococcus magnus. The two domains share 59% sequence identity, are thermally very stable, and bind to the same site on human serum albumin. The albumin binding site, the first determined for this structural motif known as the GA module, comprises residues spanning the first loop to the beginning of the third helix and includes the most conserved region of GA modules. The two GA modules have different affinities for albumin from different species, and their albumin binding patterns correspond directly to the host specificity of C/G streptococci and P. magnus, respectively. These studies of the evolution, structure, and binding properties of the GA module emphasize the power of bacterial adaptation and underline ecological and medical problems connected with the use of antibiotics.
Heterocyclic quinones. XVI. The Reaction of acid Amides with 2,3‐ Dichloro‐1,4‐naphthoquinone, a novel route to naphth[2,3‐d]oxazole‐4,9‐diones (1977)

Abstract Heating acid amides 2 with 2,3‐dichloro‐1,4‐naphthoquinone 1 in solvents like glycerol or ethylene glycol gave readily naphth [2,3‐d] oxazole‐4,9‐diones 4 . The reaction was enhanced by addition of catalytic amounts of sodium hydrogencarbonate, but failed to proceed at all when attempted in low boiling polar or nonpolar solvents. 2‐Amido‐3‐chloro‐1,4‐naphthoquinones 3 were produced as intermediates in these reactions.
The diagnosis and treatment of 7 eases with dosed trachea bronchial injury by trauma (2009)

Objective To explore the diagnosis and trealanent of closed tracheal,bronchial injury.Methods The clinical features,early diagnosis and treatment about 7 cases of closed treacheal,bronchial injury wrerarolyzed.Results 3 cases of tracheal injury in neck were cured after urgent repairment:1 case of membranous tracheal chest injury was cured after drainage about mediastinal;the 3 cases of tracheobronchial injury were cured by sutured,patched and formed.Conclusion The key measure of increase the cure rate,reduce complications and reduce morality is early diagnosis and timely-reasonable treatment.

Key words: 
Trachea; Bronchi; Wounds and injuries; Diagnosis and treatment
Analysis of the viewing zone of the Cambridge autostereoscopic display (1996)

The Cambridge autostereoscopic three-dimensional display is a time-multiplexed device that gives both stereo and movement parallax to the viewer without the need for any special glasses. This analysis derives the size and position of the fully illuminated, and hence useful, viewing zone for a Cambridge display. The viewing zone of such a display is shown to be completely determined by four parameters: the width of the screen, the optimal distance of the viewer from the screen, the width over which an image can be seen across the whole screen at this optimal distance, and the number of views. A display's viewing zone can thus be completely described without reference to the internal implementation of the device. An equation that describes what the eye sees from any position in front of the display is derived. The equations derived can be used in both the analysis and design of this type of time-multiplexed autostereoscopic display.
Inhibiting Gene Expression with Locked Nucleic Acids (LNAs) That Target Chromosomal DNA (2007)

Oligonucleotides containing locked nucleic acid bases (LNAs) have increased affinity for complementary DNA sequences. We hypothesized that enhanced affinity might allow LNAs to recognize chromosomal DNA inside human cells and inhibit gene expression. To test this hypothesis, we synthesized antigene LNAs (agLNAs) complementary to sequences within the promoters of progesterone receptor (PR) and androgen receptor (AR). We observed inhibition of AR and PR expression by agLNAs but not by analogous oligomers containing 2'-methoxyethyl bases or noncomplementary LNAs. Inhibition was dose dependent and exhibited IC50 values of <10 nM. Efficient inhibition depended on the length of the agLNA, the location of LNA bases, the number of LNA substitutions, and the location of the target sequence within the targeted promoter. LNAs targeting sequences at or near transcription start sites yielded better inhibition than LNAs targeting transcription factor binding sites or an inverted repeat. These results demonstrate that agLNAs can recognize chromosomal target sequences and efficiently block gene expression. agLNAs could be used for gene silencing, as cellular probes for chromosome structure, and therapeutic applications.
Expression pattern of WT1 and GATA-1 in AML with chromosome 16q22 abnormalities. (1996)

WT1 is a tumor suppressor gene that can repress transcription of many growth-factor and growth-factor receptor genes. We quantitated WT1 expression levels in 62 acute myelogenous leukemia (AML) samples and found that 82% strongly expressed WT1. WT1 expression levels are highest in the undifferentiated and granulocytic French-American-British (FAB) subclasses and lower in the monocytic subclasses. WT1 was strongly expressed in normal CD34+ bone marrow (BM) stem cells but only weakly or not expressed in normal mature blood cells. This suggests that WT1 gene expression is associated with immature cells, which have high proliferative capacities. Previous studies of WT1 gene regulation showed that GATA-1 may regulate WT1 expression. To understand the relationship between WT1 and GATA-1 expression in leukemia, we examined the expression pattern of GATA-1 in the cells described above. Overall, AML samples expressed significant amounts of both WT1 and GATA-1. However, AML samples with 16q22 abnormalities, presumably interrupting the core binding factor (CBF) beta gene expressed lower than normal levels of GATA-1 but high levels of WT1. Our data suggest that the transcription factor CBF beta may be important for GATA-1 gene regulation. Thus, WT1 expression varied in different FAB subclasses, and GATA-1 expression was strongly affected by the presence of chromosome 16q22 abnormalities.
Temperature dependence of the indirect energy gap in crystalline silicon (1996)

The photoluminescence spectra of crystalline silicon samples are measured for temperatures below 1000 K. The optical transitions are analyzed in terms of excitonic and band-to-band transitions. From the modeling of the line shape we are able to determine the fundamental indirect band gap for temperatures up to 750 K. The temperature dependence follows the Varshni equation with Eg(0)=1.1692 eV, α=(4.9±0.2)×10−4 eV/K and β=(655±40) K.
Critical Role of Endogenous Thrombospondin-1 in Preventing Expansion of Healing Myocardial Infarcts (2005)

The infarct border zone may be capable of modulating the healing process through its unique extracellular matrix content. The selective endogenous expression of TSP-1 in the infarct border zone may serve as a "barrier," limiting expansion of granulation tissue and protecting the noninfarcted myocardium from fibrotic remodeling.
T Cell Receptor Mimic Peptidesand Their Potential Application in T-Cell-Mediated Diseas e (2000)

TCR mimic peptide efficiently abrogates T-cell-mediated immune responses in mice and man in vitro and in vivo. The potential immunosuppressive effect of the drug is discussed.
HER-2/neu Is Rate-limiting for Ovarian Cancer Growth (1997)

Amplification and overexpression of the HER-2/neu proto-oncogene frequently coincide with an aggressive clinical course of certain human adenocarcinomas. To assess whether HER-2/neu plays a rate-limiting role in ovarian cancer, we used human SK-OV-3 ovarian cancer cells as a model. We applied a conditional mRNA depletion strategy of HER-2/neu with anti-HER-2/neu-targeted hammerhead ribozymes expressed under the control of a tetracycline-regulated promoter system. In these ovarian cancer cells, we reduced HER-2/neu mRNA, protein expression, and tumor growth in nude mice by transfection with HER-2/neu-targeted ribozymes and generated cell lines expressing different levels of HER-2/neu. Expression of the most effective ribozyme (Rz3) quenched HER-2/neu mRNA levels by >90%. Concomitantly, fluorescence-activated cell sorting analysis revealed that expression of the HER-2/neu-encoded surface glycoprotein was almost completely abrogated. In nude mice, tumor growth was dramatically inhibited in the HER-2/neu-depleted Rz3-expressing SK-OV-3 cells. Furthermore, already established tumors started to regress when Rz3 expression was activated midstream by withdrawal of the tetracycline treatment. This study supports the thesis that HER-2/neu can be rate-limiting for the malignant phenotype of ovarian cancer in a gene dose-dependent manner.
ASVCP guidelines: quality assurance for portable blood glucose meter (glucometer) use in veterinary medicine (2016)

Abstract Portable blood glucose meters (PBGM, glucometers) are a convenient, cost effective, and quick means to assess patient blood glucose concentration. The number of commercially available PBGM is constantly increasing, making it challenging to determine whether certain glucometers may have benefits over others for veterinary testing. The challenge in selection of an appropriate glucometer from a quality perspective is compounded by the variety of analytic methods used to quantify glucose concentrations and disparate statistical analysis in many published studies. These guidelines were developed as part of the ASVCP QALS committee response to establish recommendations to improve the quality of testing using point‐of‐care testing (POCT) handheld and benchtop devices in veterinary medicine. They are intended for clinical pathologists and laboratory professionals to provide them with background knowledge and specific recommendations for quality assurance (QA) and quality control (QC), and to serve as a resource to assist the provision of advice to veterinarians and technicians to improve the quality of results obtained when using PBGM. These guidelines are not intended to be all‐inclusive; rather they provide a minimum standard for management of PBGM in the veterinary setting.
IN VITRO PROTEOGLYCAN SULFATION DERIVED FROM SULFHYDRYL COMPOUNDS IN SULFATE TRANSPORTER CHONDRODYSPLASIAS (2003)

Mutations in a sulfate-chloride antiporter gene, the diastrophic dysplasia sulfate transporter (DTDST), have been associated with a family of skeletal dysplasias including recessive multiple epiphyseal dysplasia, diastrophic dysplasia (DTD), atelosteogenesis type 2, and achondrogenesis type 1B (ACG1B). DTDST function is crucial for uptake of extracellular sulfate required for proteoglycan (PG) sulfation; the tissue-specific expression of the clinical phenotype may be the consequence of the high rate of PG synthesis in chondrocytes and the ensuing high sulfate requirement. We have studied the contribution of cysteine and its derivatives to PG sulfation in fibroblast and chondrocyte cultures from sulfate transporter dysplasia patients. Incubation of ACG1B fibroblasts in medium containing different concentrations of cystine indicated partial recovery of PG sulfation as measured by HPLC disaccharide analysis of chondroitin sulfate PGs; similar results were observed after incubation with N-acetylcysteine. When both compounds were tested in primary chondrocytes from a DTD patient, partial rescue of PG sulfation was observed, suggesting that the metabolic pathways producing cytoplasmic sulfate from thiols are also active in this cell type.
Inhibition of hypothalamic Foxo1 expression reduced food intake in diet‐induced obesity rats (2009)

Insulin signalling in the hypothalamus plays a role in maintaining body weight. The forkhead transcription factor Foxo1 is an important mediator of insulin signalling in the hypothalamus. Foxo1 stimulates the transcription of the orexigenic neuropeptide Y and Agouti-related protein through the phosphatidylinositol-3-kinase/Akt signalling pathway, but the role of hypothalamic Foxo1 in insulin resistance and obesity remains unclear. Here, we identify that a high-fat diet impaired insulin-induced hypothalamic Foxo1 phosphorylation and degradation, increasing the nuclear Foxo1 activity and hyperphagic response in rats. Thus, we investigated the effects of the intracerebroventricular (i.c.v.) microinfusion of Foxo1-antisense oligonucleotide (Foxo1-ASO) and evaluated the food consumption and weight gain in normal and diet-induced obese (DIO) rats. Three days of Foxo1-ASO microinfusion reduced the hypothalamic Foxo1 expression by about 85%. i.c.v. infusion of Foxo1-ASO reduced the cumulative food intake (21%), body weight change (28%), epididymal fat pad weight (22%) and fasting serum insulin levels (19%) and increased the insulin sensitivity (34%) in DIO but not in control animals. Collectively, these data showed that the Foxo1-ASO treatment blocked the orexigenic effects of Foxo1 and prevented the hyperphagic response in obese rats. Thus, pharmacological manipulation of Foxo1 may be used to prevent or treat obesity.
Isolation of Multiple TT Virus Genotypes from Spleen Biopsy Tissue from a Hodgkin's Disease Patient: Genome Reorganization and Diversity in the Hypervariable Region (2004)

We report the isolation of 24 novel genotypes of TT viruses from a surgically removed spleen of a patient with Hodgkin's disease. The sequence analysis of our 24 isolates revealed the remarkable heterogeneity of TT virus isolates not only from the same patient but also from the same biopsy material. These isolates belong to four phylogenetic groups of TT viruses. Nucleotide sequence analyses revealed five distinct genotypes (tth3, tth4, tth5, tth6, and tth7). The limited variation in sequence identity of the other isolates defines the latter as variants of four of these genotypes. A group of 6 isolates (the tth7 group) revealed a reorganization of open reading frame 1 (ORF1) leading to one larger and a varying number of smaller ORFs. The nucleotide difference of the full-length genomes was less than 1%. A variation of 69 to 97% in amino acids of a second group of 8 isolates (the tth3 group) was restricted to the hypervariable region of ORF1, indicating the existence of a quasi-species. These isolates differed by less than 2% in the remainder of their nucleotide sequences. An alignment of these isolates with 79 previously reported TT virus genotypes permits the proposal of TT virus genera and species within the family Anelloviridae in analogy to a previous proposal for the papillomaviruses (family Papillomaviridae).
Microsatellite and Chromosome Evolution of Parthenogenetic Sitobion Aphids in Australia (1996)

Single-locus microsatellite variation correlated perfectly with chromosome number in Sitobion miscanthi aphids. The microsatellites were highly heterozygous, with up to 10 alleles per locus in this species. Despite this considerable allelic variation, only seven different S. miscanthi genotypes were discovered in 555 individuals collected from a wide range of locations, hosts and sampling periods. Relatedness between genotypes suggests only two successful colonizations of Australia. There was no evidence for genetic recombination in 555 S. miscanthi so the occurrence of recent sexual reproduction must be near zero. Thus diversification is by mutation and chromosomal rearrangement alone. Since the aphids showed no sexual recombination, microsatellites can mutate without meiosis. Five of seven microsatellite differences were a single repeat unit, and one larger jump is likely. The minimum numbers of changes between karyotypes corresponded roughly one-to-one with microsatellite allele changes, which suggests very rapid chromosomal evolution. A chromosomal fission occurred in a cultured line, and a previously unknown chromosomal race was detected. All 121 diverse S. near fragariae were heterozygous but revealed only one genotype. This species too must have a low rate of sexual reproduction and few colonizations of Australia.
Triboelectric Active Sensor Array for Self-Powered Static and Dynamic Pressure Detection and Tactile Imaging (2013)

We report an innovative, large-area, and self-powered pressure mapping approach based on the triboelectric effect, which converts the mechanical stimuli into electrical output signals. The working mechanism of the triboelectric active sensor (TEAS) was theoretically studied by both analytical method and numerical calculation to gain an intuitive understanding of the relationship between the applied pressure and the responsive signals. Relying on the unique pressure response characteristics of the open-circuit voltage and short-circuit current, we realize both static and dynamic pressure sensing on a single device for the first time. A series of comprehensive investigations were carried out to characterize the performance of the TEAS, and high sensitivity (0.31 kPa(-1)), ultrafast response time (<5 ms), long-term stability (30,000 cycles), as well as low detection limit (2.1 Pa) were achieved. The pressure measurement range of the TEAS was adjustable, which means both gentle pressure detection and large-scale pressure sensing were enabled. Through integrating multiple TEAS units into a sensor array, the as-fabricated TEAS matrix was capable of monitoring and mapping the local pressure distribution applied on the device with distinguishable spatial profiles. This work presents a technique for tactile imaging and progress toward practical applications of nanogenerators, providing potential solutions for accomplishment of artificial skin, human-electronic interfacing, and self-powered systems.
The prognostic value of oncogenic antigen 519 (OA‐519) expression and proliferative activity detected by antibody MIB‐I in node‐negative breast cancer (1995)

Abstract The prognostic value of oncogenic antigen 519 (OA‐519) expression and tumour proliferative activity was evaluated in a retrospective series of 118 patients with low‐risk breast cancer. Low risk was defined as negative axillary nodes, tumour diameter ⩽50 mm, and no histological evidence of invasion of skin or deep fascia (=T 1 N 0 M 0 and T 2 N 0 M 0 ). The median follow‐up time was 104 months (range 5–143 months). Immunohistochemical analysis of OA‐519 expression was performed on formalin‐fixed, paraffin‐embedded tissue. The proliferative activity was estimated using a Ki‐67 equivalent monoclonal antibody (MIB‐1), which is applicable on formalin‐fixed, paraffin‐embedded tissue after microwave pretreatment. OA‐519 was expressed in about one‐third of the tumours and the percentage of proliferating cells (the MIB‐1 index) ranged between 1 and 72 per cent (median 17 per cent). Using multivariate Cox analysis, both the MIB‐1 index and OA‐519 expression were of independent prognostic value (2 p ⩽0·01), and the combined immunohistological approach may therefore be useful in selecting patients with node‐negative breast cancer who might benefit from adjuvant therapy.
Supervised learning from incomplete data via an EM approach (1993)

Real-world learning tasks may involve high-dimensional data sets with arbitrary patterns of missing data. In this paper we present a framework based on maximum likelihood density estimation for learning from such data sets. We use mixture models for the density estimates and make two distinct appeals to the ExpectationMaximization (EM) principle (Dempster et al., 1977) in deriving a learning algorithm---EM is used both for the estimation of mixture components and for coping with missing data. The resulting algorithm is applicable to a wide range of supervised as well as unsupervised learning problems. Results from a classification benchmark---the iris data set---are presented. 1 Introduction Adaptive systems generally operate in environments that are fraught with imperfections; nonetheless they must cope with these imperfections and learn to extract as much relevant information as needed for their particular goals. One form of imperfection is incompleteness in sensing information. Inc...
Nek4 Regulates Entry into Replicative Senescence and the Response to DNA Damage in Human Fibroblasts (2012)

When explanted into culture, normal human cells exhibit a finite number of cell divisions before entering a proliferative arrest termed replicative senescence. To identify genes essential for entry into replicative senescence, we performed an RNA interference (RNAi)-based loss-of-function screen and found that suppression of the Never in Mitosis Gene A (NIMA)-related protein kinase gene NEK4 disrupted timely entry into senescence. NEK4 suppression extended the number of population doublings required to reach replicative senescence in several human fibroblast strains and resulted in decreased transcription of the cyclin-dependent kinase inhibitor p21. NEK4-suppressed cells displayed impaired cell cycle arrest in response to double-stranded DNA damage, and mass spectrometric analysis of Nek4 immune complexes identified a complex containing DNA-dependent protein kinase catalytic subunit [DNA-PK(cs)], Ku70, and Ku80. NEK4 suppression causes defects in the recruitment of DNA-PK(cs) to DNA upon induction of double-stranded DNA damage, resulting in reduced p53 activation and H2AX phosphorylation. Together, these observations implicate Nek4 as a novel regulator of replicative senescence and the response to double-stranded DNA damage.
microRNA-22 downregulation of galectin-9 influences lymphocyte apoptosis and tumor cell proliferation in liver cancer (2015)

Galectin-9 (Gal-9) plays an important role in both the immune response and tumor progression, while microRNAs act as tumor regulators to mediate tumorigenesis. However, the underlying molecular mechanisms remain unknown. In the present study, we investigated the relationship between Gal-9 and microRNA-mediated regulation in liver cancer. We examined Gal-9 expression using qRT-PCR and western blot analysis and found that it was markedly upregulated in human liver cancer cells compared with the level in normal hepatocytes. We co-cultured peripheral blood mononuclear cells (PBMCs) and tumor cells and observed that Gal-9 induced lymphocyte apoptosis and tumor cell immune escape using flow cytometric analysis and WST-1 assay. We found that miR-22 was downregulated in liver cancer tissues and cell lines and confirmed that miR-22 directly targeted the Gal-9 3'UTR and negatively regulated Gal-9 expression by luciferase reporter assay and transfection of microRNA mimics. We also observed that the Gal-9/miR-22 axis may influence lymphocyte apoptosis and tumor cell proliferation. These studies contribute to a further understanding of the microRNA‑mediated regulation of the Gal-9 pathway and elucidate novel therapeutic targets for liver cancer.