gebhart/patrepeval huggingface dataset:
Regulation of pathogenesis-related protein-1a gene expression in tobacco. (1993)

Pathogenesis-related protein-1a (PR-1a) is a protein of unknown function that is strongly induced during the onset of systemic acquired resistance (SAR) in tobacco. The expression of PR-1a is under complex regulation that is controlled at least partially by the rate of transcription. In this study, we demonstrated that 661 bp of 5' flanking DNA was sufficient to impart tobacco mosaic virus and salicylic acid inducibility to a reporter gene. The PR-1a promoter did not respond significantly to treatments with either auxin or cytokinin. Experiments with the protein synthesis inhibitor cycloheximide indicated that protein synthesis is required for salicylate-dependent mRNA accumulation. At flowering, the PR-1a gene was expressed primarily in the mesophyll and epidermal tissues of the leaf blade and the sepals of the flower. Several artifacts, most importantly ectopic expression in pollen, were associated with the use of the beta-glucuronidase reporter gene.
Furfural as a Marker of DNA Cleavage by Hydroxylation at the 5′ Carbon of Deoxyribose (1991)

Depending upon the type of DNA substrate, a manganoporphyrin/KHSO5 system as artificial nuclease preferably attacks at the C1′ or C5′ atom of the deoxyribose moiety, whereby subsequent heating of the reaction mixtures leads to release of 5-methylene-2-furanone (5-MF) and furfural (FUR). The ratio 5-MF/FUR directly reflects the relative reactivities of the cleaving reagent with respect to C1′ and C5′. A possible reaction for the formation of FUR is outlined below. = terminal phosphate residue, B = nucleobase.
Intramuscular scAAV9-SMN Injection Mediates Widespread Gene Delivery to the Spinal Cord and Decreases Disease Severity in SMA Mice (2013)

We have recently demonstrated the remarkable efficiency of self-complementary (sc) AAV9 vectors for central nervous system (CNS) gene transfer following intravenous delivery in mice and larger animals. Here, we investigated whether gene delivery to motor neurons (MNs) could also be achieved via intramuscular (i.m.) scAAV9 injection and subsequent retrograde transport along the MNs axons. Unexpectedly, we found that a single injection of scAAV9 into the adult mouse gastrocnemius (GA) mediated widespread MN transduction along the whole spinal cord, without limitation to the MNs connected to the injected muscle. Spinal cord astrocytes and peripheral organs were also transduced, indicating vector spread from the injected muscle to both the CNS and the periphery through release into the blood circulation. Moreover, we showed that i.m. injection of scAAV9 vectors expressing "survival of motor neuron" (Smn) in spinal muscular atrophy (SMA) mice mediated high survival motor neuron (SMN) expression levels at both the CNS and the periphery, and increased the median lifespan from 12 days to 163 days. These findings represent to date the longest extent in survival obtained in SMA mice following i.m. viral vector gene delivery, and might generate a renewed interest in the use of i.m. adeno-associated viruses (AAV) delivery for the development of gene therapy strategies for MN diseases.
Investigating the Control by Quantum Confinement and Surface Ligand Coating of Photocatalytic Efficiency in Chalcopyrite Copper Indium Diselenide Nanocrystals (2016)

In the past few years, there has been immense interest in the preparation of sustainable photocatalysts composed of semiconductor nanocrystals (NCs) as one of their components. We report here, for the first time, the effects of structural parameters of copper indium diselenide (CuInSe2) NCs on visible light-driven photocatalytic degradation of pollutants under homogeneous conditions. Ligand exchange reactions were performed replacing insulating, oleylamine capping with poly(ethylene glycol) thiols to prepare PEG-thiolate-capped, 1.8–5.3 nm diameter CuInSe2 NCs to enhance their solubility in water. This unique solubility property caused inner-sphere electron transfer reactions (O2 to O2•−) to occur at the NC surface, allowing for sustainable photocatalytic reactions. Electrochemical characterization of our dissolved CuInSe2 NCs showed that the thermodynamic driving force (−ΔG) for oxygen reduction, which increased with decreased NC size, was the dominant contributor to the overall process when compared to the contribution light absorption and the Coulombic interaction energies of electron–hole pair (Je/h). A 2-fold increase in phenol degradation efficiency (from 30 to ∼60%) was achieved by controlled variation of the diameter of CuInSe2 NCs from 5.3 to 1.8 nm. The surface ligand dependency of photocatalytic efficiency was also investigated, and a profound effect on phenol degradation was observed. Our PEG-thiolate-capped CuInSe2 NCs showed photocatalytic activity toward other organic compounds, such as N,N-dimethyl-4-phenylenediamine, methylene blue, and thiourea, which showed decomposition under visible light.
Web Document Analysis Based on Visual Segmentation and Page Rendering (2012)

This paper proposes an approach for segmenting a Web page into its semantic parts. Such analysis may be useful for adapting blog or other pages on small devices. In this approach, we take advantage of both dynamic layout after rendering and textual information. Our method segments the page into blocks and then classifies the blocks. A classification in semantic parts is performed thanks to a SVM-based machine learning approach using a set of 30 textual and visual-based features. Evaluation is conducted on a Web blog database. Results are provided for both block classification and blog segmentation into articles.
Glucocerebrosidase mutations are an important risk factor for Lewy body disorders (2006)

The synucleinopathies are neurodegenerative disorders defined by inclusions composed of aberrantly fibrillized alpha-synuclein, but factors contributing to this process remain largely unknown. The authors examined the glucocerebrosidase gene in 75 autopsy specimens with different synucleinopathies and identified mutations in 23% of cases of dementia with Lewy bodies, expanding on previous findings in subjects with Parkinson disease. Mutations in this lysosomal protein may interfere with the clearance or promote aggregation of alpha-synuclein.
Total Synthesis of (−)-Muscoride A (1996)

The recently isolated cyanobacterium metabolite muscoride A was synthesized in 15 steps and in 4.3% overall yield. Novel structural features of this peptide antibiotic include the presence of a threonine-derived bioxazole core and an N-(1,1-dimethyl)allyl ("reverse prenyl") valine residue. In the context of our synthesis, efficient new strategies for the preparation of these segments were developed. The synthesis of two epimers of muscoride A allowed the unambiguous assignment of the relative and absolute configuration of the natural product by NMR and optical rotation analyses.
Glycerol Reverses the Misfolding Phenotype of the Most Common Cystic Fibrosis Mutation (1996)

The common delta F508 mutation in the cystic fibrosis transmembrane conductance regulator (CFTR) interferes with the biosynthetic folding of nascent CFTR polypeptides, leading to their retention and rapid degradation in an intracellular compartment proximal to the Golgi apparatus. Neither the pathway by which wild-type CFTR folds nor the mechanism by which the Phe508 deletion interferes with this process is well understood. We have investigated the effect of glycerol, a polyhydric alcohol known to stabilize protein conformation, on the folding of CFTR and delta F508 in vivo. Incubation of transient and stable delta F508 transfectants with 10% glycerol induced a significant accumulation of delta F508 protein bearing complex N-linked oligosaccharides, indicative of their transit to a compartment distal to the endoplasmic reticulum (ER). This accumulation was accompanied by an increase in mean whole cell cAMP activated chloride conductance, suggesting that the glycerol-rescued delta F508 polypeptides form functional plasma membrane CFTR channels. These effects were dose- and time-dependent and fully reversible. Glycerol treatment also stabilized immature (core-glycosylated) delta F508 and CFTR molecules that are normally degraded rapidly. These effects of glycerol were not due to a general disruption of ER quality control processes but appeared to correlate with the degree of temperature sensitivity of specific CFTR mutations. These data suggest a model in which glycerol serves to stabilize an otherwise unstable intermediate in CFTR biosynthesis, maintaining it in a conformation that is competent for folding and subsequent release from the ER quality control apparatus.
Sensitization of tumor necrosis factor alpha-resistant human melanoma by tumor-specific in vivo transfer of the gene encoding endothelial monocyte-activating polypeptide II using recombinant vaccinia virus. (1999)

Tumor necrosis factor alpha (TNF-alpha) is a proinflammatory cytokine with potent experimental antitumor activity. Its clinical use in cancer treatment is severely limited by its considerable toxicity after systemic administration, and it is currently confined to isolated limb and organ perfusion settings. In this report, we introduce a novel concept of TNF-alpha-based gene therapy using the TNF-sensitizing properties of endothelial cell monocyte-activating polypeptide II (EMAP-II). We hypothesized that transfer of the EMAP-II gene into established TNF-resistant human melanomas would render these tumors sensitive to subsequent systemic TNF-alpha treatment. To achieve tumor selective gene delivery, we constructed a recombinant vaccinia virus encoding the human EMAP-II gene (vvEMAP). In vitro transfection of human melanoma cells led to the production of EMAP-II by these cells. Supernatants of vvEMAP-transfected tumor cells mediated the induction of tissue factor in endothelial cells. We characterized the pattern of gene expression after systemic administration of a recombinant vaccinia virus encoding a reporter gene in a murine in vivo model of s.c. human melanoma. Gene expression in tumor tissue was increased 100-fold as compared with normal tissue, providing evidence for tumor-selective gene delivery. Finally, human melanomas in nude mice were sensitized in vivo by transferring the EMAP-II gene using vvEMAP. Subsequent systemic administration of TNF-alpha led to tumor regression and growth inhibition of these previously TNF-resistant tumors (P < 0.05). This approach using gene therapy to sensitize primarily unresponsive tumors toward TNF-alpha may enhance the usefulness of TNF-alpha in clinical treatment strategies by increasing the window for the therapeutic application of the cytokine, thus reducing the dose necessary for antitumor responses and subsequently reduce toxicity.
A seven‐gene signature can predict distant recurrence in patients with triple‐negative breast cancers who receive adjuvant chemotherapy following surgery (2014)

The aim of this study was to investigate candidate genes that might function as biomarkers to differentiate triple negative breast cancers (TNBCs) among patients, who received adjuvant chemotherapy after curative surgery. We tested whether the results of a NanoString expression assay that targeted 250 prospectively selected genes and used mRNA extracted from formalin-fixed, paraffin-embedded would predict distant recurrence in patients with TNBC. The levels of expression of seven genes were used in a prospectively defined algorithm to allocate each patient to a risk group (low or high). NanoString expression profiles were obtained for 203 tumor tissue blocks. Increased expressions of the five genes (SMAD2, HRAS, KRT6A, TP63 and ETV6) and decreased expression of the two genes (NFKB1 and MDM4) were associated favorable prognosis and were validated with cross-validation. The Kaplan-Meier estimates of the rates of distant recurrence at 10 years in the low- and high-risk groups according to gene expression signature were 62% [95% confidence interval (CI), 48.6-78.9%] and 85% (95% CI, 79.2-90.7%), respectively. When adjusting for TNM stage, the distant recurrence-free survival (DRFS)s in the low-risk group was significantly longer than that in the high-risk group (p <0.001) for early stage (I and II) and advanced stage (III) tumors. In a multivariate Cox regression model, the gene expression signature provided significant predictive power jointly with the TNM staging system. A seven-gene signature could be used as a prognostic model to predict DRFS in patients with TNBC who received curative surgery followed by adjuvant chemotherapy.
A Pilot Safety Study of Capecitabine, A New Oral Fluoropyrimidine, in Patients with Advanced Neoplastic Disease (1996)

5-fluorouracil (5-FU) is still one of the most prescribed cytostatic drugs, but gastrointestinal toxicity limits its use. Capecitabine, an orally administered prodrug of 5-FU, is activated by a cascade of three enzymes, resulting in the preferential release of 5-FU at the tumor site; it was developed in an attempt to avoid the problem of gastrointestinal toxicity of fluoropyrimidines. The aim of the present study was to investigate the safety profile of capecitabine at the daily oral dose of 502 mg/m2, given in two divided doses 12 hr apart for at least 10 days of treatment. In conformity with Italian law, 11 patients (8 females and 3 males) with advanced or metastatic pretreated solid tumors (4 colon-rectum, 3 breast, 2 stomach, 1 ovary, 1 lung) were enrolled. Treatment duration ranged from 1.5 to 14 days. Ten of the 11 patients received the planned 10 days of treatment. One patient was discontinued on the second treatment day when he presented with symptoms of intracranial hypertension with multiple brain metastases documented by CT scan. Toxicity consisted of 1 case of mild edema; no adverse events characteristic of fluoropyrimidines were recorded. No abnormalities in hematologic, renal, hepatic or electrolyte values were seen. In conclusion, capecitabine, given at this dose and for a relatively short period, proved to be well tolerated. Further investigation is recommended to define the promising antitumor efficacy documented in many human xenograft models in mice.
Immune tolerance therapy in paediatric haemophiliacs with factor VIII inhibitors: 14 years follow‐up (1995)

We report our clinical experience in the immune tolerance (IT) therapy of 21 paediatric haemophiliacs with FVIII inhibitor: high responders (16HR) received initially FVIII twice daily at a dosage of 50-300 U/kg/day, 11/16 received a concomitant treatment with activated prothrombin complex concentrate (100-200 U/kg/day). Low responders (five LR) received 20-100 FVIII U/kg every second or third day. Inhibitor elimination was achieved in 19/21 patients in a median time of 4 months in HR and 1.5 months in LR. The outcome and length of time needed to induce IT was significantly correlated with FVIII exposure between the first inhibitor detection and onset of IT therapy and to interruption of IT therapy. For a rapid elimination of FVIII inhibitors it is important to start continuous administration of high-dose FVIII (≥ 100 FVIII U/kg/day) before repeated exposure to FVIII, in order to prevent rebooster effects, prolongation of elimination time, and to reduce expense.
L-Trypiophan in Neuroleptic-Induced Tardive Dyskinesia (1988)

Administration of the serotonin precursor L-tryptophan in a patient with neuroleptic-induced tardive dyskinesia, produced a dramatic reduction in the severity of the abnormal movements within 24 hours. This report supports our hypothesis that alterations in the function of serotoninergic neurotransmission are implicated in the pathophysiology of neuroleptic-induced tardive dyskinesia.
Managing standby and active mode leakage power in deep sub-micron design (2004)

Scaling has allowed rising transistor counts per die and increases leakage at an exponential rate, making power a primary constraint in all integrated circuit designs. Future designs must address emerging leakage components due to direct band to band tunneling, through MOSFET oxides and at steep junction doping gradients. In this paper, we describe circuit design techniques for managing leakage power, both during standby and for limiting the leakage power contribution during active operation. The efficacy, design effort, and process ramifications of different approaches are examined. The schemes are primarily aimed at hand-held devices such as cell phones, since the needs for low power are most acute in these markets due to limited battery capacity.
Transportability and generality in a natural-language interface system (1983)

This paper describes the design of a transportable natural language (NL) interface to databases and the constraints that transportability places on each component of such a system. By a transportable NL system, the authors mean an NL processing system that is constructed so that a domain expert (rather than an artificial intelligence (AI) or linguistics expert) can move the system to a new application domain. After discussing the general problems presented by transportability, this paper describes TEAM (an acronym for Transportable English database Access Medium), a demonstrable prototype of such a system. The discussion of TEAM shows how domain-independent and domain-dependent information can be separated in the different components of a NL interface system, and presents one method of obtaining domain-specific information from a domain expert.
A comparative study on feature selection and classification methods using gene expression profiles and proteomic patterns. (2002)

Feature selection plays an important role in classification. We present a comparative study on six feature selection heuristics by applying them to two sets of data. The first set of data are gene expression profiles from Acute Lymphoblastic Leukemia (ALL) patients. The second set of data are proteomic patterns from ovarian cancer patients. Based on features chosen by these methods, error rates of several classification algorithms were obtained for analysis. Our results demonstrate the importance of feature selection in accurately classifying new samples.
Establishment of functional B cell memory against parvovirus B19 capsid proteins may be associated with resolution of persistent infection (2005)

Parvovirus B19 (B19) infection can occur during acute lymphoblastic leukemia and persistent viral infection can occur despite intravenous immunoglobulin administration. Here, evidence is presented that resolution of persistent B19 infection in an acute lymphoblastic leukemia patient may be associated with the simultaneous strengthening of antigen-specific B cell memory against the B19 capsid protein VP2 and diminution in the memory response against the B19 non-structural protein 1 (NS1). Determination of antigen-specific B cell memory status may enhance the serological and molecular analyses of persistent B19 infection.
Magnetic Resonance Imaging Study of the Craniocervical Junction (2005)

After using MRI to confirm the standard parameters of basilar impression as previously formulated from lateral skull radiographs, we recommend using McRae's line and Ranawat's line in the initial screening for basilar impression for the Asian population. Chamberlain's line and McGregor's line are viable alternatives, but clinicians must be aware of the potential for false positives.
Dynamic allocation of downlink and uplink resource for broadband services in fixed wireless networks (1999)

We propose and analyze a resource allocation algorithm, referred to as the enhanced staggered resource allocation (ESRA) method, for fixed broadband wireless networks with directional antennas at base stations and terminals. The new method is based on the staggered resource allocation (SRA) algorithm with consideration of reception quality at terminals. Terminals are categorized into multiple classes, depending on their ability to tolerate concurrent packet transmissions. The purpose of the ESRA method is to maximize concurrent transmissions up to an extent tolerable by the receiving terminals for throughput improvement, while avoiding major cochannel interference in the networks where frequency is reused very aggressively. For practical radio parameters, the ESRA method provides 98.69% coverage and yields a maximum downlink throughput of 36.10% per sector while meeting a 15 dB signal-to-interference ratio (SIR). As for the uplink, using full power control, the throughput reaches 16.7% per sector with a packet loss probability of less than 5/spl times/10/sup -4/. The high ESRA throughput translates into a very large network capacity, and the high quality of service reveals that the new method can support real-time traffic such as voice and video, as expected in future broadband multimedia services in fixed wireless networks.
LISP Traffic Engineering Use-Cases (2017)

This document describes how LISP reencapsulating tunnels can be used
for Traffic Engineering purposes. The mechanisms described in this
document require no LISP protocol changes but do introduce a new
locator (RLOC) encoding. The Traffic Engineering features provided by
these LISP mechanisms can span intra-domain, inter-domain, or
combination of both.
Numeracy Skills Disorders: Review of Causes and Neuropsychological Mechanisms of Dyscalculia (2022)

The article presents a review of foreign studies on the numerical difficulties and numerical disorders. The main modern theories of the mechanisms underlying the difficulties and disorders of counting are reflected, various classifications of dyscalculia are compared, and the neuropsychological foundations of the brain organization of counting are analyzed according to foreign scientists. It is noted that in the world of psychological science, the issues of the causes and mechanisms of difficulties and disorders of counting are still insufficiently developed, and the results of empirical researches are contradictory. It is concluded that for further study of dyscalculia it is necessary to analyze the psychological structure of counting and its changes under the influence of learning, taking into account the structural and functional features of the brain organization of quantitative information processing.