gebhart/patrepeval huggingface dataset:
Immunopharmacology (1987)

IMMUNOPHARMACOLOGY involves the study of the regulation of the immune system and of methods that selectively modify immune function in the treatment of human diseases. The earliest origins of immunotherapy lie in the development of the vaccines that today are the mainstay of specific immunoprophylaxis for cholera, poliomyelitis, smallpox, tetanus, diphtheria, measles, pertussis, influenza, and mumps. The future will see effective vaccines for hepatitis, gonorrhea, cytomegalovirus, and herpesvirus. Novel approaches, using modified antigens, may lead to future vaccines yielding specific tolerance for transplantation alloantigens and allergens or yielding resistance to certain cancers and even to the acquired immunodeficiency syndrome (AIDS). With the definition of the immunoglobulins, the administration of γ-globulins followed naturally in the 1950s for treatment of agammaglobulinemia, for hepatitis prophylaxis, and for immunization with live attenuated virus vaccines. The elucidation of the severe combined immunodeficiency disease brought bone marrow transplantation, now a successful and currently accepted treatment for
Threshold voltage instability at low temperatures in partially depleted thin film SOI MOSFETs (2002)

The threshold voltage instability at low temperatures due to the floating Si film in partially depleted SIMOX was examined at low temperatures under normal operating conditions. Floating-film SOI MOS transistors suffer an accumulation of holes generated by impact ionization near the drain, at the lower Si film interface. As the potential at this interface increases due to hole accumulation, the source junction becomes forward biased, limiting the amount of charge which can accumulate. This causes the saturation kink effect. The increase in potential at the lower interface acts analogously to a positive bias in bulk devices and effectively decreases the threshold voltage of the device. The use of the channel contact alleviates the hole accumulation effect by providing a conducting path for the generated holes. Hence, the grounded film exhibits a higher threshold voltage than the floating film.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Split ubiquitin as a sensor of protein interactions in vivo. (1994)

We describe an assay for in vivo protein interactions. Protein fusions containing ubiquitin, a 76-residue, single-domain protein, are rapidly cleaved in vivo by ubiquitin-specific proteases, which recognize the folded conformation of ubiquitin. When a C-terminal fragment of ubiquitin (C(ub)) is expressed as a fusion to a reporter protein, the fusion is cleaved only if an N-terminal fragment of ubiquitin (Nub) is also expressed in the same cell. This reconstitution of native ubiquitin from its fragments, detectable by the in vivo cleavage assay, is not observed with a mutationally altered Nub. However, if C(ub) and the altered Nub are each linked to polypeptides that interact in vivo, the cleavage of the fusion containing C(ub) is restored, yielding a generally applicable assay for kinetic and equilibrium aspects of in vivo protein interactions. This method, termed USPS (ubiquitin-based split-protein sensor), makes it possible to monitor a protein-protein interaction as a function of time, at the natural sites of this interaction in a living cell.
Paclitaxel by 3-hour infusion in combination with bolus doxorubicin in women with untreated metastatic breast cancer: high antitumor efficacy and cardiac effects in a dose-finding and sequence-finding study. (1995)

The rate of CR and incidence of CHF may be an expression of therapeutic and toxic enhancement due to the schedule used in this trial. Until clarification of this possibility, this promising combination should be used in investigational trials.
Upper dorsal thoracoscopic sympathectomy for palmar hyperhidrosis. The use of harmonic scalpel versus diathermy. (2001)

The present study proved the safe use of harmonic scalpel for upper dorsal thoracoscopic sympathectomy, but did not detect any important advantage of either instrument over diathermy.
Mechanisms for Selective Toxicity of Fipronil Insecticide and Its Sulfone Metabolite and Desulfinyl Photoproduct (1998)

Fipronil, an N-phenylpyrazole with a trifluoromethylsulfinyl substituent, initiated the second generation of insecticides acting at the gamma-aminobutyric acid (GABA) receptor to block the chloride channel. The first generation includes the polychlorocycloalkanes alpha-endosulfan and lindane. In this study, we examine the mechanisms for selective toxicity of the sulfoxide fipronil and its sulfone metabolite and desulfinyl photoproduct relative to their target site interactions in vitro and ex vivo and the importance in fipronil action of biooxidation to the sulfone. Differences in GABA receptor sensitivity, assayed by displacement of 4'-ethynyl-4-n-[2, 3-3H2]propylbicycloorthobenzoate ([3H]EBOB) from the noncompetitive blocker site, appear to be a major factor in fipronil being much more toxic to the insects (housefly and fruit fly) than to the vertebrates (humans, dogs, mice, chickens, quail, and salmon) examined; in insects, the IC50s range from 3 to 12 nM for fipronil and its sulfone and desulfinyl derivatives, while in vertebrates, the IC50 average values are 1103, 175, and 129 nM for fipronil, fipronil sulfone, and desulfinyl fipronil, respectively. The insect relative to the vertebrate specificity decreases in the following order: fipronil > lindane > desulfinyl fipronil > fipronil sulfone > alpha-endosulfan. Ex vivo inhibition of [3H]EBOB binding in mouse brain is similar for fipronil and its sulfone and desulfinyl derivatives at the LD50 dose, but surprisingly, at higher doses fipronil can be lethal without detectably blocking the [3H]EBOB site. The P450 inhibitor piperonyl butoxide, acting in houseflies, increases the metabolic stability and effectiveness of fipronil and the sulfone but not those of the desulfinyl compound, and in mice it completely blocks the sulfoxide to sulfone conversion without altering the poisoning. Thus, the selective toxicity of fipronil and fipronil-derived residues is due in part to the higher potency of the parent compound at the insect versus the mammalian GABA receptor but is also dependent on the relative rates of conversion to the more persistent and less selective sulfone metabolite and desulfinyl photoproduct.
Increased local antitumor effects of interleukin 2 liposomes in mice with MCA-106 sarcoma pulmonary metastases. (1990)

The effects of liposome formulations of interleukin 2 (IL-2) and local route were studied in C57BL/6 mice with MCA-106 sarcoma pulmonary metastases. IL-2 liposomes made by hydration of powdered dimyristoyl-phosphatidylcholine with aqueous recombinant IL-2 had 95% of the IL-2 associated with the lipid fraction. When mice with pulmonary micrometastases were treated once daily with free cytokine on days 5, 6, and 7 after tumor inoculation, the intrathoracic route was superior to the i.p. or s.c. routes. When IL-2 liposomes were administered by the local intrathoracic route, significantly better antitumor effects (P less than 0.01) were seen compared to empty liposomes or free IL-2 as determined by (a) increased survival and (b) reduced numbers of pulmonary metastases. Minimal toxicity was observed. Results indicate that local route and incorporation of IL-2 in liposomes may enhance therapeutic efficacy and facilitate more practical daily dosing regimens.
Use of two-dimensional deformable mesh structures for video coding. II. The analysis problem and a region-based coder employing an active mesh representation (1996)

For pt.I see ibid., vol.6, no.6, p.636-46 (1996). This paper explores the use of the deformable mesh structure for motion/shape analysis and synthesis in an image sequence. We present algorithms for the analysis problem, including scene-adaptive mesh generation and node tracking over successive frames. We also describe a region-based video coder that integrates the analysis and synthesis algorithms presented. The coder describes each region by an ensemble of connected quadrilateral elements embedded in a mesh structure. For each region, its shape and texture are described by the nodal positions and image functions of the elements in this region in an initial frame, while its motion (including shape deformation) is characterized by the nodal trajectories in the following frames, which are in turn specified by a few motion parameters. This coder has been applied to a typical common intermediate format (CIF) resolution, head-and-shoulder type sequence. The visual quality is significantly better than the H.263-TMN4 algorithm at about 50 kb/s (for the luminance component only, 30 Hz).
DNA‐Based Carbohydrate Biochips: A Platform for Surface Glyco‐Engineering (2007)

When the chips are down: A glycoarray consisting of oligonucleotide/carbohydrate conjugates hybridized onto a DNA chip can be used for the immobilization of oligosaccharides at extremely low concentrations (1 μM). With lectin, the lower detection limit of the device was 2–20 nm. The relative surface density of the conjugates was monitored by Cy3 fluorescence. Supporting information for this article is available on the WWW under http://www.wiley-vch.de/contents/jc_2002/2007/z604955_s.pdf or from the author. Please note: The publisher is not responsible for the content or functionality of any supporting information supplied by the authors. Any queries (other than missing content) should be directed to the corresponding author for the article.
Learning to control brain rhythms: making a brain-computer interface possible (2003)

The ability to control electroencephalographic rhythms and to map those changes to the actuation of mechanical devices provides the basis for an assistive brain-computer interface (BCI). In this study, we investigate the ability of subjects to manipulate the sensorimotor mu rhythm (8-12-Hz oscillations recorded over the motor cortex) in the context of a rich visual representation of the feedback signal. Four subjects were trained for approximately 10 h over the course of five weeks to produce similar or differential mu activity over the two hemispheres in order to control left or right movement in a three-dimensional video game. Analysis of the data showed a steep learning curve for producing differential mu activity during the first six training sessions and leveling off during the final four sessions. In contrast, similar mu activity was easily obtained and maintained throughout all the training sessions. The results suggest that an intentional BCI based on a binary signal is possible. During a realistic, interactive, and motivationally engaging task, subjects learned to control levels of mu activity faster when it involves similar activity in both hemispheres. This suggests that while individual control of each hemisphere is possible, it requires more learning time.
Efficient Transgene Expression in Chrysanthemum, Dendranthema grandiflorum (Ramat.) Kitamura, by Using the Promoter of a Gene for Chrysanthemum Chlorophyll-a/b-binding Protein (2004)

We investigated the usefulness of the promoter of a gene for chrysanthemum chlorophyll-a/b-binding protein (Cab) for transgene expression in the chrysanthemum Dendranthema grandiflorum (Ramat.) Kitamura. We used the promoter region of a Cab gene isolated from the chrysanthemum-wild species D. japonicum Makino. The 35S promoter of cauliflower mosaic virus (CaMV) or the Cab promoter was fused to the β-glucuronidase gene (gus) and introduced into the chrysanthemum. We obtained 300 putative transformants (115 with 35S/gus and 185 with Cab/gus). GUS assay of the leaves of the in vitro plants revealed that 9.6 % (11/115) of the putative plants to which 35S/gus had been introduced and 24.3 % (45/185) of the putative plants to which Cab/gus had been introduced were GUS-positive. Southern blot analysis showed that even the GUS-negative plants harbored the gus gene in their genomes. The Cab promoter expressed the transgene more efficiently than the 35S promoter and could be used for transgene expression in chrysanthemum leaf tissues.
Evaluation of the Safety and Immunogenicity of the RTS,S/AS01EMalaria Candidate Vaccine When Integrated in the Expanded Program of Immunization (2010)

RTS,S/AS01(E) integrated in the EPI showed a favorable safety and immunogenicity evaluation. Trial registration. ClinicalTrials.gov identifier: NCT00436007 . GlaxoSmithKline study ID number: 106369 (Malaria-050).
A Comparison of Aspirin with Placebo in Patients Treated with Warfarin after Heart-Valve Replacement (1993)

In patients with mechanical heart valves and high-risk patients with prosthetic tissue valves, the addition of aspirin to warfarin therapy reduced mortality, particularly mortality from vascular causes, together with major systemic embolism. Although there was some increase in bleeding, the risk of the combined treatment was more than offset by the considerable benefit.
Minimal peptide length requirements for CD4+ T cell clones—implications for molecular mimicry and T cell survival (2000)

CD4(+) T lymphocytes usually recognize peptides of 12-16 amino acids in the context of HLA class II molecules. We have recently used synthetic peptide combinatorial libraries to dissect in detail antigen recognition by autoreactive CD4(+) T cell clones (TCC). The results of these studies demonstrated that antigen recognition by T cells is highly degenerate and that many cross-reactive ligands can be defined, some of which much more potent than the selecting autoantigen. Based on these observations, we examined the response of a myelin basic protein-specific HLA class II-restricted CD4(+) TCC to truncation variants of optimal ligands. Surprisingly, pentapeptides, tetrapeptides and even tripeptides derived from different segments of the optimal ligands were recognized by the TCC, and some were even more potent than the selecting autoantigen. In addition, these peptides enhanced the survival of the TCC at low concentration. The relevance of this finding was supported by the generation of pentapeptide-specific CD4(+) TCC from peripheral blood lymphocytes. These observations not only change existing views on the length requirements for activation of CD4(+) HLA class II-restricted T cells, but also extend our knowledge about the flexibility of TCR recognition and the potential for cross-reactivity in the immune system.
Identification of mesophilic lactic acid bacteria by using polymerase chain reaction-amplified variable regions of 16S rRNA and specific DNA probes (1991)

Specific DNA probes based on variable regions V1 and V3 of 16S rRNA of lactic acid bacteria were designed. These probes were used in hybridization experiments with variable regions amplified by using the polymerase chain reaction. In this way, a rapid and sensitive method was developed for the identification and classification of Lactococcus and Leuconostoc species.
Purification and ATPase Activity of Human ABCA1 (2006)

ATP-binding cassette protein A1 (ABCA1) plays a major role in cholesterol homeostasis and high density lipoprotein metabolism. Apolipoprotein A-I binds to ABCA1 and cellular cholesterol and phospholipids, mainly phosphatidylcholine, are loaded onto apoA-I to form pre-beta high density lipoprotein (HDL). It is proposed that ABCA1 translocates phospholipids and cholesterol directly or indirectly to form pre-beta HDL. To explore the mechanism of ABCA1-mediated pre-beta HDL formation, we expressed human ABCA1 in insect Sf9 cells and purified it. Trypsin limited-digestion of purified ABCA1 in the detergent-soluble form suggested that it retained conformation similar to ABCA1 expressed in the membranes of human fibroblast WI-38 cells. Purified ABCA1 showed robust ATPase activity when reconstituted in liposomes made of synthetic phosphatidylcholine. ABCA1 showed lower ATPase activity when reconstituted in liposomes containing phosphatidylserine, phosphatidylethanolamine, or phosphatidylglycerol and also showed weak specificity in acyl chain species. ATPase activity was reduced by the addition of cholesterol and decreased by 25% in the presence of 20% cholesterol. Beta-sitosterol and campesterol showed similar inhibitory effects but stigmasterol did not, suggesting structure-specific interaction between ABCA1 and sterols. Glibenclamide suppressed ABCA1 ATPase, suggesting that it inhibits apoA-I-dependent cellular cholesterol efflux by suppressing ABCA1 ATPase activity. These results suggest that the ATPase activity of ABCA1 is stimulated preferentially by phospholipids with choline head groups, phosphatidylcholine and sphingomyelin. This study with purified human ABCA1 provides the first biochemical basis of the mechanism for HDL formation mediated by ABCA1.
Knowledge Representation Issues in Semantic Graphs for Relationship Detection (2005)

An important task for Homeland Security is the prediction of threat vulnerabilities, such as through the detection of relationships between seemingly disjoint entities. A structure used for this task is a "semantic graph", also known as a "relational data graph" or an "attributed relational graph". These graphs encode relationships as "typed" links between a pair of "typed" nodes. Indeed, semantic graphs are very similar to semantic networks used in AI. The node and link types are related through an ontology graph (also known as a schema). Furthermore, each node has a set of attributes associated with it (e.g., "age" may be an attribute of a node of type "person"). Unfortunately, the selection of types and attributes for both nodes and links depends on human expertise and is somewhat subjective and even arbitrary. This subjectiveness introduces biases into any algorithm that operates on semantic graphs. Here, we raise some knowledge representation issues for semantic graphs and provide some possible solutions using recently developed ideas in the field of complex networks. In particular, we use the concept of transitivity to evaluate the relevance of individual links in the semantic graph for detecting relationships. We also propose new statistical measures for semantic graphs and illustrate these semantic measures on graphs constructed from movies and terrorism data.
3-Dimensional Building Details from Aerial Photography for Internet Maps (2011)

This paper introduces the automated characterization of real estate (real property) for Internet mapping. It proposes a processing framework to achieve this task from vertical aerial photography and associated property information. A demonstration of the feasibility of an automated solution builds on test data from the Austrian City of Graz. Information is extracted from vertical aerial photography and various data products derived from that photography in the form of a true orthophoto, a dense digital surface model and digital terrain model, and a classification of land cover. Maps of cadastral property boundaries aid in defining real properties. Our goal is to develop a table for each property with descriptive numbers about the buildings, their dimensions, number of floors, number of windows, roof shapes, impervious surfaces, garages, sheds, vegetation, presence of a basement floor, and other descriptors of interest for each and every property of a city. From aerial sources, at a pixel size of 10 cm, we show that we have obtained positional accuracies in the range of a single pixel, an accuracy of areas in the 10% range, floor counts at an accuracy of 93% and window counts at 86% accuracy. We also introduce 3D point clouds of facades and their creation from vertical aerial photography, and how these point clouds can support the definition of complex facades.
Inhibition of NF-κB Reduces Renal Inflammation and Expression of PEPCK in Type 2 Diabetic Mice (2018)

Renal gluconeogenesis is markedly promoted in patients with type 2 diabetes mellitus (T2DM); however, the underlying mechanism remains largely unknown. Renal gluconeogenesis is found to be negatively regulated by insulin. T2DM is characterized by chronic and subacute inflammation; however, inflammation has been well recognized to induce insulin resistance. Therefore, this study aimed to investigate whether the enhanced renal gluconeogenesis in T2DM was partially due to the renal inflammation-mediated insulin resistance. If so, whether inflammation inhibitor could partially reverse such change. Diabetic db/db mice and db/m mice were used in our study. Typically, diabetic db/db mice were intraperitoneally treated with 1 mg/kg NF-κB inhibitor parthenolide (PTN) or saline as control every other day. Twelve weeks after treatment, animal samples were collected for measurements. Our results suggested that the expression levels of the inflammatory factors and the gluconeogenic rate-limiting enzyme phosphoenolpyruvate carboxykinase (PEPCK) were up-regulated in renal cortex of both db/db mice and T2DM patients. Moreover, reduced insulin signaling, as well as up-regulated expression of downstream genes FOXO1 and PGC-1ɑ, could be detected in renal cortex of db/db mice compared with that of db/m mice. Consistent with our hypothesis, PTN treatment could alleviate renal inflammation and insulin resistance in db/db mice. Moreover, it could also down-regulate the renal expression of PEPCK, indicating that inflammation could be one of the triggers of insulin resistance and the enhanced renal gluconeogenesis in db/db mice. This study can shed light on the role of inflammation in the enhanced renal gluconeogenesis in T2DM, which may yield a novel target for hyperglycemia.
KCNQ/M Currents in Sensory Neurons: Significance for Pain Therapy (2003)

Neuronal hyperexcitability is a feature of epilepsy and both inflammatory and neuropathic pain. M currents [IK(M)] play a key role in regulating neuronal excitability, and mutations in neuronal KCNQ2/3 subunits, the molecular correlates of IK(M), have previously been linked to benign familial neonatal epilepsy. Here, we demonstrate that KCNQ/M channels are also present in nociceptive sensory systems. IK(M) was identified, on the basis of biophysical and pharmacological properties, in cultured neurons isolated from dorsal root ganglia (DRGs) from 17-d-old rats. Currents were inhibited by the M-channel blockers linopirdine (IC50, 2.1 microm) and XE991 (IC50, 0.26 microm) and enhanced by retigabine (10 microm). The expression of neuronal KCNQ subunits in DRG neurons was confirmed using reverse transcription-PCR and single-cell PCR analysis and by immunofluorescence. Retigabine, applied to the dorsal spinal cord, inhibited C and Adelta fiber-mediated responses of dorsal horn neurons evoked by natural or electrical afferent stimulation and the progressive "windup" discharge with repetitive stimulation in normal rats and in rats subjected to spinal nerve ligation. Retigabine also inhibited responses to intrapaw application of carrageenan in a rat model of chronic pain; this was reversed by XE991. It is suggested that IK(M) plays a key role in controlling the excitability of nociceptors and may represent a novel analgesic target.
Both purified human 1,N6-ethenoadenine-binding protein and purified human 3-methyladenine-DNA glycosylase act on 1,N6-ethenoadenine and 3-methyladenine. (1992)

We previously described a protein, isolated from human tissues and cells, that bound to a defined double-stranded oligonucleotide containing a single site-specifically placed 1,N6-ethenoadenine. It was further demonstrated that this protein was a glycosylase and released 1,N6-ethenoadenine. We now find that this enzyme also releases 3-methyladenine from methylated DNA and that 3-methyladenine-DNA glycosylase behaves in the same manner, binding to the ethenoadenine-containing oligonucleotide and cleaving both ethenoadenine and 3-methyladenine from DNA containing these adducts. The rate and extent of glycosylase activities toward the two adducts are similar.
Noninvasive Detection of Clinically Occult Lymph-Node Metastases in Prostate Cancer (2003)

High-resolution MRI with magnetic nanoparticles allows the detection of small and otherwise undetectable lymph-node metastases in patients with prostate cancer.