gebhart/patrepeval huggingface dataset:
Design and synthesis of flavin-conjugated peptides and assembly on a gold electrode (1996)

Flavin-conjugated peptides composed of one or two amphiphilic α-helix segments have been designed and synthesized. 7-Acetyl-10-methylisoalloxazine (Fla) as a model flavin has been introduced on the side chain of Cys at the 6th, 7th or 8th position of each α-helical 14-peptide. A CD study in aqueous solution revealed that the position of Fla on the peptide strongly influenced the peptide secondary structure. Additionally, CD spectra indicated that the Fla in the peptides was oriented in a different manner depending on the position when the peptide took on the α-helix structure. Furthermore, the flavinconjugated peptides have been adsorbed on a gold surface through the sulfide linkage, as a basic study for peptidyl devices in the future. By the use of Fla as an electrochemical probe, we examined properties of the peptide assembled on the gold electrode. The cyclic voltammetry measurements revealed that the functional group, Fla, was redox-active on the electrode and the peptide bound on the surface in a monolayer. Moreover, the flavin-conjugated peptide could mediate the electron transfer from the electrode to Fe(CN)63– ion or cytochrome c in a vector manner. The redox-active probe, Fla, has been demonstrated to provide significant information about the assembly and function of the α-helix peptides on the gold electrode surface by electrochemical measurements.
Structural basis for CD1d presentation of a sulfatide derived from myelin and its implications for autoimmunity (2005)

Sulfatide derived from the myelin stimulates a distinct population of CD1d-restricted natural killer T (NKT) cells. Cis-tetracosenoyl sulfatide is one of the immunodominant species in myelin as identified by proliferation, cytokine secretion, and CD1d tetramer staining. The crystal structure of mouse CD1d in complex with cis-tetracosenoyl sulfatide at 1.9 A resolution reveals that the longer cis-tetracosenoyl fatty acid chain fully occupies the A' pocket of the CD1d binding groove, whereas the sphingosine chain fills up the F' pocket. A precise hydrogen bond network in the center of the binding groove orients and positions the ceramide backbone for insertion of the lipid tails in their respective pockets. The 3'-sulfated galactose headgroup is highly exposed for presentation to the T cell receptor and projects up and away from the binding pocket due to its beta linkage, compared with the more intimate binding of the alpha-glactosyl ceramide headgroup to CD1d. These structure and binding data on sulfatide presentation by CD1d have important implications for the design of therapeutics that target T cells reactive for myelin glycolipids in autoimmune diseases of the central nervous system.
Silicon direct bonding technologyemploying a regularly grooved surface (1995)

An intimate contact between two silicon wafers with mirror-polished smooth surfaces, one grooved and another smooth, was perfomed by direct bonding technology. High structural quality was realised not only at the bonded interface but in the bulk. It was demonstrated that the artificial grooves were filled commensurate with dislocation gettering. The filling would be explained with mass-transport phenomena assisted by dislocation movement from initial contact boundaries toward groove surfaces. The suggested method also yielded an intimate bonding not only between {111} wafers strongly misorientod and slightly inclined to {111} basal planes but even between {111} and {100} orientation wafers.
Superior antigen cross-presentation and XCR1 expression define human CD11c+CD141+ cells as homologues of mouse CD8+ dendritic cells (2010)

In recent years, human dendritic cells (DCs) could be subdivided into CD304+ plasmacytoid DCs (pDCs) and conventional DCs (cDCs), the latter encompassing the CD1c+, CD16+, and CD141+ DC subsets. To date, the low frequency of these DCs in human blood has essentially prevented functional studies defining their specific contribution to antigen presentation. We have established a protocol for an effective isolation of pDC and cDC subsets to high purity. Using this approach, we show that CD141+ DCs are the only cells in human blood that express the chemokine receptor XCR1 and respond to the specific ligand XCL1 by Ca2+ mobilization and potent chemotaxis. More importantly, we demonstrate that CD141+ DCs excel in cross-presentation of soluble or cell-associated antigen to CD8+ T cells when directly compared with CD1c+ DCs, CD16+ DCs, and pDCs from the same donors. Both in their functional XCR1 expression and their effective processing and presentation of exogenous antigen in the context of major histocompatibility complex class I, human CD141+ DCs correspond to mouse CD8+ DCs, a subset known for superior antigen cross-presentation in vivo. These data define CD141+ DCs as professional antigen cross-presenting DCs in the human.
Equine Diagnostic Ultrasonography (1998)

Principles examination procedures and normal anatomy reproductive ultrasonography - the mare reproductive ultrasonography - the stallion musculoskeletal ultrasonography cardiovascular ultrasonography respiratory system ultrasonography abdominal ultrasonography neonatal ultrasonography miscellanous applications appendix of ultrasound equipment manufacturers.
Apoptosis (1999)

Apoptosis is an active form of cell death that is intricately regulated and distinct from necrosis. Data suggest that apoptosis may play a role in the pathophysiology of coronary atherosclerotic disease. Anatomic evidence of apoptosis has been observed in coronary atherosclerosis, restenosis, and transplant arteriopathy, accompanied by an increase in biochemical and genetic markers of apoptosis. Vasoactive substances such as nitric oxide and angiotensin II also regulate vascular smooth muscle cell apoptosis; vasodilating factors may induce apoptosis, whereas vasoconstricting factors may inhibit apoptosis. The aim of this article is to review key points regarding the detection of apoptosis, its regulation, and its possible role in the pathogenesis of coronary artery disease.
Comparison of methods for evaluating drug-drug interaction (2010)

The goal of the present report is to compare several published methods of analyzing drug-drug interaction data. The compared methods are the curve-shift analysis, isobologram, combination index, and universal surface response analysis, and the comparison was based on analysis of published cytotoxicity data of combinations of two anti-folate agents. Major findings are as follows. The curve shift analysis enabled the inspection of the experimental data and visual evaluation of the approximate parallelism between the dose response curves. Isobologram analysis provided the range of concentration ratios where maximal synergy was obtained. The combination index analysis readily provided quantitative estimation of the extent of synergy or antagonism. The universal surface response method summarized drug-drug interaction in a single parameter, facilitating comparison of larger arrays of combinations. Only the curve shift analysis and the universal surface response method yielded a statistical estimate of differentiation between synergy, additivity, and antagonism. In summary, curve shift analysis, isobolograms, combination index analysis, and the universal response surface method are useful methods for analyzing drug-drug interaction, and provide complementary information.
Macrophage Activation Syndrome in Patients with Systemic Juvenile Idiopathic Arthritis under Treatment with Tocilizumab (2015)

These results suggest that the clinical/laboratory features in the course of MAS appear to be similar among patients regardless of whether TCZ is administered. Similarities in the pathophysiological background of MAS and EB-VAHS were also suggested.
Moderate Alcohol Consumption Lowers the Risk of Type 2 Diabetes (2005)

The present evidence from observational studies suggests an approximately 30% reduced risk of type 2 diabetes in moderate alcohol consumers, whereas no risk reduction is observed in consumers of >/=48 g/day.
Antiinflammatory peptides (antiflammins) inhibit synthesis of platelet-activating factor, neutrophil aggregation and chemotaxis, and intradermal inflammatory reactions. (1990)

Synthetic peptides corresponding to the region of highest similarity between human lipocortin I and rabbit uteroglobin inhibit phospholipase A2 and show potent antiinflammatory activity on the carrageenan-induced rat footpad edema. The peptide HDMNKVLDL (antiflammin-2) inhibits the synthesis of platelet-activating factor (PAF) induced by TNF or phagocytosis in rat macrophages and human neutrophils, and by thrombin in vascular endothelial cells. The peptide MQMKKVLDS (antiflammin-1) is less inhibitory than antiflammin-2 for macrophages and not inhibitory for neutrophils after a 5-min preincubation. This finding suggests that antiflammin-1 is inactivated by neutrophils secretory products, possibly oxidizing agents. Synthesis of PAF is inhibited by antiflammin-2 without an appreciable lag, but this inhibition is reversed when neutrophils or macrophages are washed and incubated in fresh medium. Therefore, antiflammins must be continuously present to inhibit PAF synthesis. Antiflammins block activation of the acetyltransferase required for PAF synthesis, suggesting that this enzyme is another target for the inhibitory activity of antiflammins. These peptides inhibit neutrophil aggregation and chemotaxis induced by complement component C5a. Antiflammin-2 suppresses the increase in vascular permeability and the leukocyte infiltration induced in rats by an Arthus reaction or by intradermal injection of rTNF and C5a.
Improving Sentiment Analysis with Document-Level Semantic Relationships from Rhetoric Discourse Structures (2017)

Conventional sentiment analysis usually neglects semantic information between (sub-)clauses, as it merely implements so-called bag-of-words approaches, where the sentiment of individual words is aggregated independently of the document structure. Instead, we advance sentiment analysis by the use of rhetoric structure theory (RST), which provides a hierarchical representation of texts at document level. For this purpose, texts are split into elementary discourse units (EDU). These EDUs span a hierarchical structure in the form of a binary tree, where the branches are labeled according to their semantic discourse. Accordingly, this paper proposes a novel combination of weighting and grid search to aggregate sentiment scores from the RST tree, as well as feature engineering for machine learning. We apply our algorithms to the especially hard task of predicting stock returns subsequent to financial disclosures. As a result, machine learning improves the balanced accuracy by 8.6 percent compared to the baseline.
One-dimensional organic lead halide perovskites with efficient bluish white-light emission (2017)

Organic-inorganic hybrid metal halide perovskites, an emerging class of solution processable photoactive materials, welcome a new member with a one-dimensional structure. Herein we report the synthesis, crystal structure and photophysical properties of one-dimensional organic lead bromide perovskites, C<sub>4</sub>N<sub>2</sub>H<sub>14</sub>PbBr<sub>4</sub>, in which the edge sharing octahedral lead bromide chains [PbBr<sub>4</sub> <sup>2-</sup>]<sub>∞</sub> are surrounded by the organic cations C<sub>4</sub>N<sub>2</sub>H<sub>14</sub> <sup>2+</sup> to form the bulk assembly of core-shell quantum wires. This unique one-dimensional structure enables strong quantum confinement with the formation of self-trapped excited states that give efficient bluish white-light emissions with photoluminescence quantum efficiencies of approximately 20% for the bulk single crystals and 12% for the microscale crystals. This work verifies once again that one-dimensional systems are favourable for exciton self-trapping to produce highly efficient below-gap broadband luminescence, and opens up a new route towards superior light emitters based on bulk quantum materials.
Expression of cyclic GMP‐inhibited phosphodiesterases 3A and 3B (PDE3A and PDE3B) in rat tissues: Differential subcellular localization and regulated expression by cyclic AMP (1998)

A combination of pharmacological, molecular biological and biochemical approaches were used to investigate the differential expression of two cyclic GMP-inhibited cyclic nucleotide phosphodiesterase genes (PDE3A and PDE3B) in the rat. RT PCR using PDE3A- or PDE3B-specific oligonucleotide primers allowed amplification of products encoding PDE3A (508 bp) or PDE3B (499 bp) sequences from several rat tissues (heart, aorta, liver, kidney and epididymal fat), from primary cultures of aortic vascular smooth muscle cells (VSMC) as well as from an SV40 large T-antigen immortalized aortic VSMC line. Immunoblotting experiments with PDE3-selective antisera allowed the detection of both PDE3A and PDE3B immunoreactive proteins in several rat tissues, including tissues of the cardiovascular system, in primary cultures of aortic VSMC and in an SV40 large T-antigen immortalized aortic VSMC line. In all cases, PDE3A was expressed as a 120 kDa protein which was only detected in the cytosolic fraction. PDE3B was expressed as a 135 kDa protein and its expression was limited to the particulate fraction of all tissues and cells studied. Prolonged incubation of cultured aortic VSMC with agents that increase VSMC cyclic AMP (forskolin or 8-bromo-cyclic AMP) produced marked time-dependent increases in PDE3 activity which correlated with increases in PDE3A and PDE3B RT PCR signals and a marked increase in particulate PDE3 activity and PDE3B protein. The physiological, pharmacological and biochemical implications of these findings are discussed based on previous reports of the effects of PDE3 inhibitors in the cardiovascular system and the relevance of our findings are presented in the context of the development of PDE3A and/or PDE3B-selective pharmacological agents.
Carbohydrate Arrays as Tools for Glycomics (2002)

Rapid identification of carbohydrate-binding events that leads to a better understanding of signaling processes is being achieved through the development of carbohydrate microarrays. In the example shown, array carbohydrates are first immobilized on a pretreated surface and then interrogated with fluorescently labeled carbohydrate-binding proteins; the binding event can then be observed by fluorescence spectroscopy.
ABC of arterial and venous disease: Acute limb ischaemia (2000)

Objectives To identify the type and extent of weapons being carried among young people in Scotland, and to determine the relation between use of illegal drugs and weapon carrying. Design Questionnaire school survey. Setting Independent schools in central Scotland and schools in Lanarkshire and Perth and Kinross. Participants 3121 students aged 11 to 16 in 20 schools. Main outcome measures Self completion questionnaire reporting history of drug use and weapon carrying. Results Overall, 34.1% of males and 8.6% of females reported having carried a weapon (P < 0.0001), ranging from 29.2% of boys aged 11-13 (classes S1 to S2) to 39.3% of boys aged 13-15 (S3 to S4). These values are higher than those in a recent survey of young people in England. Weapon carrying in Lanarkshire was 70% higher for males than in the rural area of Perth and Kinross. Both males and females who had taken drugs were more likely to carry weapons (63.5% of male drug users versus 20.5% of non-users and 22.8% of female drug users versus 3.7% of non-users; both P < 0.0001). The proportions of males carrying weapons who used none, one, two, three or four, or five or more illegal drugs were 21%, 52%, 68%, 74%, and 92% respectively. A similar trend was found among females. Conclusions Better information is needed on the nature and extent of weapon carrying by young people in the United Kingdom, and better educational campaigns are needed warning of the dangers of carrying weapons.
COLLAGEN SCAFFOLDS POPULATED WITH HUMAN MARROW STROMAL CELLS REDUCE LESION VOLUME AND IMPROVE FUNCTIONAL OUTCOME AFTER TRAUMATIC BRAIN INJURY (2007)

The data show that scaffolds populated by hMSCs improve spatial learning and sensorimotor function, reduce the lesion volume, and foster the migration of hMSCs into the lesion boundary zone after TBI in rats. hMSC-populated scaffolds may be a new way to reconstruct the injured brain and improve neurological function after TBI.
Response of tumour cells to hypoxia: role of p53 and NFkB. (1998)

Hypoxia is present in several areas of malignant tumours and is thought to result from an inadequate rate of tumour angiogenesis, vascular collapse, or both. The presence and extent of these hypoxic tumour microenvironments have recently been shown to influence tumour progression by regulating both tumour cell survival and the expression of key angiogenic molecules. Recent studies have suggested that mutations in the tumour suppressor gene, p53, may play an important role in regulating the adaptive response of tumour cells to hypoxia by enhancing their survival and release of proangiogenic factors such as vascular endothelial growth factor. It has even been suggested that hypoxia may select for the survival of the more malignant clones harbouring such genetic defects as mutations in p53. Recently, the transcription factor, NFkB, has also been implicated as a novel mediator of the effects of hypoxia and reoxygenation in tumour cells. This article reviews some of the molecular mechanisms subserving the responses of tumour cells to hypoxic stress, particularly the role and relation of NFkB and p53 in regulating this phenomenon.
The synthesis of inhibitors for processing proteinases and their action on the Kex2 proteinase of yeast (1993)

Peptidyl chloromethane and sulphonium salts containing multiple Arg and Lys residues were synthesized as potential inhibitors of prohormone and pro-protein processing proteinases. The potencies of these compounds were assayed by measuring the kinetics of inactivation of the yeast Kex2 proteinase, the prototype of a growing family of eukaryotic precursor processing proteinases. The most potent inhibitor, Pro-Nvl-Tyr-Lys-Arg-chloromethane, was based on cleavage sites in the natural Kex2 substrate pro-alpha-factor. This inhibitor exhibited a Ki of 3.7 nM and a second-order inactivation rate constant (k2/Ki) of 1.3 x 10(7) M-1.s-1 comparable with the value of kcat./Km obtained with Kex2 for the corresponding peptidyl methylcoumarinylamide substrate. The enzyme exhibited sensitivity to the other peptidyl chloromethanes over a range of concentrations, depending on peptide sequence and alpha-amino decanoylation, but was completely resistant to peptidyl sulphonium salts. Kinetics of inactivation by these new inhibitors of a set of 'control' proteinases, including members of both the trypsin and subtilisin families, underscored the apparent specificity of the compounds most active against Kex2 proteinase.
Yeast as a Model Organism (1997)

Yeast have many genes with homologs in humans. Has our understanding of these genes helped our understanding of human biology or disease? In his Perspective, Botstein argues yes and, as an example, discusses a report in this week9s issue by
 Sinclair
 et al.
 on the yeast homolog of the gene whose dysfunction causes a disease of premature aging, Werner syndrome.
Cloning, DNA sequencing, and expression of the gene encoding Clostridium thermocellum cellulase CelJ, the largest catalytic component of the cellulosome (1996)

The Clostridium thermocellum F1 celJ gene, encoding endoglucanase J (CelJ), consists of an open reading frame (ORF) of 4,803 nucleotides and encodes a protein of 1,601 amino acids with a molecular weight of 178,055. The ORF was confirmed as celJ by comparison with the N-terminal sequence of a truncated CelJ derivative. CelJ is a modular enzyme composed of N-terminal signal peptide and six domains in the following order: an S-layer homology domain, a domain of unknown function (UD-1), a subfamily E1 endoglucanase domain, a family J endoglucanase domain, a docking domain, and another domain of unknown function (UD-2). UD-1 has no significant similarity to UD-2. CelJ hydrolyzed carboxymethylcellulose and xylan, and xylanase activity was ascribed to the family J domain. Antiserum raised against the truncated CelJ cross-reacted with proteins contained in the cellulosome of C. thermocellum F1. These results strongly suggest that CelJ is equivalent to S2, which was identified as the largest catalytic component in the cellulosome of C. thermocellum YS. A second but incomplete ORF encoding an enzyme classified in subfamily E2 endoglucanase, was located downstream of celJ.
Sulfonylureas Improve Outcome in Patients With Type 2 Diabetes and Acute Ischemic Stroke (2007)

Sulfonylureas may be beneficial for patients with diabetes mellitus with acute ischemic stroke. Further investigation of similar cohorts and a prospective randomized trial are recommended to confirm the present observations.
Severe Acquired Immunodeficiency in Male Homosexuals, Manifested by Chronic Perianal Ulcerative Herpes Simplex Lesions (1981)

Four homosexual men presented with gradually enlarging perianal ulcers, from which herpes simplex virus was cultured. Each patient had a prolonged course characterized by eight loss, fever, and evidence of infection by other opportunistic microorganisms including cytomegalovirus, Pneumocystis carinii, and Candida albicans. Three patients died; Kaposi's sarcoma developed in the fourth. All were found to have depressed cell-mediated immunity, as evidenced by skin anergy, lymphopenia, and poor or absent responses to plant lectins and antigens in vitro. Natural-killer-cell activity directed against target cells infected with herpes simplex virus was depressed in all patients. The absence of a history of recurrent infections or of histologic evidence of lymphoproliferative or other neoplastic diseases suggests that the immune defects were acquired.
Dissection of the early steps in the porphobilinogen synthase catalyzed reaction. Requirements for Schiff's base formation. (1986)

The porphobilinogen (PBG) synthase catalyzed reaction requires both Zn(II) and reducing equivalents for the production of PBG from two molecules of 5-aminolevulinic acid (ALA). An early step in the reaction is the production of a Schiff's base between PBG synthase and one ALA molecule. Because both substrate molecules are chemically identical, there had been no evidence of enzyme-catalyzed partial reactions of ALA under conditions where PBG is not formed. In this study, NaBH4 was used to trap the Schiff's base formed between substrate ALA and active holo-PBG synthase, inactive apo-PBG synthase, and inactive methylmethanethiosulfonate-modified apo-PBG synthase. ALA-dependent NaBH4 inactivation of these enzyme forms was quantified at 50-62, 94-97, and 93-96% inactivation, respectively. [4-14C]ALA was used to determine the stoichiometry of Schiff's base trapping which was 2.3, 3.5-4.0, and 3.4 per octamer for holoenzyme, apoenzyme, and methylmethanethiosulfonate-modified apoenzyme, respectively. These results are consistent with four active sites per octamer or half-of-the-sites reactivity. We conclude that the production of the Schiff's base formed between one ALA molecule and the enzyme requires neither Zn(II) nor reduced enzyme sulfhydryl groups. Furthermore, the possible number of kinetic schemes for formation of the quaternary complex of enzyme, Zn(II), and two ALA moieties, one as the Schiff's base, has been reduced from 12 to 3. This is the first demonstration of a partial reaction catalyzed by PBG synthase with the natural substrate ALA under conditions which do not support PBG formation. Thus, we have opened the way toward investigating the partial reactions which may precede Zn(II) participation in the PBG synthase reaction.