gebhart/patrepeval huggingface dataset:
Human Islet Oxygen Consumption Rate and DNA Measurements Predict Diabetes Reversal in Nude Mice (2007)

There is a need for simple, quantitative and prospective assays for islet quality assessment that are predictive of islet transplantation outcome. The current state-of-the-art athymic nude mouse bioassay is costly, technically challenging and retrospective. In this study, we report on the ability of 2 parameters characterizing human islet quality: (1) oxygen consumption rate (OCR), a measure of viable volume; and (2) OCR/DNA, a measure of fractional viability, to predict diabetes reversal in nude mice. Results demonstrate that the probability for diabetes reversal increases as the graft's OCR/DNA and total OCR increase. For a given transplanted OCR dose, diabetes reversal is strongly dependent on OCR/DNA. The OCR and OCR/DNA (the 'OCR test') data exhibit 89% sensitivity and 77% specificity in predicting diabetes reversal in nude mice (n = 86). We conclude that the prospective OCR test can effectively replace the retrospective athymic nude mouse bioassay in assessing human islet quality prior to islet transplantation.
Assessment of Arterial Stiffness, A Translational Medicine Biomarker System for Evaluation of Vascular Risk (2008)

Assessment of arterial stiffness is a sensitive and useful biomarker of cardiovascular risk because of its underlying pathophysiological mechanisms. PWV is an emerging biomarker useful for reflecting risk stratification of patients and for assessing pharmacodynamic effects and efficacy in clinical studies.
X-ray Irradiated Vaccine Confers protection against Pneumonia caused by Pseudomonas Aeruginosa (2016)

Pseudomonas aeruginosa is a gram-negative bacterium and one of the leading causes of nosocomial infection worldwide, however, no effective vaccine is currently available in the market. Here, we demonstrate that inactivation of the bacteria by X-ray irradiation inhibits its replication capability but retained antigenic expression functionally thus allowing its use as a potential vaccine. Mice immunized by this vaccine were challenged by the parental strain, the O-antigen-homologous strain PAO-1 (O2/O5) and heterologous strain PAO-6 (O6) in an acute pneumonia model. We further measured the protective effect of the vaccine, as well as host innate and cellular immunity responses. We found immunized mice could protect against both strains. Notably, the antiserum only had significant protective role against similar bacteria, while adoptive transfer of lymphocytes significantly controlled the spread of the virulent heterologous serogroup PAO-6 infection, and the protective role could be reversed by CD4 rather than CD8 antibody. We further revealed that vaccinated mice could rapidly recruit neutrophils to the airways early after intranasal challenge by PAO-6, and the irradiated vaccine was proved to be protective by the generated CD4(+) IL-17(+) Th17 cells. In conclusion, the generation of inactivated but metabolically active microbes is a promising strategy for safely vaccinating against Pseudomonas aeruginosa.
Privacy Protected Surveillance Using Secure Visual Object Coding (2008)

<para xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"> This paper presents the Secure Shape and Texture SPIHT (SecST-SPIHT) scheme for secure coding of arbitrarily shaped visual objects. The scheme can be employed in a privacy protected surveillance system, whereby visual objects are encrypted so that the content is only available to authorized personnel with the correct decryption key. The secure visual object coder employs shape and texture set partitioning in hierarchical trees (ST-SPIHT) along with a novel selective encryption scheme for efficient, secure storage and transmission of visual object shape and textures. The encryption is performed in the compressed domain and does not affect the rate-distortion performance of the coder. A separate parameter for each encrypted object controls the strength of the encryption versus required processing overhead. Security analyses are provided, demonstrating the confidentiality of both the encrypted and unencrypted portions of the secured output bit-stream, effectively securing the entire object shape and texture content. Experimental results showed that no object details are revealed to attackers who do not possess the correct decryption key. Using typical parameter values and output bit-rates, the SecST-SPIHT coder is shown to require encryption on less than 5% of the output bit-stream, a significant reduction in computational overhead compared to “whole content” encryption schemes. </para>
Novel fucolipids accumulating in human adenocarcinoma. III. A hybridoma antibody (FH6) defining a human cancer-associated difucoganglioside (VI3NeuAcV3III3Fuc2nLc6). (1984)

A new fucoganglioside, 6B, which accumulates in human colonic adenocarcinoma but is absent in normal colonic mucosa, was isolated from a monosialoganglioside fraction of colonic adenocarcinomas. The structure of this ganglioside was identified as shown below by methylation analysis, direct probe mass spectrometry, and enzymatic degradation followed by examination of the degradation products with specific monoclonal antibodies. (formula; see text) The hybridoma (FH6) secreting a monoclonal IgM antibody directed to this glycolipid was selected by reactivity of the antibody with this ganglioside and lack of reactivity with other glycolipids having a closely related structure, such as sialosyllactoneotetraosylceramide (IV3NeuAcnLc4), sialosyllactofucopentaosy(III)ceramide (IV3NeuAcIII3FucnLc4), sialosyllactofucopentaosy(II)ceramide (sialosyl-Lea glycolipid; IV3NeuAcIII4FucLc4), and 6C fucoganglioside (sialosyl 2 leads to 6 fucoganglioside; VI6NeuAcIII3FucnLc6). The antibody was highly reactive with a large variety of human cancer cells, but was less reactive or did not react with a variety of normal cells.
Role of Orthotopic Fibroblasts in the Development of Scirrhous Gastric Carcinoma (1994)

We examined the interaction between scirrhous gastric cancer cells and organ-specific fibroblasts in vivo and in vitro. Co-inoculation of scirrhous gastric cancer cells with gastric fibroblasts into nude mice specifically increased tumorigenicity, compared with that of gastric cancer cells alone. Furthermore, the histologic findings of the xenograft produced by co-inoculation with gastric fibroblasts was similar to that of human scirrhous gastric carcinoma. Conditioned medium from gastric fibroblasts significantly stimulated the growth of gastric cancer cells. These findings suggest that the growth of scirrhous gastric cancer cells was affected by orthotopic fibroblasts.
Chunking with support vector machines (2001)

We apply Support Vector Machines (SVMs) to identify English base phrases (chunks). SVMs are known to achieve high generalization performance even with input data of high dimensional feature spaces. Furthermore, by the Kernel principle, SVMs can carry out training with smaller computational overhead independent of their dimensionality. We apply weighted voting of 8 SVMsbased systems trained with distinct chunk representations. Experimental results show that our approach achieves higher accuracy than previous approaches.
The mechanism of intestinal uptake and transcellular transport of IgG in the neonatal rat (1972)

The transport of immunoglobulins across the intestinal mucosa of neonatal rats provides an excellent model for the study of transcellular protein transport. The mechanism of intestinal uptake and transcellular transport of plasma proteins has been studied in 12-14-day old rats using intraduodenally administered radioiodinated proteins. Appreciable quantities of rat IgG, mouse IgG, rabbit IgG, and all four subclasses of human IgG were taken up by the intestinal wall (19-54% of administered dose at 4 hr) and transported to the animal (10-35% of administered dose at 4 hr). In contrast there was little or no uptake of human IgM, IgA, and IgE and little or no transport of human IgM, IgA, IgD, IgE, albumin, transferrin, and ceruloplasmin. Both the uptake and transport of labeled IgG were significantly inhibited by unlabeled IgG. Further insight into the transport process was obtained from the observation that an appreciable proportion of the label of IgG in intestinal wall homogenates, but not in plasma or intestinal washings, migrated in a sucrose ultracentrifugation gradient much more rapidly than did the administered 7S molecules. This pattern was not observed with other proteins studied. This apparent binding of labeled IgG was also markedly inhibited by unlabeled IgG. In subcellular fractionation studies of intestinal homogenates the complexed labeled IgG was shown to be associated predominantly with cell membrane rather than cell sap fractions. In addition IgG could be shown to bind to purified enterocyte microvillous membranes in vitro. IT IS CONCLUDED THAT IN THE NEONATAL RAT: (a) the major processes involved in both intestinal uptake and transport of IgG are specific and saturable; (b) intestinal transport is associated with complexing of IgG molecules with membranes, most probably with enterocyte microvillous membranes; and (c) the part of the IgG structure involved in this process is probably similar to that involved in the concentration-catabolism effect but is not identical to that mediating other non-antigen combining functions of IgG. Our data are consistent with the existence of specific receptors for IgG on enterocyte microvillous membranes of the neonatal rat. Such receptors would be necessary for the specific uptake and transport of these molecules.
Fifteen Years of Gene Therapy Based on Chimeric Antigen Receptors: “Are We Nearly There Yet?” (2009)

"T-body" or chimeric antigen receptor (CAR) technology, which combines the specificity of an antibody with the homing, tissue penetration, and target cell destruction of T cells, was first described in 1993. After many years of unmet promise, significant improvements in gene transfer, including the development of efficient retroviral vectors for transduction of human T cells, and better understanding of immunological pathways and immune cell interactions, are allowing this technology to reach a critical phase of evaluation, in which we will learn whether the approach can truly meet expectations. In this review we summarize the concept of CAR-based immunotherapy, describe the steps accomplished, and outline the future progress we need to make if this approach is truly to improve cancer immunotherapy.
Travellers' diarrhoea: prospects for successful immunoprophylaxis. (1983)

Enterotoxigenic Escherichia coli (ETEC) are the major aetiological agent of travellers' diarrhoea, usually accounting for 30-60% of cases. Thus a safe and effective vaccine against ETEC could play an important role in prevention of this infection. A successful vaccine must somehow protect against a heterogenous array of ETEC pathogens comprising many O:H serotypes and three enterotoxin phenotypes (LT+/ST-, LT-/ST+, and LT+/ST+). Three major approaches to vaccine development are currently in progress including: 1) LT and ST toxoids that stimulate antitoxic immunity; 2) purified pili vaccines that induce anti-adhesion immunity; 3) attenuated strains (prepared by recombinant DNA techniques) that mimic natural infection by stimulating antibacterial and anti-adhesive immunity as well as antitoxic immunity. Since Shigella represents the second most common cause of travellers' diarrhoea, immunoprophylaxis against this pathogen is also desirable. A recently described attenuated Salmonella typhi strain (Ty21a) expressing Shigella sonnei O antigen on its surface represents an attractive Shigella vaccine prototype.
Immunoglobulin M, A, and G antibody response to lipopolysaccharide O antigen in symptomatic and asymptomatic Shigella infections (1989)

The antilipopolysaccharide antibody response in sera obtained from subjects involved in 10 outbreaks of shigellosis occurring in Israeli military field units was determined by an enzyme-linked immunosorbent assay and a passive hemagglutination test. Both tests were found to be sensitive and specific for the diagnosis of shigellosis. A significant antibody response was detected in 73 to 82% of the symptomatic and 48 to 60% of the asymptomatic subjects during the Shigella sonnei and Shigella flexneri outbreaks. Fifty percent of the symptomatic and none of the asymptomatic subjects showed a significant antibody response in the Shigella boydii outbreaks. An examination of the kinetics of the antibody levels over a 10-week period after the onset of disease revealed that immunoglobulin A (IgA) levels were highest 2 weeks after infection and had declined to initial levels within 2.5 months. In contrast, IgG levels at the late convalescent stage were half those measured at early convalescence, still being about twice as high as the initial titers. Although the IgM levels showed a pattern similar to that of IgA, their elevation at the early convalescent stage was less pronounced. We conclude that the detection of an increase in the level of the IgA fraction appeared to be the best indicator for recent symptomatic, as well as symptomatic, infections due to Shigella organisms.
Monoclonal Antibodies Specific for Sickle Cell Hemoglobin (1985)

Two mouse hybridoma cell lines were isolated which produce monoclonal antibodies that bind hemoglobin S. The mice were immunized with peptide-protein conjugates to stimulate a response to the amino terminal peptide of the beta chain of hemoglobin S, where the single amino acid difference between A and S occurs. Immunocharacterization of the antibodies shows that they bind specifically to the immunogen peptide and to hemoglobin S. The specificity for S is high enough that one AS cell in a mixture with a million AA cells is labeled by antibody, and such cells can be analyzed by flow cytometry. Immunoblotting of electrophoretic gels allows definitive identification of hemoglobin S as compared with other hemoglobins with similar electrophoretic mobility.
Recent Advances for Intumescent Polymers (2004)

Abstract Summary: This paper reviews recent approaches for making intumescent systems. The mechanisms of action involving intumescence are described and commented on. Synergistic aspects using zeolites and organoclays are also considered and discussed. New strategies are examined on the basis of the mechanism of intumescence. The approach of using char forming polymers as additives (blend technology) is also fully discussed. This consists of substituting classical polyols (char forming agents) with char forming polymers (polyamides and thermoplastic polyurethane). It will be shown that the advantages of this concept are to obtain flame‐retarded (FR) polymer blends with improved mechanical properties in comparison with polymers loaded with classical formulations, and the avoidance of problems due to the water solubility of the polyols and their migration. The “nanocomposite approach” enhances the performance of intumescent systems by using a nanostructured char forming polymer. It will be shown that this combination of intumescence via the blending approach and nanocomposites enhances both flame retardancy and mechanical properties, and allows many specifications to be produced (for example, the design of EVA‐based materials for flame retarded low voltage cables and wire). This appears to be one of the most promising ways for designing new efficient intumescent materials. Intumescent residue after LOI test of an intumescent poly(propylene). magnified image Intumescent residue after LOI test of an intumescent poly(propylene).
Philadelphia chromosome‐positive acute lymphoblastic leukemia (2010)

The Philadelphia chromosome (Ph) is the most common cytogenetic abnormality associated with adult acute lymphoblastic leukemia (ALL). Before the advent of tyrosine kinase inhibitors (TKIs), Ph-positive ALL carried a dismal prognosis and was characterized by a poor response to most chemotherapy combinations, short remission durations, and poor survival rates. Outcomes for patients with Ph-positive ALL improved substantially with the introduction of TKIs, and the TKI imatinib induced complete remissions in >95% of patients with newly diagnosed Ph-positive ALL when it was combined with chemotherapy. However, imatinib resistance remains a problem in a substantial proportion of patients with Ph-positive ALL, and multiple molecular mechanisms that contribute to imatinib resistance have been identified. Second-generation TKIs (eg, dasatinib and nilotinib) have demonstrated promising efficacy in the treatment of imatinib-resistant, Ph-positive ALL. Future strategies for Ph-positive ALL include novel, molecularly targeted treatment modalities and further evaluations of TKIs in combination with established antileukemic agents. For this article, the authors reviewed past, current, and future treatment approaches for adult and elderly patients with Ph-positive ALL with a focus on TKIs and combined chemotherapeutic regimens.
A novel cell immunoassay to measure survival of motor neurons protein in blood cells (2006)

SMN levels measured from total PBMCs provide an important snapshot of SMN protein expression, which should be a useful aid in SMA diagnosis, and a surrogate marker of efficacy of treatment in SMA clinical trials.
Concise Syntheses of Meridianins by Carbonylative Alkynylation and a Four‐Component Pyrimidine Synthesis (2005)

In one go: (Hetero)aryl iodides, alkynes, carbon monoxide, and amidines can be assembled in a consecutive four-component reaction to give pyrimidines by a sequence of carbonylative alkynylation and cyclocondensation. Carbonylative alkynylation also is the key step in the two-step syntheses of meridianins and meridianin derivatives.
Identification of New Candidate Vaccine Antigens Made byStreptococcus pyogenes:Purification and Characterization of 16 Putative Extracellular Lipoproteins (2004)

Putative extracellular lipoproteins made by group A Streptococcus (GAS) are the focus of this study, which was designed to identify new candidate vaccine antigens. Bioinformatic analysis of a serotype M1 GAS strain identified 30 open-reading frames encoding putative lipoproteins. The genes encoding the mature form of 29 of these proteins were cloned, and 16 recombinant proteins were overexpressed in Escherichia coli and purified to apparent homogeneity. The genes encoding these 16 proteins were highly conserved in GAS strains for which genome sequence data are available (serotypes M1, M3, M5, M12, M18, and M28). Mice inoculated subcutaneously with GAS and humans with GAS pharyngitis and invasive infections seroconverted to most of the 16 recombinant proteins, which indicates that these lipoproteins were produced during infection. The blood of mice actively immunized with 5 of the 16 recombinant proteins had significantly (P<.05) increased growth-inhibitory activity, compared with the blood of unimmunized mice, which identified these proteins as potential new vaccine candidates.
Chronic kinin receptor blockade attenuates the antihypertensive effect of ramipril. (1992)

The contribution of endogenous kinins to the chronic antihypertensive effect of angiotensin converting enzyme inhibitors was investigated in two-kidney, one clip hypertensive Wistar rats, using the new bradykinin B2-receptor antagonist HOE 140 (D-Arg, [Hyp3, Thi5, D-Tic7, Oic8]-bradykinin). In a first protocol, rats were pretreated orally with the angiotensin converting enzyme inhibitor ramipril (1 mg/kg per day), for 4 weeks. Acute blockade of bradykinin receptors by intravenous injections of HOE 140 at doses of 8.4 and 100 micrograms/kg, which inhibited the depressor responses to exogenous bradykinin, did not affect the antihypertensive effect of ramipril in these animals. Bradykinin receptors were then blocked chronically by subcutaneous infusion of HOE 140 (500 micrograms/kg per day) via osmotic minipumps for 6 weeks, while ramipril treatment was continued. HOE 140 partially reversed the antihypertensive effect of ramipril from 115.3 +/- 4.6 to 123.8 +/- 3.3 mm Hg (mean arterial blood pressure) after 3 weeks and to 121.3 +/- 2.9 mm Hg after 6 weeks. In contrast, in controls (ramipril plus subcutaneous vehicle infusion) mean arterial blood pressure decreased further from 112.0 +/- 6.0 to 110.3 +/- 4.9 mm Hg after 3 weeks and to 103.7 +/- 5.0 mm Hg after 6 weeks (p less than 0.05 and p less than 0.01, HOE 140 versus controls). Plasma catecholamines were not significantly different between the two groups at the end of the experiment, indicating that the partial reversal of the antihypertensive effect was not due to a bradykinin-like agonistic effect on catecholamine release.(ABSTRACT TRUNCATED AT 250 WORDS)
Extracting Keyphrases from Spoken Audio Documents (2002)

Spoken audio documents are becoming more and more common on the World Wide Web, and this is likely to be accelerated by the widespread deployment of broadband technologies. Unfortunately, speech documents are inherently hard to browse because of their transient nature. One approach to this problem is to label segments of a spoken document with keyphrases that summarise them. In this paper, we investigate an approach for automatically extracting keyphrases from spoken audio documents. We use a keyphrase extraction system (Extractor) originally developed for text, and apply it to errorful Speech Recognition transcripts, which may contain multiple hypotheses for each of the utterances. We show that keyphrase extraction is an "easier" task than full text transcription and that keyphrases can be extracted with reasonable precision from transcripts with Word Error Rates (WER) as high as 62%. This robustness to noise can be attributed to the fact that keyphrase words have a lower WER than non-keyphrase words and that they tend to have more redundancy in the audio. From this we conclude that keyphrase extraction is feasible for a wide range of spoken documents, including less-than-broadcast casual speech. We also show that including multiple utterance hypotheses does not improve the precision of the extracted keyphrases.
Phase Behavior of Symmetric Ternary Block Copolymer-Homopolymer Blends in Thin Films and on Chemically Patterned Surfaces (2006)

The phase diagram of symmetric ternary blends of diblock copolymers and homopolymers in thin films was determined as a function of increasing volume fraction of homopolymer (phi(H)) and was similar to that for these materials in the bulk. Blends with compositions in the lamellar region of the diagram (phi(H)< or =0.4) could be directed to assemble into ordered lamellar arrays on chemically striped surfaces if the characteristic blend dimension (L(B)) and the period of the stripes (L(S)) were commensurate such that L(S)=L(B)+/-0.10L(B). Blends with compositions in the microemulsion region of the diagram (phi(H) approximately 0.6) assembled into defect-free lamellar phases on patterned surfaces with L(S)> or =L(B), but formed coexisting lamellar (with period L(S)) and homopolymer-rich phases when L(S)<L(B).