gebhart/patrepeval huggingface dataset:
Binding Specificity of a Monoclonal Antibody to Human Hb A (1995)

HemoCardTM kits use monoclonal antibody-conjugated metal sol particles in an immuno-concentration assay. The HemoCard Hbs S, C, and E kits detect the three most common hemoglobin variants in both adult and newborn samples. The HemoCard Hb A kit can be used in conjunction with HemoCard Hbs S and C (but not HemoCard Hb E) to distinguish heterozygotes from homozygotes. We examined the antigen-binding domain of a monoclonal antibody to Hb A by testing samples from human and animal sources. We confirmed that the Hb A conjugate recognizes an epitope in which glutamic acid at beta 6 is necessary to provide the proper conformation for binding. This binding is not affected by substitutions at positions directly adjacent to beta 6. However, extensive substitutions in the primary sequence (e.g. in chicken, beta 6: glutamic acid, substitutions at beta 3, beta 5, beta 9, beta 10, beta 11) may produce conformational changes, resulting in diminished binding.
Prophylactic Application of CpG Oligonucleotides Augments the Early Host Response and Confers Protection in Acute Melioidosis (2012)

Prophylactic administration of CpG oligodeoxynucleotides (CpG ODNs) is known to confer protection against lethal sepsis caused by Burkholderia pseudomallei in the mouse model. The mechanisms whereby CpG regulates the innate immune response to provide protection against B. pseudomallei, however, are poorly characterized. In the present study, we demonstrate that intranasal treatment of mice with Class C CpG, results in recruitment of inflammatory monocytes and neutrophils to the lung at 48 h post-treatment. Mice infected with B. pseudomallei 48 h post-CpG treatment had reduced organ bacterial load and significantly altered cytokine and chemokine profiles concomitant with protection as compared to control animals. CpG administration reduced the robust production of chemokines and pro-inflammatory cytokines in blood, lung and spleen, observed following infection of non-treated animals. Death of control animals coincided with the time of peak cytokine production (day 1-3), while a moderate; sustained cytokine production in CpG-treated animals was associated with survival. In general, CpG treatment resulted in diminished expression of cytokines and chemokines post-infection, though IL-12p40 was released in larger quantities in CpG treated animals. In contrast to CpG-treated animals, the lungs of infected control animals were infiltrated with leukocytes, especially neutrophils, and large numbers of necrotic lesions were observed in lung sections. Therapeutic treatment of B. pseudomallei-infected animals with CpG at 24 h post-infection did not impact survival compared to control animals. In summary, protection of CpG-treated animals was associated with recruitment of inflammatory monocytes and neutrophils into the lungs prior to infection. These responses correspond with early control of bacterial growth, a dampened inflammatory cytokine/chemokine response, reduced lung pathology, and greatly increased survival. In contrast, a delay in recruitment of inflammatory cell populations, despite a robust production of pro-inflammatory cytokines, was associated with poorly controlled bacterial growth, severe lung pathology, and death of control animals.
Variations of formaldehyde and VOC levels during 3 years in new and older homes (2006)

The initial levels of VOCs in the new homes decreased dramatically and were close to the mean values for the older homes after one year. The results suggest that steady emissions of VOCs are obtained within initial months. However, formaldehyde and a-pinene did not follow the trend for VOCs, particularly in the wooden framed houses. The results tend to suggest that formaldehyde and a-pinene related to wooden materials will need more long a flushing period than other compounds in the new homes. Decreasing tendency of indoor air organic compound levels in the new homes did not appear to show any dependency upon the ventilation systems over the whole period. Absence of data for ventilation rates in the houses dose not permit interpretation of the relation between ventilation rates and indoor air organic compound levels with statistical certainty, but the results suggest that indoor air organic compound levels in the homes will be more influenced by emission source strengths than ventilation systems. The levels of indoor air organic compounds in the new homes are sufficiently decreased according to the ageing decreases of organic compounds when the home is ventilated with adequate quantities.
Photoplethysmography-based ambulatory heartbeat monitoring embedded into a dedicated bracelet (2013)

Ambulatory electrocardiogram (ECG) monitors have been intensely used since half century but are still associated to clinical/ambulatory cumbersome procedures. The question of this research is the following: what is the performance of a photoplethysmography (PPG)- based device located at the wrist in terms of heart rate variability (HRV) monitoring? PPG and ECG signals were recorded simultaneously on 4 subjects. Heart-beat (RR) intervals were estimated from both devices. For PPG signals, a multi-sensors approach based on the detection of local minima of the time-derivative was used to estimate RR time series. For ECG signals, an approach based on adaptive threshold was used (gold standard). The normalized differences observed on time-domain and frequency-domain HRV features were computed. Results based on 1565 minutes of recordings (N=94'000) showed an averaged correlation around 0:9 between the HRV features extracted from the PPG and ECG-based device. In view of these results, it appears that the wrist sensor opens the door towards a new generation of comfortable and easy-to-use cardiac HRV tool especially well adapted for long-term monitoring.
Wear simulation of UHMWPE for total hip replacement with a multidirectional motion pin‐on‐disk device: Effects of counterface material, contact area, and lubricant (2000)

The wear of nonirradiated ultra-high molecular weight polyethylene (UHMWPE) was studied with a circularly translating pin-on-disk (CTPOD) device. With this simple device, the wear of the acetabular cup is simulated. Two shapes of a polyethylene pin were used: flat wear faces of 3.0 and 8.9 mm in diameter. The load was always 70.7 N. Tests were done against stainless steel plates in serum, albumin, and gamma-globulin lubricants and against alumina plates in serum. With 3.0-mm-in-diameter wear faces, the wear factors were an order of magnitude lower than the average clinical wear factors of polyethylene acetabular cups. With 8.9-mm-in-diameter wear faces, the wear factors and wear mechanisms were consistent with clinical ones. The mean wear factor against stainless steel in serum was 1.46 times higher than that against alumina, and the difference was statistically significant. The mean wear factors in albumin and gamma globulin were close to that in serum; the differences were not statistically significant. The results indicate that albumin and gamma globulin are the fractions of synovia that influence the wear of polyethylene. A practical test parameter combination for the CTPOD device has now been established for future studies of modified and new materials and of lubricants. © 2000 John Wiley & Sons, Inc. J Biomed Mater Res, 49, 147–154, 2000.
Gamma-radiation of heart valves at 4 C; a comparative study using techniques of histochemistry and electron and light microscopy (1973)

The optimal method of valve sterilization and storage is still not known. Pig aortic valve cusps have been studied using techniques of histochemistry, light microscopy, and electron microscopy, and the effects of gamma-radiation at 4° C have been determined. The effects of freezing, β-propriolactone, and freeze-drying were also studied. Gamma-radiation at 4° C and storage at this temperature in a polyionic environment for up to six weeks appears to have minimal adverse effects. This technique of sterilization and storage has now been used in our clinical valve programme for over two years with encouraging results.
Ray tracing on programmable graphics hardware (2002)

Recently a breakthrough has occurred in graphics hardware: fixed function pipelines have been replaced with programmable vertex and fragment processors. In the near future, the graphics pipeline is likely to evolve into a general programmable stream processor capable of more than simply feed-forward triangle rendering.In this paper, we evaluate these trends in programmability of the graphics pipeline and explain how ray tracing can be mapped to graphics hardware. Using our simulator, we analyze the performance of a ray casting implementation on next generation programmable graphics hardware. In addition, we compare the performance difference between non-branching programmable hardware using a multipass implementation and an architecture that supports branching. We also show how this approach is applicable to other ray tracing algorithms such as Whitted ray tracing, path tracing, and hybrid rendering algorithms. Finally, we demonstrate that ray tracing on graphics hardware could prove to be faster than CPU based implementations as well as competitive with traditional hardware accelerated feed-forward triangle rendering.
Anomalous thermal conductivity enhancement in nanotube suspensions (2001)

We have produced nanotube-in-oil suspensions and measured their effective thermal conductivity. The measured thermal conductivity is anomalously greater than theoretical predictions and is nonlinear with nanotube loadings. The anomalous phenomena show the fundamental limits of conventional heat conduction models for solid/liquid suspensions. We have suggested physical concepts for understanding the anomalous thermal behavior of nanotube suspensions. In comparison with other nanostructured materials dispersed in fluids, the nanotubes provide the highest thermal conductivity enhancement, opening the door to a wide range of nanotube applications.
Nucleotide sequence of pre-pro-von Willebrand factor cDNA (1986)

This cDNA sequence is complete except for approximately 150 bp of 5' untranslated and lOObp of 3 1 untranslated sequence. The whole sequence was derived on both strands. An upstream stop codon in the major open reading frame is shown by asterisks. Potential sites for N-linked glycosylation are underlined. The sites of cleavage of signal peptide and vWF pro-polypeptide (1) are indicated by arrows. The sequence ArgGlyAspSer (2) is boxed. Araino-acids are numbered to the right, relative to the initiator methionine as 1. The clones analysed were isolated from a human umbilical vein endothelial cell cDNA library (3). The repeated elements within this sequence will be discussed elsewhere (4).
Inhibition of tumor cell growth by interferon-gamma is mediated by two distinct mechanisms dependent upon oxygen tension: induction of tryptophan degradation and depletion of intracellular nicotinamide adenine dinucleotide. (1989)

Growth of a variety of human tumor cell lines is inhibited by interferon-gamma (IFN-gamma) in vitro. This mechanism is not well understood. The present experiments identify two separate mechanisms which account for the growth inhibitory activity of IFN-gamma. Cell lines most sensitive to IFN-gamma (inhibited by 10-30 U/ml IFN-gamma in 3 d) were stimulated by IFN-gamma to oxidize tryptophan in media to kynurenine and completely eliminated tryptophan from the culture media after 48-72 h. Addition of L-tryptophan, but not other aromatic amino acids, other essential amino acids, or D-tryptophan, prevented inhibition of cell growth by IFN-gamma. The amount of IFN-gamma required to yield 50% inhibition of cell growth was directly related to the concentration of L-tryptophan in culture media and increased from approximately 3 to 600 U/ml as the concentration of tryptophan in the media was increased from 25 to 1,000 microM. By contrast, inhibition of growth of the cell lines, BT20 and HT29, was not prevented by addition of tryptophan. Inhibition by IFN-gamma (100-300 U/ml after 5-6 d) was, however, completely prevented by addition of two inhibitors of adenosine diphosphate-ribosyl transferase (ADP-RT), 3-aminobenzamide or nicotinamide. Activity of ADP-RT was increased in these cell lines after addition of IFN-gamma. ADP-RT catalyzes the incorporation of the ADP moiety of nicotinamide adenine dinucleotide (NAD) into proteins and causes depletion of intracellular NAD. All tumor cell lines tested had reduced levels of intracellular NAD after treatment with IFN-gamma and loss of NAD preceded inhibition of cell growth by 12-24 h. Inhibitors of IFN-gamma-mediated inhibition of cell growth prevented loss of levels of intracellular NAD. Generation of reactive oxygen species lead to DNA strand breaks which result in activation of ADP-RT. Increased DNA strand breaks were induced in BT20 and HT29 cells but not ME180 and A549 cells after culture with IFN-gamma. The two enzymes known to catalyze the decyclization of tryptophan to kynurenine require superoxide anion for activity. Increased amounts of superoxide anion were released from ME180 and A549 cells after culture with IFN-gamma. Reduced oxygen concentration decreased the ability of IFN-gamma to inhibit tumor cell growth in vitro. Intracellular glutathione has been shown to protect cells against oxidative damage by various agents. Elevation or reduction of intracellular glutathione concentrations lowered or raised sensitivity of cell lines to IFN-gamma, respectively. These data indicate that at least two distinct mechanisms can account for IFN-gamma-madiated inhibition of tumor cell growth. Both mechanisms appear to be sensitive to oxygen tension and to changes in intracellular glutathione concentrations, and both mechanisms lead to loss of intracellular NAD.
The role of metals in molluscan adhesive gels (2007)

Several gastropod molluscs produce glues that are interesting because they are dilute gels and yet they produce strong adhesion. Specific glue proteins have been identified that play a central role in this adhesion, possibly by crosslinking other polymers in the gel. This study investigates the role of metals in the action of these glue proteins. Atomic absorption spectrometry showed that glue from the slug Arion subfuscus contains substantial quantities of zinc (46+/-7 p.p.m. and 189+/-80 p.p.m. in two different sets of experiments) and also iron, copper and manganese (2-7 p.p.m.). Iron-specific staining demonstrates that iron is bound specifically to the 15 kDa glue protein. Several approaches were used to show that these metals have important functional effects. Adding iron or copper to dissolved glue causes the proteins to precipitate rapidly, although zinc has no effect. Removing iron and related transition metals with a chelator during secretion of the glue causes a sixfold increase in the solubility of the glue. Once the glue has set, however, removing these metals has no effect. Finally, the gel-stiffening activity of the glue proteins was measured in the presence and absence of the chelator. The chelator eliminated the gel-stiffening effect of the proteins, suggesting that transition metals were necessary for the proteins to act on the gel. Thus, the glue contains transition metals and these metals play an essential role in glue function.
A Scalable Bandwidth Extension Algorithm (2007)

Most modern bandwidth extension techniques predict the high- frequency band based on features extracted from the lower band. While this works for some frames, problems arise when the correlation between the low and the high band is insufficient. In these situations, additional high-band information must be sent to the decoder. In this paper, we propose a scalable speech coding method based on the principles of bandwidth extension. The rate selection is based on explicit psychoacoustic criteria, while the bandwidth extension is performed using a constrained MMSE estimation technique. Objective and subjective evaluations indicate that the proposed system performs at a lower average bit rate when compared to other similar algorithms while improving speech quality.
Partial cone crack formation in a brittle material loaded with a sliding spherical indenter (1967)

Abstract In the preceding paper Frank &amp; Lawn (1967) investigated theoretically the development of a cone crack in the strongly inhomogeneous Hertzian stress field. The analysis outlined in that paper is now extended to incorporate a sliding motion of the spherical indenter across the specimen surface, assuming a uniform coefficient of friction over the contact area. Sliding is found to have a large influence on the quasistatic stress field in the loaded specimen, and this in turn affects the ultimate geometry of the cracks. The precise shape of the partially developed cones thus formed is a function only of the Poisson ratio of the specimen material and the coefficient of friction. Criteria determining when surface fracture will occur, expressed as relationships between the critical normal load Pc acting on the specimen and the indenter radius r, are calculated as before. The Auerbach law found for purely normally loaded specimens, namely that Pc is proportional to r, over a certain range of r, should cease to hold when the coefficient of friction exceeds about 0.02. Pc then becomes very nearly proportional to r2, which corresponds to a critical stress criterion. The effect of sliding on the value of Pc becomes large with larger values of the coefficient of friction; this is of particular relevance to studies of the surface damage of brittle materials.
Strategies for designing synthetic immune agonists (2016)

Enhancing the immune system is a validated strategy to combat infectious disease, cancer and allergy. Nevertheless, the development of immune adjuvants has been hampered by safety concerns. Agents that can stimulate the immune system often bear structural similarities with pathogen-associated molecular patterns found in bacteria or viruses and are recognized by pattern recognition receptors (PRRs). Activation of these PRRs results in the immediate release of inflammatory cytokines, up-regulation of co-stimulatory molecules, and recruitment of innate immune cells. The distribution and duration of these early inflammatory events are crucial in the development of antigen-specific adaptive immunity in the forms of antibody and/or T cells capable of searching for and destroying the infectious pathogens or cancer cells. However, systemic activation of these PRRs is often poorly tolerated. Hence, different strategies have been employed to modify or deliver immune agonists in an attempt to control the early innate receptor activation through temporal or spatial restriction. These approaches include physicochemical manipulation, covalent conjugation, formulation and conditional activation/deactivation. This review will describe recent examples of discovery and optimization of synthetic immune agonists towards clinical application.
A novel cytoplasmic GTPase XAB1 interacts with DNA repair protein XPA (2000)

The xeroderma pigmentosum group A protein (XPA) plays a central role in nucleotide excision repair (NER). To identify proteins that bind to XPA, we screened a HeLa cDNA library using the yeast two-hybrid system. Here we report a novel cytoplasmic GTP-binding protein, designated XPA binding protein 1 (XAB1). The deduced amino acid sequence of XAB1 consisted of 374 residues with a molecular weight of 41 kDa and an isoelectric point of 4.65. Sequence analysis revealed that XAB1 has four sequence motifs G1-G4 of the GTP-binding protein family in the N-terminal half. XAB1 also contains an acidic region in the C-terminal portion. Northern blot analysis showed that XAB1 mRNA is expressed ubiquitously, and immunofluorescence analysis revealed that XAB1 is localized mainly in the cytoplasm. Consistent with the GTP-binding motif, purified recombinant XAB1 protein has intrinsic GTPase activity. Using the yeast two-hybrid system, we elucidated that XAB1 binds to the N-terminal region of XPA. The deletion of five amino acids, residues 30-34 of XPA, required for nuclear localization of XPA abolished the interaction with XAB1. These results suggest that XAB1 is a novel cytoplasmic GTPase involved in nuclear localization of XPA.
Regulation of Insulin-Like Growth Factor-Binding Protein-1 Synthesis and Secretion by Progestin and Relaxin in Long Term Cultures of Human Endometrial Stromal Cells* (1991)

The decidualized endometrium during the first trimester of pregnancy synthesizes and secretes a 32-kDa insulin-like growth factor-binding protein (termed hIGFBP-1) at high levels. IGFBP-1 is the major soluble protein product of this tissue and is principally localized to the differentiated endometrial stromal cell, the decidual cell. In the present study long term culture of stromal cells from the nonpregnant endometrium have been employed to elucidate the hormonal requirements for IGFBP-1 production. Immunoreactive IGFBP-1 was undetectable in control cultures. However, inclusion of medroxyprogesterone acetate (MPA) induced rates of 0.35 +/- 0.09 microgram/0.1 mg cell DNA.day (mean +/- SEM; n = 5) after 20-30 days. In these cultures cells exhibited morphological changes consistent with decidual cell differentiation. In all cultures removal of MPA after exposure for 10-16 days, with or without subsequent inclusion of relaxin (RLX), increased production of IGFBP-1 450- to 4600-fold to rates of 150-710 micrograms/0.1 mg cell DNA.day or 26-131 micrograms/10(6) cells.day on days 24-26. The rates tended to be higher with the inclusion of RLX and were sustained in contrast to cultures without RLX, where rates fell by day 30. Individual cultures responded differently to RLX when added from the initiation of culture, with either a response similar to MPA alone or a cyclical change in production, achieving maximal rates of 190-290 micrograms/0.1 mg cell DNA.day. Cultures in which RLX alone induced high IGFBP-1 high production were obtained from endometrium during the progesterone-dominated luteal phase. In cultures exhibiting high rates of immunoreactive IGFBP-1 production, the protein represented their major secretory protein product. This was confirmed by [35S]methionine incorporation and the presence of IGFBP-1 as the predominant protein in serum-free culture medium. The immunoreactive IGFBP-1 isolated from culture medium was found to be identical, by a number of criteria, with IGFBP-1 derived from decidual tissue. These results were consistent with a primary role of progestin exposure, whether in vivo or in vitro, in converting endometrial stromal cells to cells potentially able to exhibit the high rates of IGFBP-1 production typical of the decidualized endometrium of pregnancy.
A Cellulolytic Nitrogen-Fixing Bacterium Cultured from the Gland of Deshayes in Shipworms (Bivalvia: Teredinidae) (1983)

A novel bacterium has been isolated in pure culture from the gland of Deshayes in six species of teredinid bivalves. It is the first bacterium known to both digest cellulose and fix nitrogen, and it is a participant in a unique symbiotic relation with shipworms that may explain how teredinids are able to use wood as their principal food source.