gebhart/patrepeval huggingface dataset:
Silk fibroin–keratin based 3D scaffolds as a dermal substitute for skin tissue engineering (2014)

Development of highly vascular dermal tissue-engineered skin substitutes with appropriate mechanical properties and cellular cues is in need for significant advancement in the field of dermal reconstruction. Limitations have been imposed on natural biomaterials despite their superb biocompatibility hence, studies in biomaterial blending have been ongoing. Herein, we investigated blends of silk fibroin and human hair-derived keratin as wound-healing substrates that promote enhanced fibroblast cell adhesion and proliferation. Three-dimensional (3D) blended scaffolds were fabricated by freeze-drying, and their physico-chemical, mechanical and degradable properties were extensively characterized. Cytocompatibility tests observing cell adhesion and cell proliferation have shown significant enhancements in blended scaffolds. Also, its structural composition with high porosity (>85%) and interconnected pores in the range of 100-120 microns further confirms the superiority of the complex compared to its counterparts. FTIR studies identified the enhanced stability within its structure and were followed-up with sequential experiments to demonstrate improved thermal, degradation, and mechanical properties. Furthermore, immunohistochemical staining revealed greater expression of collagen type I in the cultured cells, indicating functional fibroblast proliferation and, hence, the exciting potential of this construct for dermal applications. Taken together, this study demonstrates the promising attributes from blended biomaterials and specifically present silk fibroin and human hair keratin blended scaffolds as a promising dermal substitute for skin tissue engineering.
Role of Amine Structure on Carbon Dioxide Adsorption from Ultradilute Gas Streams such as Ambient Air (2012)

A fundamental study on the adsorption properties of primary, secondary, and tertiary amine materials is used to evaluate what amine type(s) are best suited for ultradilute CO(2) capture applications. A series of comparable materials comprised of primary, secondary, or tertiary amines ligated to a mesoporous silica support via a propyl linker are used to systematically assess the role of amine type. Both CO(2) and water adsorption isotherms are presented for these materials in the range relevant to CO(2) capture from ambient air and it is demonstrated that primary amines are the best candidates for CO(2) capture from air. Primary amines possess both the highest amine efficiency for CO(2) adsorption as well as enhanced water affinity compared to other amine types or the bare silica support. The results suggest that the rational design of amine adsorbents for the extraction of CO(2) from ambient air should focus on adsorbents rich in primary amines.
Remote laser generation of narrow-band surface waves through optical fibers (1999)

This paper demonstrates the use of a fiberoptic bundle for flexible, compact, remote, and noncontact laser generation of surface ultrasonic waves in materials. The bundle is able to deliver Nd:YAG pulsed light with a 60% delivery efficiency up to an average energy of 55 mJ/pulse for a pulse duration on the order of 10 ns and a pulse repetition rate of 20 Hz without signs of fiber damage. Details of the bundle construction and surface preparation are given, and pulsed light delivery tests performed with single tapered fibers are discussed. The high-power light delivery capabilities of the bundle are demonstrated for the generation of narrow-band surface waves in a Carbon/PEEK composite laminate by a spatial modulation technique that employs a periodic transmission mask. Single laser pulse ultrasonic tonebursts are clearly detectable using a small aperture piezoelectric transducer while ensuring thermoelastic generation conditions. The theory of narrow-band generation of surface acoustic waves is improved by accounting for the strength nonuniformity of the illumination sources. In addition, the effect of the number of illumination sources on the bandwidth of the generated surface wave is assessed experimentally, and excellent agreement is shown with the theoretical results predicted by the improved model.
Design Tradeoffs in a Flash Translation Layer (2011)

Although flash has better random access characteristics than disk, it has a number of undesirable complexities, including the inability to overwrite a block in place. A layer, called the flash translation layer is used to vitalize flash and presents it as a block device. Although many such designs have been proposed in the past, they often do not focus on the requirements of large-scale enterprise storage, nor do they examine the trade-offs between different approaches. In this paper, we use trace-based simulation to analyze the trade-offs and designs of two popular classes of flash translation layers. 1.
Chronic oxidative stress and radiation‐induced late normal tissue injury: a review (2004)

Although a causal link between chronic oxidative stress and radiation-induced late normal tissue injury remains to be established, a growing body of evidence appears to support the hypothesis that chronic oxidative stress might serve to drive the progression of radiation-induced late effects. The similarity between chronic tissue injury, chronic inflammation and fibrosis observed in a variety of disease states, including radiation late effects, is provocative and offers the opportunity to apply antioxidant-based therapies to mitigate and/or treat late radiation-induced normal tissue injury.
Feasible adjoint sensitivity technique for EM design optimization (2002)

An adjoint-variable approach to frequency-domain design sensitivity analysis is proposed for the optimization of high-frequency structures with full-wave electromagnetic solvers. We investigate sensitivity estimations based on a feasible perturbation technique which is versatile and requires only minor modifications of existing analysis algorithms. It extends the feasible adjoint-sensitivity technique previously applied in nonlinear microwave circuits to full-wave electromagnetic analysis. The solution to the adjoint problem is obtained with very little overhead once the original problem is solved. The gradient of the objective function is consequently computed through a single analysis regardless of the number of the design parameters. The concept is illustrated through the sensitivity analysis and the design of a Yagi-Uda array and a rectangular patch antenna using suitable method of moments simulators.
DEAN FLOW FRACTIONATION (DFF) ISOLATION OF CIRCULATING TUMOR CELLS (CTCs) FROM BLOOD (2011)

Isolation and enumeration of circulating tumor cells (CTCs) as cancer biomarkers have been challenging due to their extremely low abundance in blood. This paper reports an ultra high-throughput technique for CTCs isolation from blood using the inherent Dean vortex flows present in curvilinear channels, aptly termed Dean Flow Fractionation (DFF). Using a 2-inlet 2-outlet spiral microchannel, the separation principle exploits the difference in cell size between CTCs (~16-20 µm diameter) and other blood cells (RBCs ~8 µm; leukocytes ~8-14 µm). Experimental results confirm >99% RBCs and leukocytes removal from blood sample (20% hematocrit) spiked with MCF-7 cells with >90% tumor cell recovery after separation. The developed technique offers large sample processing capability due to its ability to process very high hematocrit samples (20%), a key requirement for isolating rare-cells. A single device can process 1 mL whole blood in a single step, under 15 min.
Collagenase-3 (MMP-13) is expressed by hypertrophic chondrocytes, periosteal cells, and osteoblasts during human fetal bone development (1997)

Collagenase-3 (MMP-13) is a novel matrix metalloproteinase, the expression of which has so far only been documented in human breast carcinomas and osteoarthritic cartilage. In this study we have examined the expression of MMP-13 during human fetal development. Northern blot hybridizations revealed abundant expression of MMP-13 mRNAs in total RNA from fetal cartilage and calvaria at gestational age of 15 weeks. By in situ hybridization MMP-13 transcripts were detected in chondrocytes of hypertrophic cartilage in vertebrae of the spinal column and in the dorsal end of ribs undergoing ossification, as well as in osteoblasts and periosteal cells below the inner periosteal region of ossified ribs. In contrast, no expression of MMP-13 could be detected in osteoclasts. Furthermore, expression of MMP-13 mRNA was detected in osteoblasts and fibroblasts primarily on the inner side of calvarial bone of the skull at 16 weeks of gestation. Expression of MMP-13 mRNA by primary human fetal chondrocytes in culture was enhanced by transforming growth factor-beta (TGF-beta) and inhibited by bone morphogenetic protein-2 (BMP-2). No expression of MMP-13 mRNA could be noted in other fetal tissues, including the skin, lungs, neural tissue, muscle, and liver. These results suggest that MMP-13 plays an important role in the extracellular matrix remodeling during fetal bone development both via endochondral and intramembranous ossification.
Inhibition of expression of human immunodeficiency virus-1 in vitro by antibody-targeted liposomes containing antisense RNA to the env region. (1990)

Previous studies revealed that antisense oligodeoxynucleotides to specific regions of the human immunodeficiency virus-1 (HIV-1) are potent inhibitors of replication of HIV-1 in vitro (Zamecnik, P. C., Goodchild, J., Taguchi, Y., and Sarin, P. S. (1986) Proc. Natl. Acad. Sci. U. S. A. 83, 4143-4146). We now report that antisense RNA, synthesized in vitro using T7 and SP6 RNA polymerase, displayed an anti-HIV-1 effect in the HTLV-IIIB/H9 system in vitro. Treatment of HIV-1-infected H9 cells with viral env region antisense RNA encapsulated in liposomes targeted by antibodies specific for the T cell receptor molecule CD3 almost completely inhibited HIV-1 production. The viral env segment covered a part of exon II of HIV-1 tat gene. No anti-HIV activity could be detected with similarly targeted liposome-encapsulated sense env RNA or with pol RNA synthesized in either the sense or antisense orientations, or with env region antisense RNA free in solution, or encapsulated in liposomes in the absence of the targeting antibody. A semiquantitative evaluation revealed that 4000-7000 RNA molecules became cell-bound in targeted liposomes; the half-life of the intracellularly present hybridizable antisense env RNA was approximately 12 h. Western blots showed that antisense env RNA suppressed tat gene expression by approximately 90% and gp160 production by 100%. These data were confirmed by immunoprecipitation studies. Northern blots (using an env probe) demonstrated the existence of all major HIV RNA species (9.3-, 4.3-, and 2.0-kb mRNA) in HIV-infected cells treated with antisense env RNA although at a reduced level. We conclude that the antisense env RNA inhibited viral protein production at the translational level.
The Prolonged Life-Span of Alveolar Macrophages (2008)

To further examine the half-life of alveolar macrophages, chimeric CD 45.2 mice were generated through bone marrow transplantation of donor CD 45.1 cells. Before administration of donor cells, recipient mice were divided into two cohorts: the first cohort received total body irradiation; the second cohort also received irradiation-however, the thorax, head, and upper extremities were shielded with lead. Flow cytometric analysis was then performed on blood, peritoneal, and bronchoalveolar lavage cells over time to quantify engraftment. The data generated for the unshielded cohort of mice revealed a macrophage half-life of 30 days. In the shielded cohort, however, we found that by 8 months there was negligible replacement of recipient alveolar macrophages by donor cells, despite reconstitution of the blood and peritoneum by donor bone marrow. Consistent with these findings, the mean fluorescent intensity of alveolar macrophages remained stable over a 4-week period after in vivo PKH26 dye loading. Together, these data show that previous alveolar macrophage half-life studies were confounded by the fact that they did not account for the toxic effects of irradiation conditioning regimens, and demonstrate that the bone marrow does not significantly contribute to the alveolar macrophage compartment during steady-state conditions.
An Antigen Capture Enzyme-Linked Immunosorbent Assay Reveals High Levels of the Dengue Virus Protein NS1 in the Sera of Infected Patients (2000)

We describe the development of a capture enzyme-linked immunosorbent assay for the detection of the dengue virus nonstructural protein NS1. The assay employs rabbit polyclonal and monoclonal antibodies as the capture and detection antibodies, respectively. Immunoaffinity-purified NS1 derived from dengue 2 virus-infected cells was used as a standard to establish a detection sensitivity of approximately 4 ng/ml for an assay employing monoclonal antibodies recognizing a dengue 2 serotype-specific epitope. A number of serotype cross-reactive monoclonal antibodies were also shown to be suitable probes for the detection of NS1 expressed by the remaining three dengue virus serotypes. Examination of clinical samples demonstrated that the assay was able to detect NS1 with minimal interference from serum components at the test dilutions routinely used, suggesting that it could form the basis of a useful additional diagnostic test for dengue virus infection. Furthermore, quantitation of NS1 levels in patient sera may prove to be a valuable surrogate marker for viremia. Surprisingly high levels of NS1, as much as 15 microg/ml, were found in acute-phase sera taken from some of the patients experiencing serologically confirmed dengue 2 virus secondary infections but was not detected in the convalescent sera of these patients. In contrast, NS1 could not be detected in either acute-phase or convalescent serum samples taken from patients with serologically confirmed primary infection. The presence of high levels of secreted NS1 in the sera of patients experiencing secondary dengue virus infections, and in the context of an anamnestic antibody response, suggests that NS1 may contribute significantly to the formation of the circulating immune complexes that are suspected to play an important role in the pathogenesis of severe dengue disease.
Reliable phenotyping of alpha‐1‐antitrypsin by hybrid isoelectric focusing in an ultranarrow immobilized pH gradient (1992)

Genetically determined phenotypes of the highly polymorphic human alpha 1-antitrypsin were examined by hybrid isoelectric focusing in a narrow immobilized pH gradient. The chosen pH range from 4.45 to 4.75 was useful for identification and classification of the common PI M subtypes and a number of PI variants in the microheterogeneous regions of m6, m7, and m8. A high degree of resolution and an improved sharpness of PI bands was achieved with this excellent technique. It allowed the distinction of a new PI M variant, which has been designated M8, or Mingolstadt, according to the PI nomenclature. The pI difference of this mutant to the slightly cathodically located subtype M3 is approximately 0.001 pH unit. In addition, some common as well as rare phenotypes are presented.
Site-directed conjugation of nonpeptide groups to peptides and proteins via periodate oxidation of a 2-amino alcohol. Application to modification at N-terminal serine (1992)

The 2-amino alcohol structure -CH(NH2)CH(OH)- exists in proteins and peptides in N-terminal Ser or Thr and in hydroxylysine. Its very rapid oxidation by periodate at pH 7 generates an aldehyde in the peptide and is the first step in a method for site-directed labeling with biotin or a fluorescent reporter. The modifying group is a hydrazide, RCONHNH2, which reacts with the new aldehyde to form a hydrazone-peptide conjugate, RCONHN = CH-peptide. Experiments with two synthetic peptides, Ser-Ile-Gly-Ser-Leu-Ala-Lys and Ser-Tyr-Ser-Met-Glu-His-Phe-Arg-Trp-Gly, and with recombinant murine interleukin-1 alpha (an 18-kDa cytokine with N-terminal Ser) demonstrated this method of peptide tagging. The use of a low molar ratio of periodate to peptide minimized the potential for side reactions during the oxidation, and the desired oxidation was rapid and highly specific. The hydrazones formed were stable at pH 6-8 for at least 12 h at 22 degrees C, but were labile at more acidic pH values. Potential uses of this method include the attachment of biotin, reporter groups, metal chelating groups, imaging agents, and cytotoxic drugs to peptides.
Azimuthal offset-dependent attributes applied to fracture detection in a carbonate reservoir (2002)

Abstract Offset-dependent attributes—amplitude versus offset (AVO) and frequency versus offset—are extracted from 2-D P-wave seismic data using the multiple signal classification technique. These attributes are used to detect fracture orientation in a carbonate reservoir located in the Maporal field in the Barinas basin of southwestern Venezuela. In the fracture normal direction, P-wave reflectivity is characterized by a large increase of amplitude with offset (large positive AVO gradient) and a large decrease of frequency with offset (large negative frequency versus offset gradient). In the fracture strike direction, P-wave reflectivity shows a scattered variation in AVO but a small variation in frequency with offset. Our results also show that the reservoir heterogeneity can lead to large variations of AVO signatures and that using azimuthal offset-dependent frequency attributes can help lessen the ambiguity when detecting fracture orientation.
Regulation of the steady state level of Fc gamma RI mRNA by IFN-gamma and dexamethasone in human monocytes, neutrophils, and U-937 cells. (1990)

The high affinity IgG FcR Fc gamma RI, CD64, plays important roles in the immune response. Fc gamma RI is predominantly expressed on monocytes and macrophages, and barely detectable on neutrophils. rIFN-gamma markedly increases the expression of Fc gamma RI on neutrophils, monocytes, macrophages and myeloid cell lines such as U-937, HL-60, and THP-1. Glucocorticoids inhibit the augmentation of Fc gamma RI expression by rIFN-gamma on neutrophils and myeloid cell lines, but enhance the augmentation of Fc gamma RI expression by rIFN-gamma on monocytes. In this study, we examined the effect of rIFN-gamma and dexamethasone (Dex) on the steady state level of Fc gamma RI mRNA in U-937 cells, neutrophils, and monocytes by hybridizing total RNA with the Fc gamma RI cDNA probe, p135. We found that the amount of Fc gamma RI mRNA increased within 1 h of treatment with rIFN-gamma in all three cell types. This initial induction of Fc gamma RI mRNA by rIFN-gamma was completely blocked by an inhibitor of RNA synthesis, actinomycin D, suggesting that the rIFN-gamma-mediated induction of Fc gamma RI mRNA is dependent on gene transcription. Dex, used in combination with rIFN-gamma, partially blocked the induction of Fc gamma RI mRNA by rIFN-gamma in U-937 cells and neutrophils, but caused a synergistic increase in Fc gamma RI mRNA levels in monocytes. The inhibitory effect of Dex on the steady state level of Fc gamma RI mRNA in U-937 cells was blocked by an inhibitor of protein synthesis, cycloheximide, suggesting that Dex-induced proteins were involved in the regulation of Fc gamma RI expression. This study indicates that the regulation of Fc gamma RI expression on U-937 cells, neutrophils, and monocytes by rIFN-gamma and Dex occurs, at least in part, at the mRNA level. rIFN-gamma increases the steady state level of Fc gamma RI mRNA through a common pathway among U-937 cells, neutrophils, and monocytes, whereas the effect of Dex on rIFN-gamma-induced Fc gamma RI mRNA is cell-type specific.
Serum levels of the angiogenic factor pleiotrophin in relation to disease stage in lung cancer patients (2002)

Pleiotrophin is a heparin-binding growth factor involved in the differentiation and proliferation of neuronal tissue during embryogenesis, and also secreted by melanoma and breast carcinoma cells. Pleiotrophin exhibits mitogenic and angiogenic properties and has been shown to influence the vascular supply, expansion and metastasis of tumour cells. Our aim was to study the serum and plasma concentrations of pleiotrophin and the classical angiogenic growth factor vascular endothelial growth factor. Using a specific ELISA-test we studied patients with small cell lung cancer (n=63), and patients with non-small cell lung cancer (n=22) in comparison to healthy control subjects (n=41). In most of the lung cancer patients (81%), we found serum levels of pleiotrophin above those of control subjects (P<0.001). Of the 63 small cell lung cancer patients in the study pleiotrophin serum levels were elevated in 55 cases (87%) and in 14 cases (63%) of the 22 non-small cell lung cancer patients. Pleiotrophin mean serum concentrations were 10.8-fold higher in the tumour patient group as compared to the control group (P<0.001). Furthermore, pleiotrophin serum levels correlated positively with the stage of disease and inversely with the response to therapy. Plasma vascular endothelial growth factor concentrations were elevated in only in 28.6% of small cell lung cancer and 45.5% of non-small cell lung cancer patients by an average of 2.3-fold. Quite strikingly, there was no apparent correlation between the plasma vascular endothelial growth factor concentration and the stage of disease. Our study suggests that pleiotrophin may be an early indicator of lung cancer and might be of use in monitoring the efficacy of therapy, which needs to be confirmed by larger studies.
Poxvirus-based vaccine candidates for cancer, AIDS, and other infectious diseases (1995)

Over the past 12 years, the poxvirus vector technology has provided scientists with valuable reagents to achieve high-level expression of proteins, to address questions of structure-function relationship of specific polypeptides, to investigate the immunobiology of specific pathogens, and to develop recombinant vaccine candidates. It is this last role that has drawn enthusiasm from the medical community because of the potential this technology has to provide novel approaches for addressing urgent needs in human and veterinary medicine. From one perspective, the safety issues surrounding the use of vaccinia-based vaccine candidates have been addressed with the development of the NYVAC and ALVAC vectors. Evaluation of these novel poxvirus vectors are in progress to determine their potential impact on cancer and infectious disease.
[Effect of enhancers on cutaneous permeation of piroxicam in vitro]. (1991)

Enhancing effects on the permeation of piroxicam (Pir) through excised hairless mouse (inbred HRS mice) skin were investigated by measuring flux. Azone 1% was found to be the most effective enhancer studied, increasing the flux about 21 times. The effect of Azone was enhanced by the presence of propylene glycol. Oleic acid, ethylacetate, and ethanol promoted the diffusion of Pir. Other enhancers, such as DMSO, PEG 400, acetone, urea and salicylic acid, showed little or no effect. Pir-beta-cyclodextrin inclusion compound increased the flux about 3 times. The results revealed that lipophilic enhancers were more effective than lipophobic ones.