gebhart/patrepeval huggingface dataset:
Genistein exerts multiple suppressive effects on human breast carcinoma cells. (1998)

Dietary genistein, a natural flavone compound found in soy, has been proposed to be responsible for the low rate of breast cancer in Asian women. The cellular mechanisms of genistein's chemopreventive effects in vio have been largely unexplored. In our previous studies, we found that genistein exerted pronounced antiproliferative effects on both estrogen receptor-positive and -negative human breast carcinoma cells through G2-M arrest, induction of p21WAF1/CIP1 expression, and apoptosis. Because chemopreventive effects need not be limited to antiproliferation, we decided to examine whether genistein exerted other suppressive effects on breast carcinoma progression. Genistein inhibited invasion in vitro of MCF-7 and MDA-MB-231 cells. This inhibition was characterized by down-regulation of MMP (matrix metalloproteinase)-9 and up-regulation of tissue inhibitor of metalloproteinase-1, the former of which was transcriptionally regulated at activation protein-1 sites in the MMP-9 promoter. Genistein's in vitro effects on MMP-9 and tissue inhibitor of metalloproteinase-1 were also demonstrated in in vivo studies in nude mouse xenografts of MDA-MB-231 and MCF-7 cells. In these xenograft studies, genistein inhibited tumor growth, stimulated apoptosis, and upregulated p21WAF1/CIP1 expression. In the MDA-MB-231 xenograft, genistein also inhibited angiogenesis by decreasing vessel density and decreasing the levels of vascular endothelial growth factor and transforming growth factor-beta1. These in vitro and in vivo studies demonstrate that genistein exerts multiple suppressive effects on breast carcinoma cells, suggesting that its mechanism of chemoprevention is pleiotropic.
Heteroepitaxy of Large-Misfit Systems: Role of Coincidence Lattice (2000)

We present a detailed study about the epitaxial growth of various modern materials systems with large lattice misfit to GaAs substrates. The epitaxial alignment during the initial stage of growth and the misfit accommodation process are determined by the particular interface structures which we have investigated by high-resolution transmission electron microscopy. The results are explained with an extended coincidence lattice model and its general applicability to heteroepitaxial growth of large-misfit systems is discussed.
Quantum-dot optical temperature probes (2003)

The steady-state photoluminescence (PL) properties of cadmium selenide quantum dots (QDs) with a zinc sulfide overlayer [(CdSe)ZnS] can be strongly dependent on temperature in the range from 100 to 315 K. The PL intensity from 50 to 55 Å (CdSe)ZnS QDs in poly(lauryl methacrylate) matrices increases by a factor of ∼5 when the temperature is decreased from 315 to 100 K, and the peak of the emission band is blueshifted by 20 nm over the same range. The change in PL intensity is appreciable, linear, and reversible (−1.3% per °C) for temperatures close to ambient conditions. These properties of (CdSe)ZnS dots are retained in a variety of matrices including polymer and sol–gel films, and they are independent of excitation wavelength above the band gap. The significant temperature dependence of the luminescence combined with its insensitivity to oxygen quenching establishes (CdSe)ZnS dots as optical temperature indicators for temperature-sensitive coatings.
Extension of Poroelastic Analysis to Double-Porosity Materials: New Technique in Microgeomechanics (2002)

Double-porosity materials were introduced as models for oil and gas reservoirs having both storage and transport porosities, and were at first usually treated as static mechanical systems in order to study the flow patterns of fluids during reservoir pump down. Because fluid withdrawal normally increases the effective stress acting on the reservoir, it also turns out to be important to study the geomechanics of the reservoir and how changing fluid pressure affects the solid compaction and fluid permeability of these systems. At the microscale, the mechanical properties of the solid constituents and their distribution in space determine the overall macromechanics of the reservoir system. For systems containing two porosities and two types of solid constituents, exact results for all but one (which may be taken as the overall drained bulk modulus of the system) of the mechanical constants can be derived when the constitutents’ properties are known using methods developed in this paper. For multiporosity systems, closure of the system of equations remains an open question, although it is clear that the system can always be closed by the addition of further macroscale measurements.
Cutting Edge: Allogeneic CD4+CD25+Foxp3+ T Regulatory Cells Suppress Autoimmunity while Establishing Transplantation Tolerance (2006)

An important unresolved question with regard to T regulatory (Treg) cell specificity and suppressive activity is whether allogeneic Treg cells inhibit self-reactive T cells. In the present study, this issue was addressed using IL-2Rbeta-deficient mice that develop rapid lethal autoimmunity due to impaired production of Treg cells. We show that adoptive transfer of completely MHC-mismatched Treg cells into IL-2Rbeta(-/-) mice resulted in life-long engraftment of the donor cells, which exhibited skewed reactivity toward host alloantigens, and prevented autoimmunity. Thus, Treg cells that underwent thymic selection by peptide/MHC class II complexes distinct from those recognized by autoreactive T cells, still effectively suppress autoimmunity. Remarkably, when such animals were skin grafted, they exhibited dominant tolerance to those grafts bearing MHC molecules that were shared with donor Treg cells. Collectively, these data demonstrate that effective engraftment by allogeneic Treg cells controls autoimmunity and results in permissive conditions for long-term acceptance of allografts.
Successful use of fibrin glue during 2 years of surgery at a university medical center. (1989)

A method for producing concentrated fibrinogen, an essential component of fibrin glue, from individually stored, single-donor units of human plasma is reported. The plasma is screened for hepatitis B antigen and HIV-1 virus to reduce the risk of transmission of hepatitis and acquired immunodeficiency syndrome (AIDS). This material is routinely stocked in some operating rooms. It is thus readily available when requested by a surgeon for use in combination with topical bovine thrombin to produce fibrin glue. From April 1985 to March 1987 this material was used by surgeons from eight different surgical specialties on 413 patients with a 91 per cent success rate (376/413). Uses have included sealing vascular suture lines, reinforcing pulmonary and esophageal staple lines, closing dural cerebrospinal fluid leaks, fixing split-thickness skin grafts, reducing lymphatic leakage, and controlling bone bleeding. Additional uses include closure of bronchopleural fistulas by means of the flexible bronchoscope, reduction of perioperative hemorrhage by spraying fibrin glue on the anterior mediastinum during cardiac surgery, and reduction of bleeding during debridement of burn eschars. Careful monitoring and patient follow-up detected no cases of transmission of blood-borne diseases. Only one complication, a local wound infection, has been documented. This material has been an important adjunct for the surgical services and may be safely used at hospitals with local blood bank facilities.
Morphological Filter Mean-Absolute-Error Representation Theorems and Their Application to Optimal Morphological Filter Design (1993)

The present thesis derives error representations and develops design methodologies for optimal mean-absolute-error (MAE) morphological-based filters. Four related morphological-based filter-types are treated. Three are translation-invariant, monotonically increasing operators, and our analysis is based on the Matheron (1975) representation. In this class we analyze conventional binary, conventional gray-scale, and computational morphological filters. The fourth filter class examined is that of binary translation invariant operators. Our analysis is based on the Banon and Barrera (1991) representation and hit-or-miss operator of Serra (1982). A starting point will be the optimal morphological filter paradigm of Dougherty (1992a,b) whose analysis de scribes the optimal filter by a system of nonlinear inequalities with no known method of solution, and thus reduces filter design to minimal search strategies. Although the search analysis is definitive, practical filter design remained elu sive because the search space can be prohibitively large if it not mitigated in some way. The present thesis extends from Dougherty's starting point in several ways. Central to the thesis is the MAE analysis for the various filter settings, where in each case, a theorem is derived that expresses overall filter MAE as a sum of MAE values of individual structuring-element filters and MAE of combinations of unions (maxima) of those elements. Recursive forms of the theorems can be employed in a computer algorithm to rapidly evaluate combinations of structuring elements and search for an optimal filter basis. Although the MAE theorems provide a rapid means for examining the filter design space, the combinatoric nature of this space is, in general, too large for a exhaustive search. Another key contribution of this thesis concerns mitigation of the computational burden via design constraints. The resulting constrained filter will be suboptimal, but, if the constraints are imposed in a suitable man ner, there is little loss of filter performance in return for design tractability. Three constraint approaches developed here are (1) limiting the number of terms in the filter expansion, (2) constraining the observation window, and (3) employing structuring element libraries from which to search for an optimal basis. Another contribution of this thesis concerns the application of optimal morphological filters to image restoration. Statistical and deterministic image and degradation models for binary and low-level gray images were developed here that relate to actual problems in the optical character recognition and electronic printing fields. In the filter design process, these models are employed to generate realizations, from which we extract single-erosion and single-hit-or-miss MAE statistics. These realization-based statistics are utilized in the search for the optimal combination of structuring elements.
Expression of melanoma‐associated antigens in oral squamous cell carcinoma (2007)

Multiple simultaneous detection of MAGE-A1-A6 and A12 expression has been found to be more specific and sensitive than the detection of single MAGE-A antigen for the diagnostic and prognostic evaluation of OSCC. In addition, monitoring the expression of several MAGE-A subtypes may determine suitable immunotherapeutic targets. Subsequently, coexpressed genes may be warranted for developing polyvalent vaccines.
Association of antibodies to Plasmodium falciparum reticulocyte binding protein homolog 5 with protection from clinical malaria (2014)

Emerging evidence suggests that antibodies against merozoite proteins involved in Plasmodium falciparum invasion into the red blood cell (RBC) play an important role in clinical immunity to malaria. The protein family of parasite antigens known as P. falciparum reticulocyte binding protein-like homolog (PfRh) is required for RBC invasion. PfRh5 is the only member within the PfRh family that cannot be genetically deleted, suggesting it plays an essential role in parasite survival. This antigen forms a complex with the cysteine-rich P. falciparum Rh5 interacting protein (PfRipr), on the merozoite surface during RBC invasion. The PfRh5 ectodomain sequence and a C-terminal fragment of PfRipr were cloned and expressed in Escherichia coli and baculovirus-infected cells, respectively. Immunization of rabbits with these recombinant proteins induced antibodies able to inhibit growth of various P. falciparum strains. Antibody responses to these proteins were investigated in a treatment-re-infection study conducted in an endemic area of Papua New Guinea (PNG) to determine their contribution to naturally acquired immunity. Antibody titers to PfRh5 but not PfRipr showed strong association with protection against P. falciparum clinical episodes. When associations with time-to-first infection were analyzed, high antibody levels against PfRh5 were also found to be associated with protection from high-density infections but not from re-infection. Together these results indicate that PfRh5 is an important target of protective immunity and constitutes a promising vaccine candidate.
Open source all-iron battery for renewable energy storage (2019)

The price of renewable energy is dropping rapidly. Energy storage will be needed to take full advantage of abundant but intermittent energy sources. Even with economies of scale, the price is prohibitively high for a lithium-ion battery pack capable of storing tens of kilowatts of energy for many consumers. A more abundant and less expensive material is necessary. All-iron chemistry presents a transformative opportunity for stationary energy storage: it is simple, cheap, abundant, and safe. All-iron batteries can store energy by reducing iron (II) to metallic iron at the anode and oxidizing iron (II) to iron (III) at the cathode. The total cell is highly stable, efficient, non-toxic, and safe. The total cost of materials is $0.1 per watt-hour of capacity at wholesale prices. This battery may be a useful component of open source hardware projects that require a safe and ecologically friendly battery. This is also one of the few battery chemistries that can be built safely in a DIY setting.
Conjugation of Mannose 6-Phosphate-containing Oligosaccharides to Acid α-Glucosidase Improves the Clearance of Glycogen in Pompe Mice (2004)

Clinical studies of enzyme replacement therapy for Pompe disease have indicated that relatively high doses of recombinant human acid alpha-glucosidase (rhGAA) may be required to reduce the abnormal glycogen storage in cardiac and skeletal muscles. This may be because of inefficient cation-independent mannose 6-phosphate receptor (CI-MPR)-mediated endocytosis of the enzyme by the affected target cells. To address this possibility, we examined whether the addition of a high affinity ligand to rhGAA would improve its delivery to these cells. Chemical conjugation of high mannose oligosaccharides harboring mono- and bisphosphorylated mannose 6-phosphates onto rhGAA (neo-rhGAA) significantly improved its uptake characteristics by muscle cells in vitro. Infusion of neo-rhGAA into Pompe mice also resulted in greater delivery of the enzyme to muscle tissues when compared with the unmodified enzyme. Importantly, this increase in enzyme levels was associated with significantly improved clearance of glycogen ( approximately 5-fold) from the affected tissues. These results suggest that CI-MPR-mediated endocytosis of rhGAA is an important pathway by which the enzyme is delivered to the affected lysosomes of Pompe muscle cells. Hence, the generation of rhGAA containing high affinity ligands for the CI-MPR represents a strategy by which the potency of rhGAA and therefore the clinical efficacy of enzyme replacement therapy for Pompe disease may be improved.
Rapid fluorescence imaging of spinal cord following epidural administration of a nerve-highlighting fluorophore (2017)

Iatrogenic spinal cord injury (SCI) is the most devastating complication of spine surgery, which usually results in permanent and serious disabilities of patients. Improvement of the visualization and discrimination of the spinal cord is critical for accuracy and safety during surgery; however, to date, there is no suitable technology to fulfill this clinical need. Here, we first show an efficient and rapid fluorescence imaging of the spinal cord in rabbit by epidural administration of a nerve-highlighting fluorophore, <i>i.e.</i> (<i>E, E</i>)-1,4-bis(<i>p</i>-aminostryl)-2-methoxy benzene (BMB). The BMB is firstly encapsulated into polymeric micelles to form a BMB-micelle (BMB-m) formulation with well-dispersion in normal saline solution. After epidural administration of BMB-m, BMB is transported by the flow of cerebrospinal fluid (CSF) and binds to the peripheral region of the white matter thus facilitating rapid staining of the spinal cord. Furthermore, this BMB imaging technology also holds great potential for visually monitoring the integrity of the spinal cord in real time and promptly identifying acute SCI during spine surgery.
Targeting the type 1 insulin-like growth factor receptor as anti-cancer treatment (2003)

The type 1 insulin-like growth factor receptor (IGF1R) is overexpressed by many tumors, and mediates growth, motility and protection from apoptosis. Inhibition of IGF1R expression or function has been shown to block tumor growth and metastasis, and enhance sensitivity to cytotoxic drugs and irradiation. Thus the IGF1R is a highly promising anti-cancer treatment target. This review describes approaches to target the IGF1R using antibodies, small molecule inhibitors of the IGF1R tyrosine kinase, and molecular agents such as antisense and small interfering RNAs. Problems for the clinical introduction of this approach may include toxicity due to normal tissue IGF1R expression and cross-reactivity with the insulin receptor. The next few years will see clinical trials of IGF1R targeting, which offers genuine potential to inhibit tumor growth and chemoresistance in patients with cancer.
(S)-5-Oxo-N-phenylpyrrolidine-2-carboxamide (2011)

The title compound, C(11)H(12)N(2)O(2), shows an S configuration, in which the pyrrolidinone ring is twisted with respect to the phenyl plane, making a dihedral angle of 70.73 (7)°. In the crystal, mol-ecules are linked by N-H⋯O hydrogen bonds, building up a layer parallel to (001).
The influence of clinical and demographic risk factors on the establishment of head and neck squamous cell carcinoma cell lines (2006)

The purpose of this study was to generate stable cell cultures from head and neck squamous cell carcinomas (HNSCC), and retrospectively analyze the factors associated with successful cell line establishment. Fifty-two HNSCC cell lines were isolated from a series of 199 tumors collected between 1992 and 1997 at the University of Pittsburgh Medical Center. Cell lines were characterized at the molecular and cellular level to determine the features associated with cell line formation. Successful cell line formation was dependent on multiple factors, including gene amplification involving chromosomal band 11q13, local and/or regional involvement of lymph nodes, and alcohol usage. The establishment of HNSCC cell lines enriches the resources available for cancer research. Our findings indicate that generation of stable cell lines from HNSCC is biased towards tumors with a poor prognosis. Our 52 stable lines comprise one of the largest series of HNSCC cell lines in the literature, with complete demographic, histopathologic, clinical, and survival data.
Digital Predistortion for Hybrid MIMO Transmitters (2018)

This paper investigates digital predistortion (DPD) linearization of hybrid beamforming large-scale antenna transmitters. We propose a novel DPD processing and learning technique for an antenna subarray, which utilizes a combined signal of the individual power amplifier (PA) outputs in conjunction with a decorrelation-based learning rule. In effect, the proposed approach results in minimizing the nonlinear distortions in the direction of the intended receiver. This feature is highly desirable, since emissions in other directions are naturally weak due to beamforming. The proposed parameter learning technique requires only a single observation receiver, and therefore supports simple hardware implementation. It is also shown to clearly outperform the current state-of-the-art technique that utilizes only a single PA for learning. Analysis of the feedback network amplitude and phase imbalances reveals that the technique is robust even to high levels of such imbalances. Finally, we also show that the array system out-of-band emissions are well-behaving in all spatial directions, and essentially below those of the corresponding single-antenna transmitter, due to the combined effects of the DPD and beamforming.
Secondary structure and biophysical activity of synthetic analogues of the pulmonary surfactant polypeptide SP-C (1995)

Native pulmonary-surfactant-associated lipopolypeptide SP-C, its chemically depalmitoylated form and several synthetic analogues lacking the palmitoylcysteine residues were analysed for secondary structure in phospholipid micelles and for biophysical activity in 1,2-dipalmitoyl-sn-glycero-3- phosphocholine/phosphatidylglycerol/palmitic acid (68:22:9, by wt.). Compared with the native molecule, with the entire poly-valyl part in a known alpha-helical conformation, depalmitoylated SP-C was found to be still mainly alpha-helical, but with an approx. 20% decrease in the helical content. A synthetic hybrid polypeptide where the entire poly-valyl alpha-helical part of native SP-C had been replaced with the amino acid sequence of a transmembrane helix of bacteriorhodopsin is also predominantly alpha-helical. In contrast, synthetic SP-C analogues lacking only the palmitoyl groups, by replacement of the palmitoylcysteine residues with cysteine, phenylalanine or serine, or lacking the positively charged amino acids by replacement with alanine, are considerably less alpha-helical than both native and depalmitoylated SP-C. The data indicate that the SP-C palmitoyl groups are important for maintenance of the alpha-helical conformation in parts of the polypeptide, and that the poly-valyl alpha-helical conformation is not fully formed in synthetic SP-C polypeptides. Furthermore, the helical structure of both native and depalmitoylated SP-C in dodecylphosphocholine micelles is very resistant to thermal denaturation, exhibiting ordered structure at 90 degrees C. The alpha-helical content grossly parallels the peptide-induced acceleration of the spreading of phospholipids at an air/water interface and the increase of surface pressure. The data suggest that the alpha-helical conformation itself, rather than just the covalent structure, is of prime importance for the biological function of synthetic pulmonary-surfactant peptides.
The Detection of Danazol and Its Significance in Doping Analysis (1992)

The use of anabolic steroids and related compounds in sport is forbidden by the International Olympic Committee (IOC). Because danazol (17 alpha-pregna-2,4-dien-20-yno[2,3-D] isoxazol-17 beta-ol) is structurally related to the anabolic steroid stanozolol, its use should be questioned. Therefore, the detection and the significance of danazol in doping analysis are discussed. A urine specimen suspected of containing danazol metabolites was analyzed in order to characterize the metabolites. After isolation and conversion into three different derivatives, the metabolites were subjected to gas chromatography/mass spectrometry (GC/MS) in the electron impact (EI) mode. The structure assignment was based on the molecular ions, fragmentation patterns observed for the three different derivatives, and the possible metabolite structures given in the literature. Ethisterone was identified as a nonconjugated metabolite. 2-Hydroxymethylethisterone was observed in two stereoisomeric forms. One stereoisomer was found mainly in the nonconjugated steroid fraction and the other in the conjugated fraction. The results were confirmed by analyzing urine specimens of a volunteer who was known to have taken danazol. Derivatization methods and GC/MS data are given to implement danazol detection in routine screening and confirmation procedures.