gebhart/patrepeval huggingface dataset:
Overcoming the spin-multiplicity limit of entropy by means of lattice degrees of freedom: A minimal model (2011)

The discovery of the giant magnetocaloric effect with isothermal field-induced entropy change beyond the spin-multiplicity limit gave rise to some indistinctness in the literature regarding the applicability of fundamental thermodynamics in data analysis. Those misleading interpretations concerning, for instance, the rigorousness of phenomenological thermodynamics are clarified here. Specifically, it is shown that the Maxwell relation incorporates contributions from the spin degrees of freedom and potential lattice degrees of freedom into the isothermal entropy change. A minimalist model involving pairs of exchange-coupled, mobile Ising spins is investigated. It is explicitly shown that lattice degrees of freedom can be activated via applied magnetic fields and the integrated Maxwell relation contains this lattice contribution. A simple and intuitive analytic expression for the isothermal entropy change in the presence of field-activated lattice degrees of freedom is provided.
Mitochondrial Genetics: A Paradigm for Aging and Degenerative Diseases? (1992)

Studies of diseases caused by mitochondrial DNA mutations suggest that a variety of degenerative processes may be associated with defects in oxidative phosphorylation (OXPHOS). Application of this hypothesis has provided new insights into such diverse clinical problems as ischemic heart disease, late-onset diabetes, Parkinson's disease, Alzheimer's disease, and aging.
Iron deficiency: A concise review (2005)

Iron deficiency is a major worldwide health problem. There is recent evidence that the anemia is only the last manifestation of the syndrome and that symptoms occur before the anemia is manifest. Advances in outlining the physiology of iron deficiency have been made, gaps remain in the current understanding. While oral iron supplement remains the mainstay, some indications for the intravenous administration have developed. This review will highlight the epidemiology, physiology, clinical presentation, and treatment options.
Excitation and emission spectra of fluorescein dye in the human ocular fundus. (1975)

The excitation and emission spectra of fluorescein dye were determined during angiography from different sites in the human ocular fundus. All spectra were markedly shifted toward longer wavelengths relative to the spectra of fluorescein in aqueous solution. This effect is most pronounced for the macular area; however, it decreases for the choroidal background and even more for the retinal vessels. The results are relevant to the selection of optical filter combinations for fluorescein angiography.
Use of the stromal cell-derived factor-1/CXCR4 pathway in prostate cancer metastasis to bone. (2002)

Neoplasms have a striking tendency to metastasize or "home" to bone. Hematopoietic cells also home to bone during embryonic development, where evidence points to the chemokine stromal cell-derived factor-1 (SDF-1 or CXCL12; expressed by osteoblasts and endothelial cells) and its receptor (CXCR4) as key elements in these processes. We hypothesized that metastatic prostate carcinomas also use the SDF-1/CXCR4 pathway to localize to the bone. To test this, levels of CXCR4 expression were determined for several human prostate cancer cell lines by reverse transcription-PCR and Western blotting. Positive results were obtained for cell lines derived from malignancies that had spread to bone and marrow. Prostate cancer cells were also observed migrating across bone marrow endothelial cell monolayers in response to SDF-1. In in vitro adhesion assays, pretreatment of the prostate cancer cells with SDF-1 significantly increased their adhesion to osteosarcomas and endothelial cell lines in a dose-dependent manner. Invasion of the cancer cell lines through basement membranes was also supported by SDF-1 and inhibited by antibody to CXCR4. Collectively, these results suggest that prostate cancers and perhaps other neoplasms may use the SDF-1/CXCR4 pathway to spread to bone.
HMGB1 Protein Does Not Mediate the Inflammatory Response in Spontaneous Spinal Cord Regeneration (2013)

Uncontrolled, excessive inflammation contributes to the secondary tissue damage of traumatic spinal cord, and HMGB1 is highlighted for initiation of a vicious self-propagating inflammatory circle by release from necrotic cells or immune cells. Several regenerative-competent vertebrates have evolved to circumvent the second damages during the spontaneous spinal cord regeneration with an unknown HMGB1 regulatory mechanism. By genomic surveys, we have revealed that two paralogs of HMGB1 are broadly retained from fish in the phylogeny. However, their spatial-temporal expression and effects, as shown in lowest amniote gecko, were tightly controlled in order that limited inflammation was produced in spontaneous regeneration. Two paralogs from gecko HMGB1 (gHMGB1) yielded distinct injury and infectious responses, with gHMGB1b significantly up-regulated in the injured cord. The intracellular gHMGB1b induced less release of inflammatory cytokines than gHMGB1a in macrophages, and the effects could be shifted by exchanging one amino acid in the inflammatory domain. Both intracellular proteins were able to mediate neuronal programmed apoptosis, which has been indicated to produce negligible inflammatory responses. In vivo studies demonstrated that the extracellular proteins could not trigger a cascade of the inflammatory cytokines in the injured spinal cord. Signal transduction analysis found that gHMGB1 proteins could not bind with cell surface receptors TLR2 and TLR4 to activate inflammatory signaling pathway. However, they were able to interact with the receptor for advanced glycation end products to potentiate oligodendrocyte migration by activation of both NFκB and Rac1/Cdc42 signaling. Our results reveal that HMGB1 does not mediate the inflammatory response in spontaneous spinal cord regeneration, but it promotes CNS regeneration.
Prothrombin-membrane interaction. Effects of ionic strength, pH, and temperature (1980)

The effects of ionic strength, pH, and temperature on three separate aspects of prothrombin-phospholipid membrane binding were studied. The three parameters include a calcium-dependent protein transition, a calcium-membrane interation, and, finally, the binding of calcium-saturated protein to a calcium-saturated phospholipid membrane. The results are consistent with calcium binding to carbonyl groups in the protein and to phosphate in the phospholipids. These interactions show the expected pH profiles and sensitivity to ionic strength. Temperature effects indicate a small negative enthalpy change for each process. The binding of calcium-saturated protein to calcium-saturated membrane shows very little variation between pH 6 and pH 9, is accompanied by no detected enthalpy change, and is relatively insensitive to ionic strength. These latter results indicate that ionic calcium bridging between the protein and membrane is not important. A chelation model for prothrombin-membrane binding is proposed where the two interacting species have no net charge; ligands on the protein complete the coordination sphere of membrane-bound calcium and vice versa.
Induction of anti-tumor immunity by trifunctional antibodies in patients with peritoneal carcinomatosis (2009)

Peritoneal carcinomatosis (PC) from epithelial tumors is a fatal diagnosis without efficient treatment. Trifunctional antibodies (trAb) are novel therapeutic approaches leading to a concerted anti-tumor activity resulting in tumor cell destruction. In addition, preclinical data in mouse tumor models demonstrated the induction of long lasting tumor immunity after treatment with trAb. We describe the induction of anti-tumor specific T-lymphocytes after intraperitoneal administration of trAb in patients with PC.9 patients with progressive PC from gastric (n = 6) and ovarian cancer (n = 2), and cancer of unknown primary (n = 1) received 3 escalating doses of trAb after surgery and/or ineffective chemotherapy. The trAb EpCAM x CD3 (10, 20, 40 microg) or HER2/neu x CD3 (10, 40, 80 microg) were applicated by intraperitoneal infusion. Four weeks after the last trAb application, all patients were restimulated by subdermal injection of trAb + autologous PBMC + irradiated autologous tumor cells. Immunological reactivity was tested by analyzing PBMC for specific tumor reactive CD4+/CD8+ T lymphocytes using an IFN-gamma secretion assay.In 5 of 9 patients, tumor reactive CD4+/CD8+ T-lymphocytes increased significantly, indicating specific anti-tumor immunity. A clinical response (stable disease, partial regression) has been observed in 5 of 9 patients, with a mean time to progression of 3.6 months. Follow-up showed a mean survival of 11.8 months (median 8.0 months) after trAb therapy.TrAb are able to induce anti-tumor immunity after intraperitoneal application and restimulation. The induction of long-lasting anti-tumor immunity may provide an additional benefit of the intraperitoneal therapy with trAb and should be further elevated in larger clinical trials.
Distributed Beamforming in a Swarm UAV Network (2008)

The use of wireless communication techniques and network centric topologies with unmanned aerial vehicles (UAV) within modern warfare concepts makes it possible to utilize new distributed beamforming applications. The objective of this research is to combine the concept of wireless beamforming in opportunistic random arrays with the concept of swarm UAVs. A considerable amount of research has already been done about the feasibility and advantages of opportunistic arrays for a single platform. Distributed beamforming techniques are widely applied by many researchers. The use of swarm UAV concepts for a widely dispersed wirelessly networked opportunistic array may anticipate many advantages over single platform-borne opportunistic arrays. Major challenges are synchronization and localization, which are caused by the mobile structure of the proposed network topology. Possible solutions to these problems are proposed. In this thesis the use of swarm UAVs for jamming is analyzed. Closed form expressions for jamming power versus the number of UAVs, ranges, degree of transmitter coherence, and quality of beamforming are derived. It was found that even for low quality beamforming (large phase errors, or poor synchronization) significant improvements in system performance is still achievable.
What accounts for the difference between observed and predicted?* (2006)

University of Virginia, Charlottesville, VA Dr. Wagner was the primary statistician on the development of APACHE from 1979 to 1996. He was a founder and stockholder of APACHE Medical Systems. Since 2002 he has had no financial connection to APACHE or Cerner Corp.
Heart Rate Recovery and Treadmill Exercise Score as Predictors of Mortality in Patients Referred for Exercise ECG (2000)

In this cohort of patients referred specifically for exercise electrocardiography, both abnormal heart rate recovery and treadmill exercise score were independent predictors of mortality. Heart rate recovery appears to provide additional prognostic information to the established treadmill exercise score and should be considered for routine incorporation into exercise test interpretation. JAMA. 2000;284:1392-1398.
Recognition of virus infected cells by NK cells (2004)

NK cells show cytotoxicity against virus-infected cells and tumor cells and play an important role in host defense. Although mecheanism of target cell recognition by NK cells have been unclear for a long time, it has recently been elucidated that certain NK cell receptors specifically recognize virus products. Furthermore, expression pattern of NK cell receptors, which consist of activating and inhibitory receptors, determines susceptibility to virus-infection. Here, we review recent progress of mechanism of recognition of virus-infected by NK cells.
Creating Three‐Dimensional Polymeric Microstructures by Multi‐Beam Interference Lithography (2005)

It is attractive to produce true three‐dimensional (3D) microstructures both rapidly and economically over a large area with negligible defects for a wide range of applications. Multi‐beam interference lithography is one of the promising techniques that can create periodic microstructures in polymers without extensive lithography and etching steps. This review discusses the formation of interference patterns, their dependence on beam parameters, the lithographic process, and the applications to the formation of photonic crystals. Various photoresist systems, including thick films of negative‐tone and positive‐tone photoresists, liquid resins, organic‐inorganic hybrids, and holographic polymer‐dispersed liquid crystals, are also reviewed.
Cloning and expression of cDNA coding for the major house dust mite allergen Der f II in Escherichia coli. (1991)

A cDNA library corresponding to mite protein was screened using anti-Der f II, a major allergen from the house dust mite Dermatophagoides farinae, antibody. Three possible clones were obtained that contained cDNA fragments coding for Der f II, and the nucleotide sequences of the fragments were determined. There were minor differences observed affecting the deduced amino acid sequence among the three cDNA fragments. The amino acid sequence of the purified native Der f II protein could be analyzed to 45 residues from the N-terminus. As a result of comparison, all the three cDNA fragments code for a mature protein with a derived molecular weight of about 14, 000. The amino acid sequence was not homologous to any known protein sequences and it contained six cysteine residues and no N-glycosylation sites.
Modeling therapeutic strategies in rheumatoid arthritis: use of decision analysis and Markov models. (2000)

Treatment strategies in RA are difficult to model because of uncertainty in both the structure of the model and the data needed to perform the analysis. These models tend to overestimate the effectiveness of drug sequences because of nonindependence between therapies, probably due to sequence effects, a change in responsiveness over time, or resistant subgroups. Our preliminary analysis suggests that the most effective agent, possibly methotrexate, should be used first if the objective is to get as many patients into remission as quickly as possible.
Leukotriene B4, an activation product of mast cells, is a chemoattractant for their progenitors (2005)

Mast cells are tissue-resident cells with important functions in allergy and inflammation. Pluripotential hematopoietic stem cells in the bone marrow give rise to committed mast cell progenitors that transit via the blood to tissues throughout the body, where they mature. Knowledge is limited about the factors that release mast cell progenitors from the bone marrow or recruit them to remote tissues. Mouse femoral bone marrow cells were cultured with IL-3 for 2 wk and a range of chemotactic agents were tested on the c-kit(+) population. Cells were remarkably refractory and no chemotaxis was induced by any chemokines tested. However, supernatants from activated mature mast cells induced pronounced chemotaxis, with the active principle identified as leukotriene (LT) B(4). Other activation products were inactive. LTB(4) was highly chemotactic for 2-wk-old cells, but not mature cells, correlating with a loss of mRNA for the LTB(4) receptor, BLT1. Immature cells also accumulated in vivo in response to intradermally injected LTB(4). Furthermore, LTB(4) was highly potent in attracting mast cell progenitors from freshly isolated bone marrow cell suspensions. Finally, LTB(4) was a potent chemoattractant for human cord blood-derived immature, but not mature, mast cells. These results suggest an autocrine role for LTB(4) in regulating tissue mast cell numbers.
Synthesis of phosphorothioamidites derived from 3'-thio-3'-deoxythymidine and 3'-thio-2',3'-dideoxycytidine and the automated synthesis of oligodeoxynucleotides containing a 3'-S-phosphorothiolate linkage (2004)

The synthesis of N4-benzoyl-5'-O-dimethoxytrityl-2',3'-dideoxy-3'-thiocytidine and its phosphorothioamidite is described for the first time, together with a shortened procedure for the preparation of 5'-O-dimethoxytrityl-3'-deoxy-3'-thiothymidine and its corresponding phosphorothioamidite. The first fully automated coupling procedure for the incorporation of a phosphorothioamidite into a synthetic oligodeoxynucleotide has been developed, which conveniently uses routine activators and reagents. Coupling yields using this protocol were in the range of 85-90% and good yields of singularly modified oligonucleotides were obtained. Coupling yields were also equally good when performed on either a 0.2 or 1 micro mol reaction column, thus facilitating large scale syntheses required for mechanistic studies.
High-Power fiber amplifier with widely tunable repetition rate, fixed pulse duration, and multiple output wavelengths (2006)

We report a pulsed, fiber-amplified microchip laser providing widely tunable repetition rate (7.1 - 27 kHz) with constant pulse duration (1.0 ns), pulse energy up to 0.41 mJ, linear output polarization, diffraction-limited beam quality (M(2) < 1.2), and < 1% pulse-energy fluctuations. The pulse duration was shown to minimize nonlinear effects that cause temporal and spectral distortion of the amplified pulses. This source employs passive Q-switching, single-stage single-pass amplification, and cw pumping, thus offering high efficiency, simplicity, and compact, rugged packaging for use in practical applications. The high peak power and high beam quality make this system an ideal pump source for nonlinear frequency conversion, and we demonstrated efficient harmonic generation and optical parametric generation of wavelengths from 213 nm to 4.4 mum with Watt-level output powers.
High brightness AlGaInP light-emitting diodes (2002)

This paper reviews the recent progress of AlGaInP high brightness light-emitting diodes. After the discussion of some basic material properties and the general problem of light extraction we will discuss several approaches of high efficiency devices.
Characterization of structural and folding properties of streptokinase by n.m.r. spectroscopy (1993)

The structure and physical properties of the fibrinolytic protein streptokinase have been investigated by 1H-n.m.r. spectroscopy. Well-resolved one- and two-dimensional spectra have been obtained for this molecule of molecular mass 47 kDa. Titration of all nine histidine residues has shown that these display a range of pKa values, between 5.6 and 8.2, revealing a variety of environments for these residues in the protein structure. Although at least eight histidine residues can be reversibly modified by diethylpyrocarbonate, only one is sufficiently exposed to be reactive towards photo-excited dye in chemically induced dynamical nuclear polarization spectroscopy experiments. Unfolding studies have been performed by thermal and chemical means. Evidence is presented here for several distinct unfolding transitions suggesting that the protein consists of at least three domains which have independent stability, and that the protein can exist in a number of partially folded states. For one of these, that formed in 2 M guanidine hydrochloride, it has been shown that the N-terminal region of the molecule is extensively unfolded, while other regions of the protein remain in native-like folded states.
Dislocation reduction in GaN thin films via lateral overgrowth from trenches (1999)

A technology to reduce the dislocation density in GaN thin films by lateral overgrowth from trenches (LOFT) is reported. In LOFT, a GaN thin film was grown on sapphire substrate first, then trenches were formed into the thin film by etching. GaN material was regrown laterally from the trench sidewalls to form a continuous thin film. The average surface density of threading dislocations is reduced from 8×109/cm2 in the first GaN thin film to 6×107/cm2 in the regrown GaN thin film.
National survey of head and neck verrucous carcinoma (2001)

Demographic differences implicate different mechanisms of carcinogenesis for verrucous carcinoma arising in the oral cavity and the larynx. Although selection bias may account for the differences observed, patients receiving initial treatment with surgery had better survival than those treated with irradiation, especially for cases originating in the oral cavity.
Promotion of agonist activity of antiandrogens by the androgen receptor coactivator, ARA70, in human prostate cancer DU145 cells (1998)

Although hormone therapy with antiandrogens has been widely used for the treatment of prostate cancer, some antiandrogens may act as androgen receptor (AR) agonists that may result in antiandrogen withdrawal syndrome. The molecular mechanism of this agonist response, however, remains unclear. Using mammalian two-hybrid assay, we report that antiandrogens, hydroxyflutamide, bicalutamide (casodex), cyproterone acetate, and RU58841, and other compounds such as genistein and RU486, can promote the interaction between AR and its coactivator, ARA70, in a dose-dependent manner. The chloramphenicol acetyltransferase assay further demonstrates that these antiandrogens and related compounds significantly enhance the AR transcriptional activity by cotransfection of AR and ARA70 in a 1:3 ratio into human prostate cancer DU145 cells. Our results suggest that the agonist activity of antiandrogens might occur with the proper interaction of AR and ARA70 in DU145 cells. These findings may provide a good model to develop better antiandrogens without agonist activity.
Self-complementary adeno-associated virus vectors containing a novel liver-specific human factor IX expression cassette enable highly efficient transduction of murine and nonhuman primate liver (2005)

Transduction with recombinant adeno-associated virus (AAV) vectors is limited by the need to convert its single-stranded (ss) genome to transcriptionally active double-stranded (ds) forms. For AAV-mediated hemophilia B (HB) gene therapy, we have overcome this obstacle by constructing a liver-restricted mini-human factor IX (hFIX) expression cassette that can be packaged as complementary dimers within individual AAV particles. Molecular analysis of murine liver transduced with these self-complementary (sc) vectors demonstrated rapid formation of active ds-linear genomes that persisted stably as concatamers or monomeric circles. This unique property resulted in a 20-fold improvement in hFIX expression in mice over comparable ssAAV vectors. Administration of only 1 x 10(10) scAAV particles led to expression of hFIX at supraphysiologic levels (8I U/mL) and correction of the bleeding diathesis in FIX knock-out mice. Of importance, therapeutic levels of hFIX (3%-30% of normal) were achieved in nonhuman primates using a significantly lower dose of scAAV than required with ssAAV. Furthermore, AAV5-pseudotyped scAAV vectors mediated successful transduction in macaques with pre-existing immunity to AAV8. Hence, this novel vector represents an important advance for hemophilia B gene therapy.