gebhart/patrepeval huggingface dataset:
T cells induced by recombinant chimpanzee adenovirus alone and in prime‐boost regimens decrease chimeric EcoHIV/NDK challenge virus load (2012)

The popularity of nonreplicating adenoviruses of chimpanzee origin (ChAdVs) as vectors for subunit vaccines is on the rise. This is mainly for their excellent safety and impressive immunogenicity observed in human studies to date. Here, we recloned the chimpanzee adenovirus sero type 68 (ChAdV-68), also designated SAdV-25 and AdC68, genome and demonstrated its straightforward genetic manipulation facilitated by the use of bacterial artificial chromosome recombineering. To generate the ChAdV68.GagB vaccine, the HIV-1 consensus clade B Gag-derived Tg was inserted into the E1 region. In part confirming previous observations, the ChAdV68.GagB vaccine alone and in heterologous prime-boost regimens with plasmid DNA- and modified vaccinia virus Ankara (MVA)-vectored vaccines induced robust polyfunctional HIV-1-specific CD8(+) and CD4(+) T-cell responses with a gut-homing phenotype. Importantly, we showed that when a single epitope is expressed as an immunodominant CD8(+) T-cell determinant, responses elicited by ChAdV68.GagB alone and in combination lowered surrogate challenge EcoHIV/NDK (where EcoHIV is chimeric ecotropic HIV) virus load in mice both at the peak T-cell frequencies 2 weeks after vaccination and 16 weeks later indicating development of protective effector memory. These results parallel the immunogenicity of similar vaccine regimens in macaques and an ongoing phase I/IIa trial in humans, and support further development of vaccines vectored by ChAdVs.
cDNA cloning of the HML-C phosphoprotein, a nclear protein associated with neoplastic and undifferentiated phenotypes (1991)

The HMGI-C protein is a nuclear phosphoprotein expressed at high levels in transformed cells. The cDNA encoding the mouse protein has been isolated and the sequence of the encoded protein shows that it is related to the HMGY and I proteins, proteins which bind in the minor groove of DNA containing stretches of A and T. The HMGI-C protein has three short highly basic domains, an acidic C-terminal domain, and potential CDC2/p34 and casein kinase II phosphorylation sites. Analysis of mRNA levels demonstrate that the HMGI-C gene is not expressed in a variety of mouse tissues but is expressed in Lewis lung carcinoma cells.
Symbiotic nitrogen fixation research in the postgenomics era (2002)

Summary Nitrogen‐fixing symbioses between legumes and rhizobia are important for sustainable agriculture and contribute significantly to the global nitrogen cycle. The genomes of two rhizobial species, Mesorhizobium loti and Sinorhizobium meliloti have now been completely sequenced. Hundreds of thousands of expressed sequence tags representing tens of thousands of different genes from three major legume species; soybean, Medicago truncatula and Lotus japonicus have also been deposited in the public domain. Lotus japonicus recently became the focus of a genome project that aims to sequence one third of the entire genome over the next 5 yr. With this as a backdrop, the stage is set for a renaissance in symbiosis research, which will provide new insight into the complex molecular interplay that underpins symbiotic nitrogen fixation. This review considers how functional genomics might contribute to this renaissance.
Biocompatible and Biodegradable Materials for Organic Field‐Effect Transistors (2010)

Abstract Biocompatible‐ingestible electronic circuits and capsules for medical diagnosis and monitoring are currently based on traditional silicon technology. Organic electronics has huge potential for developing biodegradable, biocompatible, bioresorbable, or even metabolizable products. An ideal pathway for such electronic devices involves fabrication with materials from nature, or materials found in common commodity products. Transistors with an operational voltage as low as 4–5 V, a source drain current of up to 0.5 μA and an on‐off ratio of 3–5 orders of magnitude have been fabricated with such materials. This work comprises steps towards environmentally safe devices in low‐cost, large volume, disposable or throwaway electronic applications, such as in food packaging, plastic bags, and disposable dishware. In addition, there is significant potential to use such electronic items in biomedical implants.
Kinetics of the Graft-Versus-Leukemia Response After Donor Leukocyte Infusions for Relapsed Chronic Myeloid Leukemia After Allogeneic Bone Marrow Transplantation (1998)

Little is known about the mechanisms and the kinetics of the so-called graft-versus-leukemia (GVL) response induced by donor lymphocyte infusions (DLI) in patients with leukemic relapse after allogeneic bone marrow transplantation (BMT). We sought to elucidate this problem by sequentially studying three patients with relapsed chronic myeloid leukemia after sex-mismatched BMT from time before donor leukocyte infusion until achievement of complete molecular remission. Lineage-specific chimerism was assessed longitudinally by a combined fluorescent immunophenotyping and sex chromosome-specific in situ hybridization approach. Results were related to quantitative detection of bcr-abl transcripts by competitive differential reverse transcriptase-polymerase chain reaction (RT-PCR), qualitative bcr-abl RT-PCR, and multiplex PCR-based DNA donor/recipient chimerism. All patients had predominant donor lymphopoiesis at the time of DLI, suggesting a state of tolerance to recipient leukemic and/or normal cells. In contrast, granulopoiesis and erythropoiesis were mainly recipient derived in both patients with hematologic relapse and partly recipient derived in the patient with molecular relapse. Eighty percent, 90%, and 8% of CD34+cells, respectively, were found to be of recipient origin at relapse, and few donor stem cells predicted for cytopenia post-DLI. Responses were seen after a time lag of 5 to 13 weeks after DLI and resulted in reversal to full donor chimerism within a critical switch period of 4 to 5 weeks. A sudden decrease in recipient cells was paralleled by a sharp decrease in bcr-abl transcript numbers detectable several weeks before achievement of molecular remission and onset of clinical graft-versus-host disease (GVHD). This response pattern was confirmed by retrospective RT-PCR analysis in an additional five patients. Prospective monitoring of stem cell chimerism and response may enable us to individually tailor adoptive immunotherapy in the future.
Evaluation of Neuromedin U Actions in Energy Homeostasis and Pituitary Function (2002)

The brain-gut peptide neuromedin U (NMU) has been identified recently as a physiological regulator of food intake. To further investigate the central role of NMU in energy homeostasis, we examined the distribution of NMU transcript and the effect of intracerebroventricular administration on several physiological parameters and on the pattern of c-Fos activation. Here we report that intracerebroventricular administration of NMU to 24-h fasted rats resulted in a decrease in subsequent food intake and body weight gain. NMU administration activated neurons in several brain regions implicated in the regulation of feeding behavior. Activated cells included catecholaminergic neurons of the arcuate nucleus and brain stem. Distribution studies revealed NMU expression in the caudal brain stem (nucleus of the solitary tract and inferior olive) and pituitary, with significant levels in the pars tuberalis. This contradicts earlier published observations. In obese (fa/fa) Zucker rats, decreases in NMU expression were detected in the nucleus of the solitary tract, pars tuberalis, and pars distalis, whereas in the fasted rat, a decrease in NMU transcript was detected in the pars distalis. These results confirm the effects of NMU on feeding and suggest additional roles for NMU in neuroendocrine function.
A Steerable Directional Local Profile Technique for Extraction of Handwritten Arabic Text Lines (2009)

In this paper, we present a new text line extraction method for handwritten Arabic documents. The proposed technique is based on a generalized adaptive local connectivity map (ALCM) using a steerable directional filter. The algorithm is designed to solve the particularly complex problems seen in handwritten documents such as fluctuating, touching or crossing text lines. The proposed algorithm consists of three steps. Firstly, a steerable filter is used to probe and determine foreground intensity along multiple directions at each pixel while generating the ALCM. The ALCM is then binarized using an adaptive thresholding algorithm to get a rough estimate of the location of the text lines. In the second step, connected component analysis is used to classify text and non text patterns in the generated ALCM to refine the location of the text lines. Finally, the text lines are separated by superimposing the text line patterns in the ALCM on the original document image and extracting the connected components covered by the pattern mask. Analysis of experimental results on the DARPA MADCAT Arabic handwritten document data indicate that the method is robust and is capable of correctly isolating handwritten text lines even on challenging document images.
Cancer‐related fatigue (2003)

Several lines of research are needed to bridge the specific gaps in the current knowledge of CRF. These involve the pathophysiology of the symptom, the validation of diagnostic criteria, and specific therapeutic interventions. Current practice guidelines are based on a combination of research and expert clinical judgment and should be used to guide care with the expectation that they will evolve to incorporate the results of studies currently underway.
Mass Transport through a Proton Exchange Membrane (Nafion) in Microbial Fuel Cells (2007)

Proton exchange membranes (PEMs) are one of the most important components in microbial fuel cells (MFCs), since PEMs physically separate the anode and cathode compartments while allowing protons to transport to the cathode in order to sustain an electrical current. The Nafion 117 membrane used in this study is generally regarded as having excellent proton conductivity, though many problems for its application in MFCs remain. We investigated problems associated with Nafion including: oxygen leakage from cathode to anode, substrate loss, cation transport and accumulation rather than protons, and biofouling. It was found that Nafion was quite permeable to oxygen. The oxygen mass transfer coefficient (KO) and the oxygen diffusion coefficient (DO) for Nafion was estimated as KO = 2.80 × 10−4 cm/s and DO = 5.35 × 10−6 cm2/s, respectively when a 50 mM phosphate buffer was used as the catholyte. The MFC with distilled water instead of phosphate buffer showed similar values (KO = 2.77 × 10−4 cm/s, DO = 5.27 × 10−6 cm2/s), indicating that the catholyte shows no significant effects on oxygen diffusion. Nafion was also found to be permeable to acetate, but this seems to be negligible. Cations in the anolyte, presenting in high concentration due to their supply to optimize the anodic bacterial growth condition, were rapidly transported through the Nafion membrane. They occupied negatively charged sulfonate groups of Nafion, which consequently reduced contact chance of protons due to their competition. According to energy dispersive X-ray (EDX) analysis, the relative atomic percentage of carbon (30.9%) and fluoride (59.7%), the basic backbone materials of Nafion, in used Nafion was lowered, compared to that obtained with new Nafion (C = 32.8%, F = 60.1%); whereas sodium and iron, which do not exist in new Nafion, increased by up to 1.16% and 0.24% of the atoms, respectively. This indicates that these two cation species already occupied an important fraction of the negatively charged sulfonate groups, which can cause the hindrance of proton migration. Nafion operated over a period of 50 days was contaminated with biofilm causing adverse effects on mass transport through the membrane. Bacteria growing on Nafion were much more heterogeneous compared to those observed on the anode carbon felt surface. The densest biofilm was observed in the outermost few millimeters of anode carbon felt, and the biofilm density gradually decreased with inward depth.
Factors Associated With Frequent Remission of Microalbuminuria in Patients With Type 2 Diabetes (2005)

To estimate the frequency of remission/regression of microalbuminuria and to identify factors affecting such outcomes in Japanese patients with type 2 diabetes, we observed 216 patients with type 2 diabetes and microalbuminuria enrolled during an initial 2-year evaluation period for the next 6 years. Remission was defined as shift to normoalbuminuria and regression as a 50% reduction in urinary albumin excretion rate (AER) from one 2-year period to the next. Reduction of urinary AER was frequent, with a 6-year cumulative incidence of 51% (95% CI 42-60) for remission and 54% (45-63) for regression, whereas the frequency of progression to overt proteinuria was 28% (19-37). Microalbuminuria of short duration, the use of renin-angiotensin system-blocking drugs, and lower tertiles for HbA(1c) (<6.95%) and systolic blood pressure (<129 mmHg) were independently associated with remission or regression in the pooled logistic regression analysis. The results indicate that reduction in urinary AER occurs frequently in Japanese patients with type 2 diabetes. Early detection of microalbuminuria and a multifactorial control may result in improved outcomes for diabetic nephropathy and cardiovascular events.
Human intestinal monoacylglycerol acyltransferase: differential features in tissue expression and activity (2003)

Acyl CoA-monoacylglycerol acyltransferase (MGAT) catalyzes the first step in triacyglycerol resynthesis involved in dietary absorption in enterocytes. Despite its potentially important role in dietary fat absorption, a gene encoding a human intestinal MGAT has not been identified. In this study, we report the identification and functional characterization of a human intestinal MGAT (hMGAT2) and its splice variant (hMGAT2V). The hMGAT2 gene encodes a peptide of 334 amino acids with a molecular mass of 38.2 kDa that shares 81 and 47% amino acid identities with the mouse MGAT2 and the human diacylglycerol acyltransferase (DGAT2) enzymes, respectively. The hMGAT2 gene is localized on chromosome 11q13.5, adjacent to the DGAT2 gene, suggesting gene duplication. Transient expression of hMGAT2, but not an alternatively spliced variant, hMGAT2V, in COS-7 cells led to a ninefold increase in the synthesis of DAG. The human and mouse differ significantly in tissue distribution of MGAT2. In addition to a predominant expression in the small intestine in both species, distinct levels were also found in the human liver, contrasting with higher levels in the mouse kidney. In comparison with a single 1.8-kb transcript in mouse, the hMGAT2 gene expressed two transcripts of 3.0 and 6.0 kb in size that encode MGAT2 and an inactive peptide with unknown functions, respectively. Despite a significant level of hMGAT2 mRNA in the human liver, little MGAT activity was detected in liver microsomes when tested against monoacyglcerols with different unsaturated side chains, suggesting possible posttranscriptional regulation.
Theory of Diffraction by Small Holes (1944)

The diffraction of electromagnetic radiation by a hole small compared with the wave-length is treated theoretically. A complete solution is found satisfying Maxwell's equations and the boundary conditions everywhere (Section 4). The solution holds for a circular hole in a perfectly conducting plane screen, but it is believed that the method will be applicable to much more general problems (Section 8). The method is based on the use of fictitious magnetic charges and currents in the diffracting hole which has the advantage of automatically satisfying the boundary conditions on the conducting screen. The charges and currents are adjusted so as to give the correct tangential magnetic, and normal electric, field in the hole. The result (Section 5) is completely different from that of Kirchhoff's method, giving for the diffracted electric and magnetic field values which are smaller in the ratio (radius of the hole/wave-length) (Section 6). The diffracted field can be considered as caused by a magnetic moment in the plane of the hole, and an electric moment perpendicular to it (Section 6). The theory is applied to the problem of mutual excitation of cavities coupled by small holes (Section 9). This leads to equations very similar to those for ordinary coupled circuits. The phase and amplitude relations of two coupled cavities are not uniquely determined, but there are two modes of oscillation, of slightly different frequency, for which these relations are opposite (Section 10). The problem of stepping up the excitation from one cavity to another is treated (Section 11).
Interactive Geometric Simulation of 4D Cities (2009)

Abstract We present a simulation system that can simulate a three‐dimensional urban model over time. The main novelty of our approach is that we do not rely on land‐use simulation on a regular grid, but instead build a complete and inherently geometric simulation that includes exact parcel boundaries, streets of arbitrary orientation, street widths, 3D street geometry, building footprints, and 3D building envelopes. The second novelty is the fast simulation time and user interaction at interactive speed of about 1 second per time step.
Photoinduced Phase Separation (2006)

A novel approach of photoinduced phase separation has been demonstrated with a photolabile anionic surfactant, mixed with an inert nonionic surfactant in the presence of salting-out electrolyte. Breakdown of the photolyzable surfactant results in hydrophobic photoproducts, which are emulsified by the remaining inert surfactant; added electrolyte resolves the emulsion into macroscopic oily and aqueous phases. The initial micellar systems can disperse an insoluble additive marker dye (shown), which may be spatially segregated from the aqueous environment by the action of UV light.
CXCR4+FOXP3+CD25+ Lymphocytes Accumulate in CXCL12-Expressing Malignant Pleural Mesothelioma (2009)

CXCL12 is a chemokine that binds to a G-protein-coupled receptor (CXCR4). CXCL12 is expressed in various tumors and is considered as playing an important role in tumor growth and invasion. The aim of this study is to investigate the expression of CXCL12 in human malignant mesothelioma (MM), the chemotactic effect of CXCL12 derived from MM, and the expression of CXCR4 in MM tissues in relation to regulatory T cells. CXCL12 expression was examined by immunostaining of tissue specimens from malignant pleural mesothelioma (MPM) and malignant peritoneal mesothelioma (MPEM). The MM group comprised 6 patients (4 men/2 women, MPM=4, MPEM=2, aged 56.0 +/- 12.4 years) and the control (non-mesothelioma) group also had 6 patients (4 men/2 women aged 65.0 +/- 6.7 years). CXCL12 mRNA expression was also examined by RT-PCR in MPM cell lines (H28, H2052, and H2058), while CXCR4 mRNA expression was examined by in situ hybridization in MPM tissue. CXCL12 was expressed in the cytoplasm of MM cells from all patients, but was not expressed in the control group. H2052 and H2058 cells expressed CXCL12 mRNA, but H28 cells did not. CXCL12 in MM tissue homogenate supernatant had a chemotactic effect on CXCR4-expressing THP-1 cells. CXCR4 mRNA was expressed by a part of LCA+CD3+ Foxp3+CD25+ T cells that were located adjacent to the border of CXCL12-expressing epithelioid MPM. These findings suggest that CXCL12 contributed to tumor-related inflammation by inducing the accumulation of CXCR4-expressing cells with regulatory T cell markers around MM.
Below 70-nm contact hole pattern with RELACS process on ArF resist (2003)

A chemical shrink technology, RELACS (Resolution Enhancement Lithography Assisted by Chemical Shrink), utilizes the cross linking reaction catalyzed by the acid component existing in a predefined resist pattern. This “RELACS” process is a hole shrinking procedure that includes simple coating, baking, and rinsing applied after conventional photolithography. Our target is realize of sub-70nm hole pattern formation by using new RELACS for ArF resist. At present, RELACS process is introduced to mass production of KrF lithography by using AZ R200 (Product name of Clariant) mainly. Then first of all we reported process performance of conventional RELACS material, AZ R200 with ArF resist. However AZ R200 does not show satisfactory shrinkage on ArF resist. Thereupon, we started on the development of new RELACS corresponding to ArF resist. As the result, we developed new RELACS material including Cross Linking Accelerator (CLA). It was found that CLA is able to improve reactivity of RELACS with ArF-resist. By using this new RELACS, It is Realized sub-70nm hole pattern formation with ArF-Ex lithography and It is able to Control of hole size by mixing bake (MB) temperature and additive ratio of CLA. Moreover this process was realized that thickness of shrunk hole is increased.
Antidiabetic Drug Metformin Suppresses Endotoxin-Induced Uveitis in Rats (2012)

Our results for the first time demonstrate a novel role of the antidiabetic drug, metformin, in suppressing uveitis in rats and suggest that this drug could be developed to prevent uveitis complications.
THE ROLE OF TUMOR NECROSIS FACTOR IN ALLOGRAFT REJECTION (1991)

We have previously demonstrated that TNF-alpha levels are elevated in liver transplant patients experiencing acute rejection. In addition, prophylactic administration of anti-TNF-alpha or anti-TNF-beta antibodies prolonged graft survival in a rat heterotopic cardiac transplant model. This experiment was designed to evaluate anti-TNF therapy in the treatment of acute allograft rejection. Heterotopic cardiac transplants were performed using Buffalo donors and Lewis recipients. Histologic sections of transplanted grafts from untreated animals revealed significant rejection at day 4 with terminal rejection occurring on day 10.8 +/- 0.4. Animals in the experimental groups received antirejection therapy from postoperative days 4-13. Treatment with cyclosporine at 2 mg/kg/day prolonged graft survival to 16.5 +/- 2.0 days (P = 0.01 versus controls). Administration of polyclonal anti-TNF-alpha in combination with polyclonal anti-TNF-beta increased graft survival to 14.6 +/- 0.4 days (P less than 0.001 versus controls). Use of a monoclonal anti-TNF-alpha antibody was even more effective, with graft survival of 17.4 +/- 0.7 days (P less than 0.001 versus controls). Combination immunotherapy with monoclonal anti-TNF-alpha in conjunction with CsA extended survival to greater than 30 days. In contrast, recombinant TNF-alpha (5 micrograms/day, i.p.) markedly accelerated the time to graft failure (7.4 +/- 0.2 days, P less than 0.001 versus controls). Examination of explanted graft tissue on postoperative day 9 from animals treated with anti-TNF showed decreased mononuclear cell infiltrate when compared to untreated animals. Treatment with TNF-alpha markedly increased the inflammatory process. These results suggest that TNF may play a role in the pathogenesis of acute rejection.
Isolated Plantar Dislocation of the Intermediate Cuneiform Bone (2004)

Nishi, Hideaki MD; Takao, Masato MD, PHD; Uchio, Yuji MD, PHD; Yamagami, Nobuo MD Author Information
Optical Power Flow in Multimode Fibers (1972)

Loss, coupling, and delay differences among the modes of multimode fibers influence their transmission characteristic in a complicated way. An approximation of the modes by a continuum leads to a comprehensive description of these interrelations. We relate the mode power distribution to the far-field output and calculate these distributions as functions of the fiber length and the input. We report measurements of the far-field distributions at various lengths of a cladded low-loss multimode fiber. A comparison of theory and experiment yields a quantitative estimate of the mode coupling involved. We associate this coupling with random irregularities of the fiber configuration and straightness, and construct a quantitative model of such irregularities.