gebhart/patrepeval huggingface dataset:
BAL1 and Its Partner E3 Ligase, BBAP, Link Poly(ADP-Ribose) Activation, Ubiquitylation, and Double-Strand DNA Repair Independent of ATM, MDC1, and RNF8 (2012)

The BAL1 macrodomain-containing protein and its partner E3 ligase, BBAP, are overexpressed in chemotherapy-resistant lymphomas. BBAP selectively ubiquitylates histone H4 and indirectly promotes early 53BP1 recruitment to DNA damage sites. However, neither BBAP nor BAL1 has been directly associated with a DNA damage response (DDR), and the function of BAL1 remains undefined. Herein, we describe a direct link between rapid and short-lived poly(ADP-ribose) (PAR) polymerase 1 (PARP1) activation and PARylation at DNA damage sites, PAR-dependent recruitment of the BAL1 macrodomain-containing protein and its partner E3 ligase, local BBAP-mediated ubiquitylation, and subsequent recruitment of the checkpoint mediators 53BP1 and BRCA1. The PARP1-dependent localization of BAL1-BBAP functionally limits both early and delayed DNA damage and enhances cellular viability independent of ATM, MDC1, and RNF8. These data establish that BAL1 and BBAP are bona fide members of a DNA damage response pathway and are directly associated with PARP1 activation, BRCA1 recruitment, and double-strand break repair.
Transcriptional Modulation of Ethylene Response Factor Protein JERF3 in the Oxidative Stress Response Enhances Tolerance of Tobacco Seedlings to Salt, Drought, and Freezing (2008)

Abiotic stresses such as drought, cold, and salinity affect normal growth and development in plants. The production and accumulation of reactive oxygen species (ROS) cause oxidative stress under these abiotic conditions. Recent research has elucidated the significant role of ethylene response factor (ERF) proteins in plant adaptation to abiotic stresses. Our earlier functional analysis of an ERF protein, JERF3, indicated that JERF3-expressing tobacco (Nicotiana tabacum) adapts better to salinity in vitro. This article extends that study by showing that transcriptional regulation of JERF3 in the oxidative stress response modulates the increased tolerance to abiotic stresses. First, we confirm that JERF3-expressing tobacco enhances adaptation to drought, freezing, and osmotic stress during germination and seedling development. Then we demonstrate that JERF3-expressing tobacco imparts not only higher expression of osmotic stress genes compared to wild-type tobacco, but also the activation of photosynthetic carbon assimilation/metabolism and oxidative genes. More importantly, this regulation of the expression of oxidative genes subsequently enhances the activities of superoxide dismutase but reduces the content of ROS in tobacco under drought, cold, salt, and abscisic acid treatments. This indicates that JERF3 also modulates the abiotic stress response via the regulation of the oxidative stress response. Further assays indicate that JERF3 activates the expression of reporter genes driven by the osmotic-responsive GCC box, DRE, and CE1 and by oxidative-responsive as-1 in transient assays, suggesting the transcriptional activation of JERF3 in the expression of genes involved in response to oxidative and osmotic stress. Our results therefore establish that JERF3 activates the expression of such genes through transcription, resulting in decreased accumulation of ROS and, in turn, enhanced adaptation to drought, freezing, and salt in tobacco.
Integrated optic wavelength demultiplexer using a coplanar grating lens (1990)

An integrated optic wavelength-demultiplexer (IOWD) is proposed and demonstrated. A coplanar grating lens in a single-mode slab waveguide is utilized for wavelength separating and focusing functions. The grating lens and input/output channel waveguides are monolithically integrated in a waveguiding film on a rectangular Si substrate. The IOWD was designed for demultiplexing nine wavelengths from 0.778 to 0.802 microm (3-nm separation) with less, similar-20-dB crosstalk. The device requires no additional collimating or focusing lenses and was fabricated by a planar process including an electron-beam writing technique. The demultiplexing principle is demonstrated by elementary experiments using single-mode laser diodes.
Nox4 mediates TGF-β1-induced retinoblastoma protein phosphorylation, proliferation, and hypertrophy in human airway smooth muscle cells (2007)

Transforming growth factor-beta1 (TGF-beta1) plays a pivotal role in increasing airway smooth muscle mass in severe asthma by inducing proliferation and hypertrophy of human airway smooth muscle. The mechanism(s) for these effects of TGF-beta1 have not been fully elucidated. In this study, we demonstrate that TGF-beta1 is a potent inducer of expression of the nonphagocyte NAD(P)H oxidase catalytic homolog Nox4, diphenylene iodonium-inhibitable reactive oxygen species production, proliferation, and hypertrophy in cultured human airway smooth muscle cells. By confocal microscopy, TGF-beta1-induced Nox4 was localized with the endoplasmic reticulum and the nucleus, implying a role for Nox4 in regulation of both the cell cycle and protein synthesis. Consistent with this hypothesis, TGF-beta1 increased retinoblastoma protein phosphorylation at both Ser807/811 and Ser780. Silencing Nox4 prevented TGF-beta1-mediated retinoblastoma protein phosphorylation, proliferation, and cell hypertrophy. TGF-beta1 also increased phosphorylation of eukaryotic translation initiation factor 4E binding protein-1 at Thr37/46, and this was likewise blocked by silencing Nox4. This is the first report to suggest a functional role for Nox4 in cell cycle transition and to demonstrate that Nox4 influences the pathobiochemistry of asthma by generating reactive oxygen species that promote TGF-beta1-induced proliferation and hypertrophy of human airway smooth muscle.
Generation of a stable, posttranslationally modified microtubule array is an early event in myogenic differentiation. (1989)

Microtubules (MTs) have been implicated to function in the change of cell shape and intracellular organization that occurs during myogenesis. However, the mechanism by which MTs are involved in these morphogenetic events is unclear. As a first step in elucidating the role of MTs in myogenesis, we have examined the accumulation and subcellular distribution of posttranslationally modified forms of tubulin in differentiating rat L6 muscle cells, using antibodies specific for tyrosinated (Tyr), detyrosinated (Glu), and acetylated (Ac) tubulin. Both Glu and Ac tubulin are components of stable MTs, whereas Tyr tubulin is the predominant constituent of dynamic MTs. In proliferating L6 myoblasts, as in other types of proliferating cells, the level of Glu tubulin was very low when compared with the level of Tyr tubulin. However, when we shifted proliferating L6 cells to differentiation media, we observed a rapid accumulation of Glu tubulin in cellular MTs. By immunofluorescence, the increase in Glu tubulin was first detected in MTs of prefusion myoblasts and was specifically localized to MTs that were associated with elongating portions of the cell. MTs in the multinucleated myotubes observed at later stages of differentiation maintained the elevated level of Glu tubulin that was observed in the prefusion myoblasts. When cells at early stages of differentiation (less than 1 d after switching the culture medium) were immunostained for Glu tubulin and the muscle-specific marker, muscle myosin, we found that the increase in Glu tubulin preceded the accumulation of muscle myosin. Thus, the elaboration of Glu MTs is one of the very early events in myogenesis. Ac tubulin also increased during L6 myogenesis; however, the increase in acetylation occurred later in myogenesis, after fusion had already occurred. Because detyrosination was temporally correlated with early events of myogenesis, we examined the mechanism responsible for the accumulation of Glu tubulin in the MTs of prefusion myoblasts. We found that an increase in the stability of L6 cell MTs occurred at the onset of differentiation, suggesting that the early increase in detyrosination that we observed is a manifestation of a decrease in MT dynamics in elongating myoblasts. We conclude that the establishment of an oriented array of microtubules heightened in its stability and its level of posttranslationally modified subunits may be involved in the subcellular remodeling that occurs during myogenesis.
Dental Radiology: Understanding the X-Ray Image (1998)

1.: Production of radiographs. 2.: Radiographic projections and anatomical features. 3.: Examination of radiographs. 4.: Localization using dental radiography. 5.: Coronal and pericoronal changes. 6.: Pulp and root changes. 7.: Bone: periapical and peridontal. 8.: Radiolucent lesions. 9.: Radiopaque and combination lesions. 10.: Dental trauma. Appendix A: Key components in the dental X-ray tube: checklist. Appendix B: Lists of anatomical features. Appendix C: Examination of radiographs: checklist. Appendix D: Specialized imaging techniques. Bibliography. Index
Stabilization of Human RNase 1 by Introduction of a Disulfide Bond between Residues 4 and 118 (2000)

In order to stabilize human RNase 1 by introduction of an intramolecular cross-link, a mutant protein (4-118CL RNase 1), in which Arg4 and Val118 are replaced with cysteine residues and linked by a disulfide bond, was designed and expressed in Escherichia coli as inclusion bodies. The 4-118CL RNase 1 that refolded under redox conditions was a monomer without free SH groups and retained 11% of the activity of the wild-type recombinant RNase 1, indicating that the mutant enzyme was correctly folded with the formation of an additional disulfide bond between Cys4 and Cys118. From guanidium chloride denaturation experiments based on the assumption of a two-state transition for unfolding, it was demonstrated that the introduction of the present cross-link increased the thermodynamic stability of RNase 1 by 2.0 kcal/mol. This value was lower than that, 5.4 kcal/mol, theoretically calculated from the reduction of chain entropy of the unfolded state due to the introduction of the cross-link. These results suggest that the present cross-link also destabilized the folded state of RNase 1 by 3.4 kcal/mol. Along with the increase in the thermodynamic stability, the stability of RNase 1 against trypsin digestion was also significantly increased by the introduction of this cross-link. It is likely, although not proven, that stabilized human RNases are favorable for clinical use, because human RNase-based immunotoxins should have long half-lives as to proteolytic degradation after endocytosis.
Modeling and characterization of the bonding-wire interconnection (2001)

In this paper, the bonding-wire interconnection has been studied from the points of view of its modeling and electrical characterization. Both singleand double-wire structures have been considered, the latter under the assumption of parallel wires. Two electrical models of the bonding wire are discussed. First, the finite-difference time-domain (FDTD) method is proposed for the rigorous analysis of such structures. This method uses a suitable discretization technique, which accounts for the wire curvature by means of a polygonal approximation. A quasi-static model of the bonding wire, suitable for commercial microwave computer-aided-design tools is then proposed. This model is based on the representation of the structure with four sections of a uniform transmission line and the model parameters are evaluated analytically from the dimensions of the interconnection. Accuracy and applicability of the quasi-static model have been assessed by analyzing several test structures, the reference results being obtained with the FDTD method. Finally, the quasi-static model has been used to provide an extensive electrical characterization of the bonding wire versus its main geometrical parameters. This characterization is given in terms of an equivalent series inductance and two equivalent shunt capacitances forming a /spl pi/ low-pass network. This representation is particularly useful in the matching of the bonding-wire discontinuity.
치자추출물의 Monoamine Oxidase 저해활성 (2007)

We examined the inhibitory activities against monoamine oxidase(MAO) of Gardenia jasminoides in vitro and in vivo methods. Methanolic extract and ethylacetate fraction of Gardenia jasminoides fruit showed a significant inhibitory activity on MAO-A and MAO-B in vitro. The IC50 values of each fraction on MAO-A and MAO-B are as followed; total methanol extracts 1.23 and 1.34mg/㎖, EtOAc fraction 0.72 and 0.77 mg/㎖. Water-soluble fraction also showed IC50 values of 0.81 mg/㎖ on MAO-B. MAO-A activity was increased by the oral administration of ethanolic extract of G. jasminoides, while MAO-B activity was decreased. The concentration of serotonin of brain tissue administrated of ethanolic extract of G. jasminoides is slightly increased in rat. This tendency is not different from the activity of deprenyl which is a well known MAO inhibitor was used as a positive control. Consequently, we suggest that G. jasminoides may have the effects on the inhibitory activity against MAO. This activity of G. jasminoides is considerable for development of functional materials for treatment and control of depression, dementia, Parkinson` disease, stress and promoting exercise, etc.
Experimental study of rf pulsed heating (2011)

Cyclic thermal stresses produced by rf pulsed heating can be the limiting factor on the attainable reliable gradients for room temperature linear accelerators. This is especially true for structures that have complicated features for wakefield damping. These limits could be pushed higher by using special types of copper, copper alloys, or other conducting metals in constructing partial or complete accelerator structures. Here we present an experimental study aimed at determining the potential of these materials for tolerating cyclic thermal fatigue due to rf magnetic fields. A special cavity that has no electric field on the surface was employed in these studies. The cavity shape concentrates the magnetic field on one flat surface where the test material is placed. The materials tested in this study have included oxygen free electronic grade copper, copper zirconium, copper chromium, hot isostatically pressed copper, single crystal copper, electroplated copper, Glidcop\textregistered{}, copper silver, and silver plated copper. The samples were exposed to different machining and heat treatment processes prior to rf processing. Each sample was tested to a peak pulsed heating temperature of approximately $110\ifmmode^\circ\else\textdegree\fi{}\mathrm{C}$ and remained at this temperature for approximately $10\ifmmode\times\else\texttimes\fi{}{10}^{6}$ rf pulses. In general, the results showed the possibility of pushing the gradient limits due to pulsed heating fatigue by the use of copper zirconium and copper chromium alloys.
Expression of vascular endothelial growth factor receptor-3 and podoplanin suggests a lymphatic endothelial cell origin of Kaposi's sarcoma tumor cells. (1999)

Despite intensive research over the past decade, the exact lineage relationship of Kaposi's sarcoma (KS) tumor cells has not yet been settled. In the present study, we investigated the expression of two markers for lymphatic endothelial cells (EC), ie, vascular endothelial growth factor receptor-3 (VEGFR-3) and podoplanin, in AIDS and classic KS. Both markers were strongly expressed by cells lining irregular vascular spaces in early KS lesions and by tumor cells in advanced KS. Double-staining experiments by confocal laser microscopy established that VEGFR-3-positive and podoplanin-positive cell populations were identical and uniformly expressed CD31. By contrast, these cells were negative for CD45, CD68, and PAL-E, excluding their hemopoietic and blood vessel endothelial cell nature. Podoplanin expression in primary KS tumor lysates was confirmed by Western blot analysis. Both splice variants of VEGFR-3 were found in KS-tumor-derived RNA by RT-PCR. In contrast to KS tumor cells in situ, no expression of VEGFR-3 and podoplanin was detected in any of four KS-derived spindle cell cultures and in one KS-derived autonomously growing cell line (KS Y-1). Our findings that KS tumor cells express two lymphatic EC markers in situ strongly suggest that they are related to or even derived from the lymphatic EC lineage. Lack of these antigens on cultured cells derived from KS lesions indicates that they might not represent tumor cells that grow in tissue culture, but rather other cell types present in KS lesions.
Morphometry of medial hypertrophy in the rat thoracic aorta. (1980)

Surgical constriction of the subdiaphragmatic aorta in young adult male rats induced a 54 per cent hypertrophy (39 per cent thickening) of the wall of the thoracic aorta in 8 days, with no increase in the number of elastic lamellae. Morphometric analysis of the aorta wall showed volume increases of its component smooth muscle cells (57 per cent) elastic laminae (30 per cent), collagen (136 per cent), and endothelium plus subendothelial space (40 per cent). Mean cell volume of smooth muscle cells increased 55 per cent from 272 +/- 11 to 421 +/- 21 cu. mum. (p less than 0.005). The number of smooth muscle cells per centimeter of length of thoracic aorta was 4.2 +/- 0.3 x 10(6) in both control and experimental animals. Thus, aortic medial hypertrophy following aortic stenosis included enlargement but no proliferation of smooth muscle cells. Absolute volume increases in the average smooth muscle cell included the nucleus (27 per cent), myofilaments (47 per cent), mitochondria (62 per cent), rough endoplasmic reticulum (246 per cent), smooth endoplasmic reticulum (23 per cent), and caveolae (37 per cent).
Recognition of subsets of the mammalian A/B-type core heterogeneous nuclear ribonucleoprotein polypeptides by novel autoantibodies (1996)

The structurally related A/B-type core heterogeneous nuclear ribonucleoprotein (hnRNP) polypeptides of 34-39 kDa (A1, A2, B1 and B2) belong to a family of RNA-binding proteins that are major components of 40 S hnRNP complexes. By two-dimensional gel electrophoresis and peptide mapping analysis we compared each member of the A/B-type core proteins in the human and rat liver cells. This comparison revealed the unique presence in rat cells of major protein species, referred to as mBx polypeptides, that appeared as three charge isoforms at a position corresponding to the minor HeLa B1b protein spot. In addition, clear differences in the ratios of the A1 polypeptide to the A1b isoform were observed. The detection, in sera of patients with rheumatic autoimmune diseases, of two novel autoantibody specificities, one recognizing solely B2 protein and the second both the B2 and mBx polypeptides, helped to identify mBx proteins as new A/B-type hnRNP components, immunologically related to B2 protein. A common immunoreactive V8 protease peptide of approx. 17 kDa has been identified in B2 and mBx hnRNP polypeptides. mBx protein species are identified in cells of murine origin, and have a ubiquitous tissue distribution and developmental appearance.
Long-Term Safety and Tolerability of OnabotulinumtoxinA Treatment in Patients with Chronic Migraine: Results of the COMPEL Study (2019)

ClinicalTrials.gov; NCT01516892.
Minimizing the Inhaled Dose of NO With Breath-by-Breath Delivery of Spikes of Concentrated Gas (1998)

A small volume of NO inhaled at the beginning of the breath was equally effective as NOCD but reduced the dose of NO per breath by 40-fold, which ranged from 1.2x10(-8) (0.4 microg) to 1. 6x10(-7) mol/L (4.8 microg) compared with 5.3x10(-7) (16 microg) to 1.2x10(-6) mol/L (36 microg) per breath with NOCD.
Physicochemical study of drug binary systems. Part 3: Tolbutamide-urea and tolbutamide-mannitol systems. (1975)

The phase diagram of the tolbutamide-urea system, constructed by data obtained from the microheating table apparatus, was a peritectic type. It showed the possibility of the formation of two molecular compounds with incongruent m. p. at 112 degrees C and 123 degrees C. Metastable and stable eutectic points were observed at 63 degrees C and 92 degrees C respectively. The phase diagram of tolbutamide-mannitol system revealed that in addition to eutectic liquefaction at 102 degrees C and 6% (w/w) mannitol, there was a region [40--80% (w/w) mannitol] in which the two components were not completely miscible in the liquid state. Solubility studies showed an increase of about 2.5 fold in the solubility of tolbutamide with 0.5 g% urea and suggested the possibility of the formation of a low-solubility complex in addition to a soluble higher complex of the two components. No obvious increase in the solubility of tolbutamide was detected in the presence of mannitol. A full description of the nature and composition of the final solidified melts of the two present systems could prove to be helpful in the explanation of the dissolution behaviour of the different studied samples and their corresponding physical mixtures. The fused 90% urea and mannitol solid dispersions showed a fast rate of dissolution in the order of 15 and 10 times (respectively) greater than pure tolbutamide.
Supermolecular organization of photosystem II and its associated light‐harvesting antenna in Arabidopsis thaliana (2001)

The organization of Arabidopsis thaliana photosystem II (PSII) and its associated light-harvesting antenna (LHCII) was studied in isolated PSII-LHCII supercomplexes and native membrane-bound crystals by transmission electron microscopy and image analysis. Over 4000 single-particle projections of PSII-LHCII supercomplexes were analyzed. In comparison to spinach supercomplexes [Boekema, E.J., van Roon, H., van Breemen, J.F.L. & Dekker, J.P. (1999) Eur. J. Biochem. 266, 444-452] some striking differences were revealed: a much larger number of supercomplexes from Arabidopsis contain copies of M-type LHCII trimers. M-type trimers can also bind in the absence of the more common S-type trimers. No binding of l-type trimers could be detected. Analysis of native membrane-bound PSII crystals revealed a novel type of crystal with a unit cell of 25.6 x 21.4 nm (angle 77 degrees ), which is larger than any of the PSII lattices observed before. The data show that the unit cell is built up from C2S2M2 supercomplexes, rather than from C2S2M supercomplexes observed in native membrane crystals from spinach [Boekema, E.J., Van Breemen, J.F.L., Van Roon, H. & Dekker, J.P. (2000) J. Mol. Biol. 301, 1123-1133]. It is concluded from both the single particle analysis and the crystal analysis that the M-type trimers bind more strongly to PSII core complexes in Arabidopsis than in spinach.
Immune modulation with high-dose heat-shock protein gp96: therapy of murine autoimmune diabetes and encephalomyelitis (2004)

Immunization with heat-shock protein (HSP) gp96 elicits protective immunity to the cancer or virus-infected cells from which it is derived. Low doses of gp96 generate immunity, while doses 10 times the immunizing dose do not. We show here that injection of high doses of gp96 generates CD4(+) T cells that down-regulate a variety of ongoing immune responses. Immunization with high doses of gp96 prevents myelin basic protein- or proteolipid protein-induced autoimmune encephalomyelitis in SJL mice and the onset of diabetes in non-obese diabetic mice. The suppression of immune response can be adoptively transferred with CD4(+) cells and does not partition with the CD25 phenotype. The immunomodulatory properties of gp96 (and possibly other HSP) may be used for antigen-specific activation or suppression of cellular immune responses. The latter may form the basis for novel immunotherapies for autoimmune diseases.