gebhart/patrepeval huggingface dataset:
Post-translational modification detection using metastable ions in reflector matrix-assisted laser desorption/ionization-time of flight mass spectrometry (2002)

In addition to protein identification, characterization of post-translational modifications (PTMs) is an essential task in proteomics. PTMs represent the major reason for the variety of protein isoforms and they can influence protein structure and function. Upon matrix-assisted laser desorption/ionization (MALDI) most post-translationally modified peptides form a fraction of labile molecular ions, which lose PTM-specific residues only after acceleration. Compared to fully accelerated ions these fragment ions are defocused and show in reflector mass spectra reduced resolution. A short time Fourier transform using a Hanning window function now uses this difference in resolution to detect the metastable fragments. Its application over the whole mass range yields frequency distributions and amplitudes as a function of mass, where an increased low frequency proportion is highly indicative for metastable fragments. Applications on the detection of metastable losses originating from carboxamidomethylated cysteines, oxidized methionines, phosphorylated and glycosylated amino acid residues are presented. The metastable loss of mercaptoacetamide detected with this procedure represents a new feature and its integration in search algorithms will improve the specificity of MALDI peptide mass fingerprinting.
Imaging Corner The Virtual Hospital (1995)

Physicians in the clinical setting remain isolated from important sources of medical information. The authors have created a multimedia database known as The Virtual Hospital that improves access to current medical data, which is used to improve patient care decisions. The Virtual Hospital is a digital health sciences library stored on a server (computer) at The University of Iowa and delivered via the Internet to inexpensive personal computers in the workplace. The emerging standard of the World Wide Web is used to provide cross-platform distribution.
Potent urea and carbamate inhibitors of soluble epoxide hydrolases (1999)

The soluble epoxide hydrolase (sEH) plays a significant role in the biosynthesis of inflammation mediators as well as xenobiotic transformations. Herein, we report the discovery of substituted ureas and carbamates as potent inhibitors of sEH. Some of these selective, competitive tight-binding inhibitors with nanomolar K(i) values interacted stoichiometrically with the homogenous recombinant murine and human sEHs. These inhibitors enhance cytotoxicity of trans-stilbene oxide, which is active as the epoxide, but reduce cytotoxicity of leukotoxin, which is activated by epoxide hydrolase to its toxic diol. They also reduce toxicity of leukotoxin in vivo in mice and prevent symptoms suggestive of acute respiratory distress syndrome. These potent inhibitors may be valuable tools for testing hypotheses of involvement of diol and epoxide lipids in chemical mediation in vitro or in vivo systems.
Lagrange multiplier approaches to the design of two-channel perfect-reconstruction linear-phase FIR filter banks (1992)

The authors present two approaches to the design of two-channel perfect-reconstruction linear-phase finite-impulse-response (FIR) filter banks. Both approaches analyze and design the impulse responses of the analysis filter bank directly. The synthesis filter bank is then obtained by simply changing the signs of odd-order coefficients in the analysis filter bank. The approach deals with unequal-length filter banks. By designing the lower length filters first, one can take advantage of the fact that the number of variables for designing the higher length filters is more than the number of perfect-reconstruction constraint equations. The second approach generalizes the first, and covers the design for all parts of linear phase perfect reconstruction constraint equations.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Improved in vitro Cultivation of Babesia caballi. (1997)

Babesia caballi infected erythrocytes were collected from the blood of an experimentally infected horse and could be continuously cultivated in vitro with parasitemia ranging from 2-4% in RPMI 1640 medium supplemented with 2 mM L-glutamine, 20 mM HEPES and 40% adult horse serum in a low oxygen atmosphere (2% O2, 5% CO2 and 93% N2). All attempts to increase parasitemia failed using other culture media, serum concentrations and culture vessels. However, parasite growth was enhanced by transfer of cultures from a low oxygen to 5% CO2 in air, with parasitemia ranging from 8-10%.
Milliwatt Power Deep Ultraviolet Light Emitting Diodes Grown on Silicon Carbide (2005)

Deep ultraviolet light emitting diode structures with a peak wavelength of 275 nm were grown by metalorganic chemical vapor deposition on (0001) silicon carbide. Despite its strong ultraviolet light absorption, silicon carbide was chosen as a substrate rather than sapphire for its improved thermal conductivity and the potential for vertically conducting devices. An output power of 0.11 mW was observed at 300 mA DC during single device on-wafer testing, and output powers of 2.09 mW at 1.3 A were obtained from a packaged, silicone encapsulated array of five devices. Forward voltages as low as 4.9 V at 20 mA were obtained. The injection profile of Cp 2 Mg during the p-AlGaN blocking layer was instrumental in the suppression of emission at undesired wavelengths and the realization of peak-to-defect level ratios greater than 100.
Closure of an Open Wound Associated with Bisphosphonate-Related Osteonecrosis of the Jaw in a Breast Cancer Patient (2011)

Cessation of bisphosphonate therapy and usage of a phosphate buffer-stabilized 0.1% chlorine dioxide-containing mouthwash lessened the patient's pain and resulted in closure of the soft tissue lesion.
Heparin therapy in giant cell arteritis (2004)

his ocular blood flow characteristics were stable. We are uncertain about the reason for his decline in visual function, since at the time of the decline, he was maintained on oral corticosteroid and his serial ESR values were normal. None the less, we suggest that in patients who experience a progression of visual loss from GCA, despite IVMP therapy, may benefit acutely from the addition of heparin therapy.
A framework for information systems architecture (1999)

With increasing size and complexity of the implementations of information systems, it is necessary to use some logical construct (or architecture) for defining and controlling the interfaces and the integration of all of the components of the system. This paper defines information systems architecture by creating a descriptive framework from disciplines quite independent of information systems, then by analogy specifies information systems architecture based upon the neutral, objective framework. Also, some preliminary conclusions about the implications of the resultant descriptive framework are drawn. The discussion is limited to architecture and does not include a strategic planning methodology.
Landau Ginzburg theory of thed-wave Josephson junction (1998)

This paper discusses the Landau Ginzburg theory of a Josephson junction composed of on one side a pure d-wave superconductor oriented with the (110) axis normal to the junction and on the other side either s wave or d wave oriented with (100) normal to the junction. We use simple symmetry arguments to show that the Josephson current as a function of the phase must have the form $j(\ensuremath{\varphi}{)=j}_{1}\mathrm{sin}(\ensuremath{\varphi}{)+j}_{2}\mathrm{sin}(2\ensuremath{\varphi}).$ In principle ${j}_{1}$ vanishes for a perfect junction of this type, but anisotropy effects, either due to a-b axis asymmetry or junction imperfections, can easily cause ${j}_{1}{/j}_{2}$ to be quite large even in a high quality junction. If ${j}_{1}{/j}_{2}$ is sufficiently small and ${j}_{2}$ is negative, local time-reversal symmetry breaking will appear. Arbitrary values of the flux would then be pinned to corners between such junctions and occasionally on junction faces, which is consistent with experiments by Kirtley et al. [J. Kirtley et al., Phys. Rev. B 51, 12 057 (1995)].
Expression and function of the murine B7 antigen, the major costimulatory molecule expressed by peritoneal exudate cells. (1992)

The murine B7 (mB7) protein is a potent costimulatory molecule for the T-cell receptor (TCR)-mediated activation of murine CD4+ T cells. We have previously shown that stable mB7-transfected Chinese hamster ovary (CHO) cells but not vector-transfected controls synergize with either anti-CD3 monoclonal antibody-induced or concanavalin A-induced T-cell activation, resulting ultimately in lymphokine production and proliferation. We now have generated a hamster anti-mB7 monoclonal antibody. This reagent recognizes a protein with an apparent molecular mass of 50-60 kDa. The mB7 antigen is expressed on activated B cells and on peritoneal exudate cells (PECs). Antibody blocking experiments demonstrate that mB7 is the major costimulatory molecule expressed by PECs for the activation of murine CD4+ T cells. This suggests an important role for mB7 during immune-cell interactions. We have also surveyed a panel of murine cell lines capable of providing costimulatory activity. Our results indicate that mB7 is the major costimulatory molecule on some but not all cell lines and that there may be additional molecules besides mB7 that can costimulate the activation of murine CD4+ T cells.
Oligomeric State of the Colon Carcinoma-associated Glycoprotein GA733-2 (Ep-CAM/EGP40) and Its Role in GA733-mediated Homotypic Cell-Cell Adhesion (2001)

The GA733-2 antigen (GA733) is a homotypic calcium-independent cell adhesion molecule (CAM) present in most normal human epithelial cells and gastrointestinal carcinomas. Because oligomerization of some CAMs regulates cell adhesion and signal transduction, the correlation between GA733 oligomeric state and cell-cell adhesion was investigated. Sedimentation equilibrium studies showed that full-length (-FL) GA733 exists as dimers and tetramers in solution, whereas the GA733 extracellular domain (-EC) is a monomer. The Kd of GA733-FL is less than 10 nm for the monomer-dimer association, whereas the dimer-tetramer association is about 1000-fold weaker (Kd approximately 10 microm). Chemical cross-linking of purified GA733-FL in solution resulted in a major product corresponding to GA733 dimers, and minor amounts of trimers and tetramers. However, GA733-EC cross-linked under the same conditions was consistently a monomer. Chemical cross-linking of dissociated colon carcinoma cells produced predominantly GA733 dimers, whereas cross-linking of cells in monolayers yielded some tetramers as well. GA733-FL retained its cell-cell adhesion function as shown by inhibition of cell aggregation, whereas monomeric GA733-EC was inactive. These data show that GA733 exists predominantly as high affinity noncovalent cis-dimers in solution and on dissociated colon carcinoma cells. The lower affinity association of dimers to form tetramers is most likely the head-to-head interaction between GA733 cis-dimers on opposing cells that represents its cell-cell adhesion activity.
Effect of Treatment of Helicobacter pylori Infection on the Long-term Recurrence of Gastric or Duodenal Ulcer (1992)

Eradication of H. pylori infection markedly changes the natural history of peptic ulcer in patients with duodenal or gastric ulcer. Most peptic ulcers associated with H. pylori infection are curable.
Wild-type p53-triggered apoptosis is inhibited by bcl-2 in a v-myc-induced T-cell lymphoma line. (1993)

Using a temperature sensitive p53 construct (ts p53), we have earlier shown that expression of wild-type (wt) p53 triggers apoptosis in a v-myc-induced T-cell lymphoma line that lacks endogenous p53, and in a Burkitt lymphoma line that carries mutant p53. We have suggested that apoptosis is elicited by the contradictory signals emanating from the constitutively activated myc gene and the growth arresting signal of wt p53 (Ramqvist et al., 1993; Wang et al., 1993). Work in other laboratories has shown that constitutive c-myc expression can induce apoptosis when cell proliferation is inhibited due to the lack of growth stimulating factors. Expression of bcl-2 could inhibit apoptosis. In order to test whether p53-induced apoptosis can be prevented by bcl-2, we have introduced a retrovirally driven bcl-2 construct into our v-myc-induced murine T-cell lymphoma line, previously transfected with ts p53. About 90% of the parental ts p53 transfected cells died of apoptosis within 3 days after induction of wt p53 expression at 32 degrees C. Two clones of ts p53/bcl-2 double transfectants that expressed high levels of bcl-2 from the introduced construct were completely protected from apoptosis, following transfer of the cells to 32 degrees C. One clone that expressed the exogenous bcl-2 only at a low level was partially protected from wt p53-induced apoptosis. Clones of the parental ts p53 carrying cells transfected with the puromycin resistance gene vector, without the bcl-2 gene underwent 90% apoptosis. These results suggest that bcl-2 may prevent apoptosis in cells simultaneously exposed to the proliferation-stimulating effect of activated myc and the growth arresting signal of wt p53.
In Vitro Assembly and Recognition of Lys-63 Polyubiquitin Chains (2001)

Polyubiquitin chains assembled through lysine 48 (Lys-48) of ubiquitin act as a signal for substrate proteolysis by 26 S proteasomes, whereas chains assembled through Lys-63 play a mechanistically undefined role in post-replicative DNA repair. We showed previously that the products of the UBC13 and MMS2 genes function in error-free post-replicative DNA repair in the yeast Saccharomyces cerevisiae and form a complex that assembles Lys-63-linked polyubiquitin chains in vitro. Here we confirm that the Mms2.Ubc13 complex functions as a high affinity heterodimer in the chain assembly reaction in vitro and report the results of a kinetic characterization of the polyubiquitin chain assembly reaction. To test whether a Lys-63-linked polyubiquitin chain can signal degradation, we conjugated Lys-63-linked tetra-ubiquitin to a model substrate of 26 S proteasomes. Although the noncanonical chain effectively signaled substrate degradation, the results of new genetic epistasis studies agree with previous genetic data in suggesting that the proteolytic activity of proteasomes is not required for error-free post-replicative repair.
Lipid-mediated siRNA delivery down-regulates exogenous gene expression in the mouse brain at picomolar levels (2005)

We have optimised an efficient cationic lipoplex method for delivery of siRNA into the newborn mouse brain. Specific inhibition of exogenous target gene expression is obtained with picomolar amounts of siRNA.
Expression of keratinocyte growth factor receptor compared with that of epidermal growth factor receptor and erbB-2 in endometrial adenocarcinoma. (1999)

Immunohistochemical analysis of the expression of keratinocyte growth factor receptor (KGFR) was performed in human endometrial carcinomas from 18 patients and in normal proliferative and secretory endometrium. The level of immunostaining was correlated with the clinico-pathological characteristics of the endometrial carcinoma patients and with the parallel expression of the epidermal growth factor receptor (EGFR) and erbB-2. The results showed that KGFR expression increased with the stage of the tumor and that the simultaneous overexpression of the three growth factor receptors appeared to be related to the depth of myometrial invasion. Taken together, these observations suggest that KGFR may represent an additional prognostic indicator in endometrial cancer.
SYNTHESIS AND STRUCTURE OF SOME STABLE PHOSPHOLANE-PHOSPHOLANES (1996)

Abstract Bicyclophosphites based on linear 1,2,3-triols with terminal substituents were found to be stable. Thus a series of hitherto unknown phospholane-phospholane esters, including optically active ones, was synthesized and their promise for synthetic use was demonstrated. The structure of the new compounds was proved by 1H, 13C and 31P NMR spectroscopy and, for one of them, by X-ray analysis.
Schedule-selective biochemical modulation of 5-fluorouracil: a phase II study in advanced colorectal cancer. (1995)

Based on experimental findings suggesting that 5-fluorouracil (FUra) may have different mechanisms of action depending on the schedule of administration, we generated the hypothesis that biochemical modulation of this fluoropyrimidine should be schedule specific. We thus tested the activity of a hybrid regimen consisting of two biweekly cycles of FUra bolus (600 mg/m2) modulated by pretreatment (24-h interval) with methotrexate (200 mg/m2), alternating with a 3-week continuous infusion of FUra (200 mg/m2/day) modulated by low-dose (6S)leucovorin (20 mg/m2 bolus weekly). Thirty-three consecutive patients with advanced measurable colorectal cancer and no prior therapy for metastatic disease entered the study from February 1992 to August 1993. They were treated with two biweekly cycles of FUra bolus (600 mg/m2) preceded by (24-h interval) methotrexate (200 mg/m2), alternating with a 3-week continuous infusion of FUra (200 mg/m2/day) modulated by low-dose (6S)leucovorin (20 mg/m2 bolus weekly). The median Eastern Cooperative Oncology Group performance status was 1; the liver was the only metastatic site in 17 patients. Treatment outcome was evaluated by computed tomographic scan in all patients, except for two. Three complete and 13 partial responses were obtained among these 33 patients (response rate, 48%; 95% confidence limits, 31-66%). Performance status (Eastern Cooperative Oncology Group) influenced clinical response. The combined complete response and partial response rate was 69%, 33%, and 25% in patients with an Eastern Cooperative Oncology Group performance status of 0, 1, and 2, respectively (chi2, 4.6, P = 0.032, two-tailed Mantel test for trend). After a median follow-up time of 26 months, 10 patients are still alive. The median progression-free survival and overall survival were 9.5 and 20.2 months, respectively. No toxic deaths or grade 4 toxicity occurred. The incidence of grade 3 toxicity per patient in any cycle was: mucositis 6%, diarrhea 3%, and vomiting 3% for the bolus part and 21%, 3%, and 6%, respectively, for the continuous infusion part of the regimen. Hand-foot syndrome occurred in 27% of the patients treated with the continuous infusion regimen.
Merged phototransistor pixel with enhanced near infrared response and flicker noise reduction for biomolecular imaging (2008)

A top-illuminated, nonoffset amorphous silicon (a-Si) photo thin-film transistor structure is presented for biomolecular imaging applications. The device yields a high gate-modulated response to near infrared wavelengths, enhanced by trapped assisted absorption in the transistor. In addition, its flicker noise power is reduced by more than a factor of 3 by means of a switched biasing technique. Since the image sensor, readout, and amplification are the same elements, the pixel size can be made relatively small, enabling high resolution imaging capability over large area using standard, low-cost flat-panel technology.
Self-Regulating Profession? Administrative Discipline of “Pill Mill” Physicians in Florida (2017)

This review suggests that the adoption of a more proactive and streamlined process may reduce the time from when physicians are indicted or convicted of illegally prescribing or dispensing controlled substances to board investigation and potential sanction, potentially reducing opioid-related adverse events in the state.
Fetal Cells in Maternal Blood: A Comparison of Methods for Cell Isolation and Identification (2005)

Selection of fetal NRBCs from maternal blood by CD71-positive selection directly from whole blood is superior to density gradient centrifugation succeeded by CD45/CD14 depletion and CD71 selection of CD45/CD14-negative cells. Combining two markers for fetal origin is recommended for unambiguously identifying a cell as fetal.
Deep Vein Thrombosis and Pulmonary Embolism in Stroke (1996)

(1996). Deep Vein Thrombosis and Pulmonary Embolism in Stroke. Topics in Stroke Rehabilitation: Vol. 3, Acute Care and Stroke Management, pp. 54-70.
Non-Synonymous and Synonymous Coding SNPs Show Similar Likelihood and Effect Size of Human Disease Association (2010)

Many DNA variants have been identified on more than 300 diseases and traits using Genome-Wide Association Studies (GWASs). Some have been validated using deep sequencing, but many fewer have been validated functionally, primarily focused on non-synonymous coding SNPs (nsSNPs). It is an open question whether synonymous coding SNPs (sSNPs) and other non-coding SNPs can lead to as high odds ratios as nsSNPs. We conducted a broad survey across 21,429 disease-SNP associations curated from 2,113 publications studying human genetic association, and found that nsSNPs and sSNPs shared similar likelihood and effect size for disease association. The enrichment of disease-associated SNPs around the 80(th) base in the first introns might provide an effective way to prioritize intronic SNPs for functional studies. We further found that the likelihood of disease association was positively associated with the effect size across different types of SNPs, and SNPs in the 3' untranslated regions, such as the microRNA binding sites, might be under-investigated. Our results suggest that sSNPs are just as likely to be involved in disease mechanisms, so we recommend that sSNPs discovered from GWAS should also be examined with functional studies.
The Effect of Age and Glucose Concentration on Insulin Secretion by the Isolated Perfused Rat Pancreas* (1985)

Age changes in the beta-cell's sensitivity to glucose as well as in its overall capacity to secrete insulin may play a part in the glucose intolerance of aging. The isolated perfused rat pancreas preparation was used to study the effect of age and glucose level on insulin secretion. Overnight-fasted male Wistar 12- and 23-month-old rats had basal plasma glucose levels of 106 +/- 4 (SE) and 100 +/- 4 mg/dl. Perfusate glucose levels were raised from 80 mg/dl to either 150, 220, or 360 mg/dl for 50 min (n = 6 to 8 in each group). Insulin secretion followed the typical biphasic pattern of an early spike and fall, followed by a sustained gradual increase at both ages. First-phase (0-10 min) insulin secretion in the old rats was significantly lower at 150 (184 vs. 524 microU/min, P less than 0.05) and 220 mg/dl (327 vs. 644 microU/min, P less than 0.05), while it was nearly identical at 360 mg/dl. Although lower in the old rats, second-phase (11-50 min) insulin secretion was not statistically significantly different for each glucose level. When first- and second-phase insulin secretion rates were combined, the old rats' insulin secretion was only lower at the 150 mg/dl level (248 vs. 426 microU/min, P less than 0.05). Thus, at the more physiological glucose level, old rats showed a significantly lower response, while at the higher levels insulin secretion was similar. This diminishing age effect with increasing glucose dose suggests a defect in islet sensitivity to glucose rather than a diminished capacity to secrete insulin.
1H‐Pyrazolo[3,4‐b]pyridine Inhibitors of Cyclin‐Dependent Kinases: Highly Potent 2,6‐Difluorophenacyl Analogues. (2003)

Abstract For Abstract see ChemInform Abstract in Full Text.
Particle and Energy Balance in Discharges (2005)

This chapter contains sections titled: Introduction Electropositive Plasma Equilibrium Electronegative Plasma Equilibrium Approximate Electronegative Equilibria Electronegative Discharge Experiments and Simulations Pulsed Discharges Problems