gebhart/patrepeval huggingface dataset:
Localization of a Vitronectin Binding Region of Plasminogen Activator Inhibitor-1 (1995)

The PAI-1 binding site for VN was studied using two independent methods. PAI-1 was cleaved by Staph V8 protease, producing 8 fragments, only 2 of which bound to [125I]-VN. These fragments were predicted to overlap between residues 91-130. Since PAI-2 has structural homology to PAI-1, but does not bind to vitronectin, chimeras of PAI-1 and PAI-2 were constructed. Four chimeras, containing PAI-1 residues 1-70, 1-105, 1-114, and 1-167 were constructed and expressed in vitro. PAI-1, PAI-2, and all of the chimeras retained inhibitory activity for t-PA, but only the chimera containing PAI-1 residues 1-167 formed a complex with VN. Together, these results predict that the VN binding site of PAI-1 is between residues 115-130.
Strategies for successful research project management. (1999)

Beginning researchers may not fully appreciate the complexity of implementing a study, or the degree of rigor and precision involved. Successful project management requires careful planning, conscientious follow-through, and continuous monitoring. Several aspects of project implementation are discussed: defining roles and responsibilities of project personnel, overseeing progress of the project, planning and managing the budget, and record keeping. Concrete strategies are provided, with the emphasis being on proactive approaches that prevent problems rather than on reactive crisis management.
Mitigation of hematologic radiation toxicity in mice through pharmacological quiescence induced by CDK4/6 inhibition (2010)

Total body irradiation (TBI) can induce lethal myelosuppression, due to the sensitivity of proliferating hematopoietic stem/progenitor cells (HSPCs) to ionizing radiation (IR). No effective therapy exists to mitigate the hematologic toxicities of TBI. Here, using selective and structurally distinct small molecule inhibitors of cyclin-dependent kinase 4 (CDK4) and CDK6, we have demonstrated that selective cellular quiescence increases radioresistance of human cell lines in vitro and mice in vivo. Cell lines dependent on CDK4/6 were resistant to IR and other DNA-damaging agents when treated with CDK4/6 inhibitors. In contrast, CDK4/6 inhibitors did not protect cell lines that proliferated independently of CDK4/6 activity. Treatment of wild-type mice with CDK4/6 inhibitors induced reversible pharmacological quiescence (PQ) of early HSPCs but not most other cycling cells in the bone marrow or other tissues. Selective PQ of HSPCs decreased the hematopoietic toxicity of TBI, even when the CDK4/6 inhibitor was administered several hours after TBI. Moreover, PQ at the time of administration of therapeutic IR to mice harboring autochthonous cancers reduced treatment toxicity without compromising the therapeutic tumor response. These results demonstrate an effective method to mitigate the hematopoietic toxicity of IR in mammals, which may be potentially useful after radiological disaster or as an adjuvant to anticancer therapy.
A placebo-controlled model for assaying systemic analgesics in children (1993)

To assess the sore throat pain model in children as an assay for systemic analgesic agents in children under double-blind, placebo-controlled conditions, we conducted a single-dose parallel study that compared 10 mg/kg ibuprofen (n = 39), a new analgesic agent for children, and 15 mg/kg acetaminophen (n = 38), an approved analgesic for children, to placebo (n = 39) in children from 2 to 12 years of age with acute sore throat. At 1/2, 1, 2, 3, 4, 5, and 6 hours (2 hours in the pediatrician's office followed by 4 hours at home), children assessed pain intensity with a pain thermometer and pain relief with a smiley-face scale. The parent and pediatrician assessed pain intensity and change in pain; the parent also provided an overall evaluation at 6 hours. The children rated ibuprofen and acetaminophen as significantly effective compared with placebo (p < 0.05) on both scales at most posttreatment time points and overall. The parent and pediatrician also rated both active medications as significantly different from placebo on both of their scales (p < 0.05) at several time points and overall. On the parent's overall evaluation, ibuprofen was rated as effective compared with placebo (p < 0.05). Both active agents significantly (p < 0.05) reduced oral temperature in children with baseline temperatures > 99 degrees F. No treatment-related adverse effects were observed. We conclude that the sore throat pain model is a sensitive assay for identification of the activity of oral analgesic drugs in children and that ibuprofen is an effective analgesic in children.
Wide Field Of View Optics Applied To Multi-User Optical Communication (1989)

It is proposed that a wide field of view optical system, fitted with multiple fovea of optical receivers and transmitters, could serve multiple ground and near earth clients from geosynch platforms. Payload advantages over a system with separate servers is discussed.A number of optical forms are suitable for this application. Approaches to interfacing the transceivers with the telescope and to moving them to maintain track of each client are suggested.
Reduction of bicyclo [3.2.0] hept-2-en-6-one with dehydrogenase enzymes in whole cell preparations of some fungi and yeasts (1983)

(±)-Bicyclo [3.2.0] hept-2-en-6-one (1) was reduced using a variety of fungi and yeasts. Bakers' yeast gave 6-exo-(1R,5S,6S)-bicyclo [3.2.0] hept-2-en-6-ol (2a) and 6-endo-(1S,5R,6S)-bicyclo[3.2.0]-hept-2-en-6-ol (3b) while Curvularia lunata and Mortierella ramanniana gave only the 6-endo-alcohol (3b) and optically active bicycloheptenone (1a). Under slightly modified reaction conditions (±)-6-endo-bicyclo [3.2.0] hept-2-en-6-ol was oxidized by bakers' yeast to give (1S,5R)-bicyclo [3.2.0] hept-2-en-6-one (1b) and the endo-alcohol (3a).
PGE2-regulated wnt signaling andN-acetylcysteine are synergistically hepatoprotective in zebrafish acetaminophen injury (2010)

Acetaminophen (APAP) toxicity is the most common drug-induced cause of acute liver failure in the United States. The only available treatment, N-acetylcysteine (NAC), has a limited time window of efficacy, indicating a need for additional therapeutic options. Zebrafish have emerged as a powerful tool for drug discovery. Here, we developed a clinically relevant zebrafish model of APAP toxicity. APAP depleted glutathione stores, elevated aminotransferase levels, increased apoptosis, and caused dose-dependent hepatocyte necrosis. These outcomes were limited by NAC and conserved in zebrafish embryos. In a targeted embryonic chemical screen, prostaglandin E2 (PGE2) was identified as a potential therapeutic agent; in the adult, PGE2 similarly decreased APAP-associated toxicity. Significantly, when combined with NAC, PGE2 extended the time window for a successful intervention, synergistically reducing apoptosis, improving liver enzymes, and preventing death. Use of a wnt reporter zebrafish line and chemical genetic epistasis showed that the effects of PGE2 are mediated through the wnt signaling pathway. Zebrafish can be used as a clinically relevant toxicological model amenable to the identification of additional therapeutics and biomarkers of APAP injury; our data suggest combinatorial PGE2 and NAC treatment would be beneficial for patients with APAP-induced liver damage.
Resistance of Common Groundsel to Simazine and Atrazine (1970)

Failure to control common groundsel (Senecio vulgaris L.) was observed in 1968 in a nursery where 2-chloro-4,6-bis(ethylamino)- s -triazine (simazine) or 2-chloro-4-(ethylamino)-6-(isopropylamino)- s -triazine (atrazine) had been used once or twice annually since 1958. Seedlings from seed collected at that location were not controlled by pre-emergence applications of simazine or atrazine at rates up to 17.92 kg/ha. Seedlings from a seed source where triazine herbicides had not been in continuous use were completely controlled by 1.12 or 2.24 kg/ha of either chemical, and partially controlled by 0.28 to 0.56 kg/ha. Postemergence applications of atrazine at 1.12, 2.24, or 4.48 kg/ha did not affect common groundsel from the nursery source, but killed small seedlings from the other source. Preemergence applications of four other herbicides were equally effective against seedlings from both sources.
Identification of human chromosome 22 transcribed sequences with ORF expressed sequence tags (2000)

Transcribed sequences in the human genome can be identified with confidence only by alignment with sequences derived from cDNAs synthesized from naturally occurring mRNAs. We constructed a set of 250,000 cDNAs that represent partial expressed gene sequences and that are biased toward the central coding regions of the resulting transcripts. They are termed ORF expressed sequence tags (ORESTES). The 250,000 ORESTES were assembled into 81,429 contigs. Of these, 1, 181 (1.45%) were found to match sequences in chromosome 22 with at least one ORESTES contig for 162 (65.6%) of the 247 known genes, for 67 (44.6%) of the 150 related genes, and for 45 of the 148 (30.4%) EST-predicted genes on this chromosome. Using a set of stringent criteria to validate our sequences, we identified a further 219 previously unannotated transcribed sequences on chromosome 22. Of these, 171 were in fact also defined by EST or full length cDNA sequences available in GenBank but not utilized in the initial annotation of the first human chromosome sequence. Thus despite representing less than 15% of all expressed human sequences in the public databases at the time of the present analysis, ORESTES sequences defined 48 transcribed sequences on chromosome 22 not defined by other sequences. All of the transcribed sequences defined by ORESTES coincided with DNA regions predicted as encoding exons by genscan. (http://genes.mit.edu/GENSCAN.html).
Visualizing and Understanding Deep Texture Representations (2015)

A number of recent approaches have used deep convolutional neural networks (CNNs) to build texture representations. Nevertheless, it is still unclear how these models represent texture and invariances to categorical variations. This work conducts a systematic evaluation of recent CNN-based texture descriptors for recognition and attempts to understand the nature of invariances captured by these representations. First we show that the recently proposed bilinear CNN model [25] is an excellent general-purpose texture descriptor and compares favorably to other CNN-based descriptors on various texture and scene recognition benchmarks. The model is translationally invariant and obtains better accuracy on the ImageNet dataset without requiring spatial jittering of data compared to corresponding models trained with spatial jittering. Based on recent work [13, 28] we propose a technique to visualize pre-images, providing a means for understanding categorical properties that are captured by these representations. Finally, we show preliminary results on how a unified parametric model of texture analysis and synthesis can be used for attribute-based image manipulation, e.g. to make an image more swirly, honeycombed, or knitted. The source code and additional visualizations are available at http://vis-www.cs.umass.edu/texture
FLOTAC, a novel apparatus for a multivalent faecal egg count technique. (2006)

Faecal egg count (FEC) techniques are widely used for parasitological diagnosis in humans and animals. They are also used to measure the prevalence and intensity of infections for epidemiological surveys, to quantify the efficacy of chemotherapies, and to detect anthelmintic resistance. They assess the number of parasitic elements (eggs, larvae, oocysts) present in the faecal samples, expressed per gram of faeces, and are based on the microscopic examination of an aliquot of faecal suspension from a known volume of a faecal sample. In the present paper a novel multivalent FEC technique, the FLOTAC technique, is described. It is based on flotation in centrifuge and translation of the apical portion of the floating suspension, and gives eggs/larvae/oocyst counts in quantities of faeces up to 1 gram. A novel apparatus, the FLOTAC, has been developed and patented in order to carry out this technique. It is a cylindrical-shaped device, made of unbreakable plastic, and holds two sample flotation chambers, which are 5 ml each for a total volume of 10 ml, with two ruled grids (18 x 18 mm). Each grid contains 12 equidistant ruled lines that are transparent, and hence permit the counting of parasitic elements under them. The FLOTAC apparatus is also very useful in order to recover parasitic elements after flotation.
A TDM/CDMA VSAT network integrating voice/data service and its operation management (1992)

A TDM/CDMA VSAT network is described in which the data and real-time vocoder service can be simultaneously provided. The network architecture, link design, switching equipment, communication protocol and network management etc. are given.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Use of magnetic techniques for the isolation of cells. (1999)

Magnetic separation is an emerging technology using magnetism, sometimes in combination with conventional separation or identification methods, to purify cells, cell organelles and biologically active compounds (nucleic acids, proteins, xenobiotics) directly from crude samples. Several magnetic separation procedures have been developed to isolate target cells specifically. The purpose of this short review is to summarize various methodologies, strategies and materials which can be employed for the selection and separation of target cells with the help of magnetic field and thus to help the novices in this field to be able to orient themselves in vast amount of literature available. Immunomagnetic separations employing specific antibodies to label the target cells represent the most often used approach and are discussed in detail.
Bifunktionelle Katalysatoren zur Synthese cyclischer Carbonate aus Oxiranen und Kohlendioxid (1986)

Preparation of Cyclic Carbonates from Oxiranes and Carbon Dioxide in the Presence of Bifunctional Catalysts Mixtures of metal halides and alkylammonium iodides catalyze the synthesis of cyclic carbonates 2 from oxiranes and carbon dioxide at room temperature and atmospheric pressure. The chemoselective reaction proceeds smoothly with mono‐substituted oxiranes while 1,2‐disubstituted substrates are inert. By the use of chiral oxiranes the reaction opens a simple access to chiral carbonates like ( R )‐ and ( S )‐4‐(chloromethyl)‐1,3‐dioxolan‐2‐one ( 2c ). Insertion of carbon dioxide into the CO bond occurs with retention of configuration and with optical yields of 73 – 98%.
Cytogenetic comparison of primary tumors and lymph node metastases in breast cancer patients (1998)

Chromosome banding analysis of primary tumors and axillary lymph node metastases from 10 breast cancer patients revealed abnormal karyotypes in all samples with cytogenetic similarities between the primary tumor and the metastasis in all informative pairs. Although karyotypically unrelated clones were also found in the lymph node samples, they were less numerous than in the primary tumors, indicating that there was more genetic heterogeneity among the neoplastic cells in the primary than in the secondary tumors. On the other hand, some of the clones had become more complex in the metastases as a result of clonal evolution, and by and large these metastatic breast cancer cases had more karyotypic anomalies than do unselected primary breast carcinomas. Among the aberrations occurring more frequently, and that consequently may predispose to disease spread, were losses of chromosomes 17 and 22 and homogeneously staining regions, a cytogenetic sign of gene amplification. Genes Chromosomes Cancer 22:122–129, 1998. © 1998 Wiley-Liss, Inc.
Morphological and immuno-cytochemical characterization of a hetero-spheroid composed of fibroblasts and hepatocytes (1992)

A novel method for the preparation of spheroids containing two types of cells (hetero-spheroid) has been successfully developed by utilizing a collagen-conjugated thermo-responsive polymer, poly-N-isopropyl acrylamide (PNIPAAm), as a cell substratum. PNIPAAm solidifies above its lower critical solution temperature (LCST, about 30 degrees C), and instantly dissolves into the culture medium below its LCST. We firstly seeded and cultured human dermal fibroblasts on the substratum up to a confluent state and then seeded rat primary hepatocytes onto the fibroblast monolayer. The heterospheroid was prepared by detaching the hepatocyte-attached fibroblast monolayer at a temperature below LCST and culturing it on the non-adhesive substratum. The surface area of the substratum and the seeding population ratio of each cell precisely and reproducibly regulated the size and the cell composition of the resulting hetero-spheroid, respectively. Histological and immuno-cytochemical observations of spheroids revealed characteristic organizations of fibroblasts and hepatocytes within a spheroid because the latter cells expressed albumin for up to at least 3 weeks. TEM study of the hetero-spheroid showed the presence of structures morphologically similar to the Disse's space and the bile canaliculus, which are features characteristic of liver. These findings suggest that the method described above is useful for making a hetero-spheroid that morphologically and functionally resembles tissues or organs in vivo, i.e. an organoid.
Using Engineered 2-O-Sulfotransferase to Determine the Activity of Heparan Sulfate C5-epimerase and Its Mutants (2010)

Heparan sulfate (HS) is involved in essential physiological and pathophysiological functions. HS is a highly sulfated polysaccharide consisting of glucuronic acid (or iduronic acid) linked to glucosamine carrying various sulfo groups. Biosynthesis of HS involves sulfotransferases and an epimerase. The HS C(5)-epimerase converts glucuronic acid to iduronic acid. The method for determining the activity has been cumbersome due to the use of a site-specifically (3)H-labeled polysaccharide substrate. Here, we report a two-enzyme coupling assay to determine the activity of C(5)-epimerase. HS 2-O-sulfotransferase (2OST) transfers the sulfo group to the 2-OH-position of glucuronic or iduronic acid. Unlike the wild type protein, 2-O-sulfotransferase mutant (2OST Y94I) transfers sulfate to the iduronic acid but not to the glucuronic acid. Thus, 2OST Y94I cannot sulfate N-sulfated heparosan, a polysaccharide containing glucuronic acid. Incubating N-sulfated heparosan with C(5)-epimerase converts some of the glucuronic acid to iduronic acid, thus becoming a substrate for 2OST Y94I. The susceptibility of the C(5)-epimerase-treated N-sulfated heparosan to 2OST Y94I modification directly correlates to the amount of the activity of C(5)-epimerase, proving that this two-enzyme coupling system can be used to assay for C(5)-epimerase. The method was further used to determine the activities of various C(5)-epimerase mutants. Our approach will significantly reduce the complexity for assaying the activity of C(5)-epimerase and facilitate the structural and functional analysis of C(5)-epimerase.
Fluoxetine: A Randomized Clinical Trial in the Maintenance of Weight Loss (1993)

Because current weight-reduction treatments have considerable recidivism, a therapy that could help patients maintain weight loss would be of benefit. A six-center, randomized, double-blind trial compared the effects of the specific serotonin uptake inhibitor, fluoxetine hydrochloride, and placebo on maintenance of weight loss. Obese outpatients who had lost > or = 3.6 kg after 8 weeks of single-blind fluoxetine 60 mg/day in the qualification phase (N=317 [70.4% of patients entered]; mean +/- standard deviation [SD] weight loss, 6.8 +/- 2.8 kg) were randomly assigned to fluoxetine 20 mg/day (N=104), fluoxetine 60 mg/day (N=106), or placebo (N=107) for 40 weeks (maintenance phase). Patients received minimal nutrition/dietary counseling. Qualification phase clinic visits were biweekly; maintenance phase visits were monthly for 4 months, then bimonthly for 6 months. Patients treated with fluoxetine 60 mg/day continued to lose weight for 8 additional weeks (16 weeks total; maximum mean +/- SD weight loss, 7.2 +/- 4.6 kg); those treated with fluoxetine 20 mg/day or placebo began to regain weight. Mean weights remained below baseline values at week 48 (all groups); treatment differences were not statistically significant. Study completion rates were comparable (fluoxetine 20 mg/day, 67.3%; fluoxetine 60 mg/day, 56.6%; placebo, 67.3%; p = 0.175). Among commonly reported adverse events (> 10% incidence), only asthenia was reported statistically significantly (p < 0.050) more frequently with fluoxetine than with placebo. Few patients discontinued for any single adverse event. Fluoxetine 60 mg/day was effective for a longer period than fluoxetine 20 mg/day or placebo in maintaining weight loss. Overall, fluoxetine was safe and well tolerated.
Regulation of Ras in lymphocytes: get a GRP (2006)

RasGRPs (guanine nucleotide releasing proteins) are a family of four GEFs (guanine nucleotide-exchange factors) (Ras GEFs) that positively regulate Ras and related small GTPases. RasGRP1 possesses a catalytic region consisting of a REM (Ras exchange motif) and a CDC25 (cell division cycle 25) domain. RasGRP1 also possesses a DAG (diacylglycerol)-binding C1 domain and a pair of EF hands that bind calcium. RasGRP1 is selectively expressed in lymphocytes as well as in some cells of the brain, kidney and skin. Functional analysis supports the hypothesis that RasGRP1 serves to couple TCR (T-cell receptor) stimulation and phospholipase C activation with Ras signalling. In B-cells, both RasGRP1 and RasGRP3 play a similar role downstream of the B-cell receptor. RasGRP2 acts on the Ras-related protein Rap and functions in platelet adhesion. RasGRP4 is expressed in mast cells and certain myeloid leukaemia cells. Membrane DAG regulates RasGRPs directly by recruitment to cellular membranes, as well as indirectly by protein kinase C-mediated phosphorylation. The properties of RasGRPs provide a novel view of Ras regulation in lymphocytes and explain several earlier observations. Many experimental results obtained with DAG analogues could be reviewed in light of these findings.
The Induction of Amenorrhoea (1992)

A survey has shown that many women favour eliminating menstruation and it has been suggested that therapeutic induction of amenorrhoea might be an advantage in female personnel mobilised for war. The traditional method has been to take the oral contraceptive pill continuously. This produces weight gain and other side-effects; spotting and breakthrough bleeding can be a problem initially. The method is however cheap. The Gonadotrophin Releasing Hormone (GnRH) analogue, goserelin, is extremely effective, produces less side-effects, but it is very expensive. Two synthetic steroids, danazol and gestrinone, are moderately effective, have a variety of prominent side-effects and are also quite expensive. With all these drugs normal menstruation resumes in the cycle after they are discontinued. Although goserelin has many advantages over the continuously taken contraceptive pill, its cost precludes it from consideration as a means of eliminating menstruation.