gebhart/patrepeval huggingface dataset:
Cloning of novel kinectin splice variants with alternative C‐termini: Structure, distribution and evolution of mouse kinectin (1996)

The analysis of cDNA clones encoding novel variant forms of mouse kinectin, an endoplasmic reticulum (ER)-bound receptor for the motor protein kinesin, is reported. Kinesin and cytoplasmic dynein are involved in mediating the anterograde and retrograde movements of intracellular vesicles along the microtubule network. The amino acid sequence deduced from kinectin cDNA isolated from mouse spleen cell and testis libraries revealed a long signal peptide or transmembrane sequence, and a 328 amino acid residue globular N-terminal domain adjacent to a much larger 858-999-residue C-terminal coiled-coil rod domain. The C-terminal domain was composed of 18 coiled-coil regions formed from multiple contiguous heptad repeats which undergo alternative splicing as evidenced by the presence of at least five small (23-33 amino acid residue) insertion sequences scattered throughout. The inserts are present in any one of a number of combinations, generating an array of novel kinectin variants. Insert 5 contains a termination codon, producing a C-terminus that is highly homologous to that of human kinectin. Three out of five mouse kinectin clones lack insert 5, generating a novel eleven amino acid C-terminus encoded by sequence that extends past the insertion site. The existence of alternative C-termini may have functional relevance given that the C-termini are exposed for interaction with kinesin, whereas the globular N-terminus is embedded in the ER membrane. Alternative C-termini represent candidate modifications that could determine specificity of binding to kinesin or cytoplasmic dynein, and the switching of directionality of movement. The cDNA hybridized to 4.5 kb transcripts expressed in all mouse cell lines and tissues examined, which provides the first indication that the kinectins are very widely distributed. Mouse kinectin is 42% similar over a 203 amino acid region to the chicken extracellular cardiac morphogen ES/130, whose canine homologue containing an inserted sequence of 10 amino acids repeated 54 times in tandem, is a ribosome receptor expressed on the ER. Mouse kinectin shares 64 and 83% identity, respectively, with its M(r) 160000 chicken and human kinectin homologues. There is a two-fold molar excess of kinectin over kinesin in unextracted vesicles, suggesting that kinectin might be a dimer. The electrostatic properties of the coiled-coil region of mouse kinectin, together with the relative frequencies of residues in particular positions within the heptad repeats support this notion.
Exploiting Chemical Libraries, Structure, and Genomics in the Search for Kinase Inhibitors (1998)

Selective protein kinase inhibitors were developed on the basis of the unexpected binding mode of 2,6,9-trisubstituted purines to the adenosine triphosphate-binding site of the human cyclin-dependent kinase 2 (CDK2). By iterating chemical library synthesis and biological screening, potent inhibitors of the human CDK2-cyclin A kinase complex and of Saccharomyces cerevisiae Cdc28p were identified. The structural basis for the binding affinity and selectivity was determined by analysis of a three-dimensional crystal structure of a CDK2-inhibitor complex. The cellular effects of these compounds were characterized in mammalian cells and yeast. In the latter case the effects were characterized on a genome-wide scale by monitoring changes in messenger RNA levels in treated cells with high-density oligonucleotide probe arrays. Purine libraries could provide useful tools for analyzing a variety of signaling and regulatory pathways and may lead to the development of new therapeutics.
Calibrating your orchard sprayer (2007)

The costs of fungicides, miticides, insecticides, foliar nutrients, wetting agents and plant growth regulators continue to increase. For a full spray program on apples, for example, the cost of spray materials alone could cost $800 to $1700 per acre per year. A poorly calibrated sprayer applying an average of 10% more material than intended, directly increases production costs by $80 to $170 per acre. Nozzles on sprayers wear out over time, and flow rates increase as nozzles wear, with worn nozzles eventually increasing flow rates by 10% or more. Financially sound management requires carefully calibrating orchard sprayers to optimize the benefits from applying spray materials.
NF-&#954;B, a Potential Therapeutic Target for the Treatment of Multiple Sclerosis (2008)

Multiple sclerosis (MS) is a chronic inflammatory autoimmune disease of the central nervous system (CNS) that afflicts over 2 million people worldwide. On the basis of the temporal course of disease, MS can be subdivided into three clinical groups: relapsing remitting MS (RR-MS), secondary progressive MS and primary progressive MS. There is a high degree of clinical diversity within these subgroups. The pathogenesis of MS in most patients is likely to result from autoreactive, activated CD4(+) T cells moving from the periphery across the blood brain barrier into the CNS. Most therapeutic agents used in MS (e.g. immunosuppressive and immunomodulatory drugs and cell cycle interruption drugs) are only used for RR-MS. These treatments show some efficiency in lessening the relapse rate in RR-MS and time to progression, but cannot cure MS. Thus, there is a need for new efficient treatments for all types of MS. An increasing number of studies indicate that nuclear factor-kappaB plays an important role in controlling expression of genes relevant to the pathogenesis of autoimmunity. Genetic factors related to NF-kappaB may also be determinants of MS susceptibility, as polymorphisms in the molecules involved in regulation of the NF-kappaB signal transduction pathway differ between RR-MS and progressive MS. Herein, the role of NF-kappaB in MS will be reviewed and its potential as a new therapeutic target in MS will be considered and compared with existing treatments.
Model of Human Transitional Cell Carcinoma: Tumor Xenografts in Upper Urinary Tract of Nude Rat (1995)

An in vivo model for the study of human transitional cell carcinoma (TCC) in the urinary tract is desirable. Orthotopic xenografts are useful in order to approximate better the behavior of human tumor cells in situ. Prior models have been described in the urinary bladder of the nude mouse and rat. We have developed the first model of implantation of human TCC in the upper urinary tract of an experimental animal. The kidneys of homozygous nude rats 4 weeks of age were inoculated with 1-5 x 10(6) cells of the RT4 well-differentiated papillary human TCC line through bilateral flank incisions, with transparenchymal injection of tumor cells into either the collecting system (renal pelvis) or the parenchyma. The overall implantation rate was 92% (54/59 kidneys). However, implantation into the collecting system occurred in only 45% (18/45) of the group. Ligation of the ureter prior to inoculation to produce urine stasis improved the mucosal implantation rate. Despite suspect urine cytology findings in the renal pelvis injection group, no distal seeding of the urinary tract was seen. Intraparenchymal tumor growth was less differentiated and had a higher fraction of mitotic cells than mucosal tumors. Vascular and lymphatic invasion were commonly seen; however, distant metastasis was not observed. This model will prove useful in determining the role of seeding in recurrent disease and in developing less invasive modalities for the treatment of upper tract TCC.
[Thrombectomy or thrombolysis in the treatment of proximal phlebitis. Functional long term results]. (1989)

MATERIALS AND METHODS Between 1981 and 1985, 78 iliocaval thrombi were treated by aggressive therapy: 52 surgical thrombectomies were performed by a femoral approach associated, depending on the case, with a caval approach; and 26 iliofemoral thrombi were lysed according to a protocol in which urokinase and plasminogen were used over a 48-h period. Subsequent functional evaluation was based on clinical scoring (0 to 9 points) taking into account functional impairment, edema and trophic disorders. Patency of trunks and the deep valvular state were assessed by Doppler examination and plethysmography. RESULTS In the surgical group, 3 early deaths occurred, only one of which could be attributed to an embolic course. Six weeks after surgery the rate of recurrence of iliac thrombosis was 50% (25% postoperative + 25% secondary). Beyond this period, there were no recurrences of thrombosis. There was a direct, statistically significant relation between the degree of iliac patency and the realization of an ideal thrombectomy on a nonadherent fresh clot. The functional results, assessed after four and a half years of follow-up, are satisfactory (score less than 3) in 80% of patients. The poor results with venous claudication or varicose ulcer all occurred in the case of massive persistent thrombi of the femoral confluence. Valve lesions were signaled in 46% of patients by a massive backflow in orthostatism. In the medical group, a major hemorrhagic complication occurred under urokinase therapy in 11% of patients, including one for whom it was fatal. Sixty percent of patients showed immediate radiological improvement allowing partial or total freeing of a venous confluence. The functional results after 4 years of follow-up were nondisabling in 85% of patients. No leg ulcers were detected. Late iliac patency was low (26%), whereas at the femoral level almost all of the thrombi which remained after lysis became patent again spontaneously. Valve failure was found in 37% of patients. Both groups had very similar late functional results despite rather different anatomical conditions. The iliac patency rate was higher in the surgical group (50% vs 26%), but plethysmographic study showed that in case of therapeutic failure devalvulation was greater after surgery (46% vs 37%).
Histologic characteristics and local cellular immunity of the gland of the third eyelid after topical ophthalmic administration of 2% cyclosporine for treatment of dogs with keratoconjunctivitis sicca (2002)

Topical administration of a 2% solution of CsA was effective for the treatment of dogs with KCS. Strict follow-up monitoring is required after the cessation of treatment because of the possibility of recurrence of KCS.
Significantly Improved Analytical Sensitivity of Lateral Flow Immunoassays by Using Thermal Contrast (2012)

Heat beyond visual: The thermal contrast from the heating of gold nanoparticles upon laser stimulation can improve the analytical sensitivity of lateral flow assays (LFAs; see picture). A 32-fold improvement in sensitivity of an approved LFA for cryptococcal antigen (purple diamond) was shown, with the potential for further improvement by optimizing the backing material and the properties of the antibody-coated nanoparticles (red circle with blue Y).
Adding domain specificity to an MT system (2001)

In the development of a machine translation system, one important issue is being able to adapt to a specific domain without requiring time-consuming lexical work. We have experimented with using a statistical word-alignment algorithm to derive word association pairs (French-English) that complement an existing multi-purpose bilingual dictionary. This word association information is added to the system at the time of the automatic creation of our translation pattern database, thereby making this database more domain specific. This technique significantly improves the overall quality of translation, as measured in an independent blind evaluation.
Case-Based Reasoning and Imaging Procedure Selection (1994)

Case-based reasoning can be applied successfully to the selection of diagnostic imaging procedures and holds potential for use in clinical decision support aids. Further work is necessary to realize a clinically useful system.
Isolation, chemical composition, and molecular size of extracellular type II and type Ia polysaccharides of group B streptococci (1983)

Polysaccharides carrying the type II- and type Ia-specific determinants of Lancefield group B streptococci were isolated and purified by anion-exchange chromatography and gel filtration from the supernatant culture medium after growth of strain 18RS21/67/1 (type II) and strain DS/1204/78 (type Ia), respectively. The average molecular weights of these polysaccharides were 97,000 (type II) and 94,000 (type Ia), as determined by reducing end group analyses. These molecular weights were in reasonably good agreement with molecular weights determined by gel filtration at high ionic strength on calibrated columns. The polysaccharides did not cross-react with antisera specific for the other type-specific determinants or with group B-specific antisera. Their content of galactose, glucose, glucosamine, and neuraminic acid (the last two calculated as N-acetyl derivatives) accounted for over 96% of their dry weight. The two polysaccharides differed from each other (and from type III polysaccharide) in their relative content of these monosaccharides. The molar ratios of galactose, glucose, and neuraminic acid to glucosamine were 3.3:2.3:1.35:1.0 for the type II polysaccharide and 2.0:0.8:1.4:1.0 for the type Ia polysaccharides. The results obtained indicate that these extracellular type II and Ia polysaccharides contain larger amounts of neuraminic acid than can be accounted for by previously proposed structures of their repeating units.
SOA in Practice (2007)

This book demonstrates service-oriented architecture (SOA) as a concrete discipline rather than a hopeful collection of cloud charts. Built upon the author's firsthand experience rolling out a SOA at a major corporation, SOA in Practice explains how SOA can simplify the creation and maintenance of large-scale applications. Whether your project involves a large set of Web Services-based components, or connects legacy applications to modern business processes, this book clarifies how -- and whether -- SOA fits your needs. SOA has been a vision for years. This book brings it down to earth by describing the real-world problems of implementing and running a SOA in practice. After defining SOA's many facets, examining typical use patterns, and exploring how loose coupling helps build stronger applications, SOA in Practice presents a framework to help you determine when to take advantage of SOA. In this book you will: Focus squarely on real deployment and technology, not just standards mapsExamine business problems to determine which ones fit a SOA approach before plastering a SOA solution on top of themFind clear paths for building solutions without getting trapped in the mire of changing web services detailsGain the experience of a systems analyst intimately involved with SOA The principles and experiences described in this book played an important role in making SOA at T-Mobile a success story, with more than 10 million service calls per day. --Dr. Steffen Roehn, Member of the Executive Committee T-Mobile International (CIO) Nicolai Josuttis has produced something that is rare in the over-hyped world of SOA; a thoughtful work with deep insights based on hands-on experiences. This book is a significant milestone in promoting practical disciplines for all SOA practitioners. --John Schmidt, Chairman, Integration Consortium The book belongs in the hands of every CIO, IT Director and IT planning manager. --Dr. Richard Mark Soley, Chairman and CEO, Object Management Group; Executive Director, SOA Consortium
Pulsed Field Ablation Versus Radiofrequency Ablation (2020)

In this novel porcine model of esophageal injury, biphasic PFA induced no chronic histopathologic esophageal changes, while RFA demonstrated a spectrum of esophageal lesions including fistula and deep esophageal ulcers and abscesses.
Intermolecular energy transfer in the bioluminescent system of Aequorea (1974)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTIntermolecular energy transfer in the bioluminescent system of AequoreaHiroshi Morise, Osamu Shimomura, Frank H. Johnson, and John WinantCite this: Biochemistry 1974, 13, 12, 2656–2662Publication Date (Print):June 1, 1974Publication History Published online1 May 2002Published inissue 1 June 1974https://pubs.acs.org/doi/10.1021/bi00709a028https://doi.org/10.1021/bi00709a028research-articleACS PublicationsRequest reuse permissionsArticle Views4481Altmetric-Citations331LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
X-ray mask process-induced distortion study (1991)

X-ray masks for fabrication of 0.25 μm ultralarge-scale-integration devices have to meet very tight pattern placement requirements. Because of the nature of x-ray mask substrates, control of the distortion caused by the processing of the mask after e-beam lithography is important. The pattern placement distortions that occur during the processing of an x-ray mask are examined, and the effect of gold absorber electroplating, e-beam-resist strip, and plating-base strip processes are studied. It has been found that x-ray mask process-induced distortion is very sensitive to the amount of gold coverage and the connectivity of the gold pattern.
Endocytosis and Cancer (2013)

Endocytosis entails selective packaging of cell-surface proteins, such as receptors for cytokines and adhesion components, in cytoplasmic vesicles (endosomes). The series of sorting events that determines the fate of internalized proteins, either degradation in lysosomes or recycling back to the plasma membrane, relies on intrinsic sequence motifs, posttranslational modifications (e.g., phosphorylation and ubiquitination), and transient assemblies of both Rab GTPases and phosphoinositide-binding proteins. This multicomponent process is enhanced and skewed in cancer cells; we review mechanisms enabling both major drivers of cancer, p53 and Ras, to bias recycling of integrins and receptor tyrosine kinases (RTKs). Likewise, cadherins and other junctional proteins of cancer cells are constantly removed from the cell surface, thereby disrupting tissue polarity and instigating motile phenotypes. Mutant forms of RTKs able to evade Cbl-mediated ubiquitination, along with overexpression of the wild-type forms and a variety of defective feedback regulatory loops, are frequently detected in tumors. Finally, we describe pharmacological attempts to harness the peculiar endocytic system of cancer, in favor of effective patient treatment.
A simple, fluorescent method to internally label platelets suitable for physiological measurements (1997)

Current methods for studying platelet survival in vivo are limited by the use of radioisotopes, with their inherent safety and regulatory concerns, systemic drug administrations that produce biochemical modifications of platelet functions, or external labeling techniques, which may produce artifacts due to surface modifications. For these reasons, we sought to develop a simple, nonisotopic method for labeling platelets internally, thereby producing platelets more likely to have in vivo properties equivalent to native cells. Murine platelets in protein-free buffer were fluorescently labeled internally by incubation with 2.5 microM 5-chloromethyl fluorescein diacetate (CMFDA), and without washing, were injected into mice for platelet survival studies. CMFDA-labeled platelets were unactivated, as shown by minimal P-selectin expression. When tested in vitro for function by aggregometry, the response of CMFDA-labeled platelets to collagen and thrombin was identical to that of unlabeled platelets. Flow cytometric analysis demonstrated that CMFDA platelets were an intensely stained, unimodal population that was completely separated from unlabeled platelets. The mean half-life of labeled platelets in the murine circulation was 37.5 +/- 4.5 hr (+/-1 SD), and the mean survival time was 3.1-3.3 days (n = 24), similar to results reported using 51Cr and (111)In. No evidence of in vivo transfer of dye from labeled platelets to unlabeled cells was observed. CMFDA produces a population of platelets that are nonradioactively, internally labeled with a highly fluorescent, stable product. The labeled platelets function equivalently to native platelets, as demonstrated by immunocytometry and aggregometry, and importantly, in vivo, by normal platelet survival.
Suzuki–Miyaura Coupling Reaction by PdII‐Catalyzed Aromatic CH Bond Activation Directed by an N‐Alkyl Acetamino Group (2007)

A seamless join: An efficient method to construct a C(sp2)C(sp2) bond has been developed by using a Suzuki–Miyaura-type coupling of N-alkyl acetanilides with boronic acids. The reaction was catalyzed by a PdII species and the CH bond activation was directed by the acetamino group (see scheme). This reaction offers a halogen-free method to construct complicated structures.
Childhood autoimmune hepatitis in a paediatric unit of a tertiary care hospital (2014)

AIH is a rare but important cause of liver pathology. Children in this region with elevated aminotransferases or unexplained hepatomegaly should be screened for AIH.
Regulation of the Protein Kinase PKR by the Vaccinia Virus Pseudosubstrate Inhibitor K3L Is Dependent on Residues Conserved between the K3L Protein and the PKR Substrate eIF2α (1997)

The mammalian double-stranded RNA-activated protein kinase PKR is a component of the cellular antiviral defense mechanism and phosphorylates Ser-51 on the alpha subunit of the translation factor eIF2 to inhibit protein synthesis. To identify the molecular determinants that specify substrate recognition by PKR, we performed a mutational analysis on the vaccinia virus K3L protein, a pseudosubstrate inhibitor of PKR. High-level expression of PKR is lethal in the yeast Saccharomyces cerevisiae because PKR phosphorylates eIF2alpha and inhibits protein synthesis. We show that coexpression of vaccinia virus K3L can suppress the growth-inhibitory effects of PKR in yeast, and using this system, we identified both loss-of-function and hyperactivating mutations in K3L. Truncation of, or point mutations within, the C-terminal portion of the K3L protein, homologous to residues 79 to 83 in eIF2alpha, abolished PKR inhibitory activity, whereas the hyperactivating mutation, K3L-H47R, increased the homology between the K3L protein and eIF2alpha adjacent to the phosphorylation site at Ser-51. Biochemical and yeast two-hybrid analyses revealed that the suppressor phenotype of the K3L mutations correlated with the affinity of the K3L protein for PKR and was inversely related to the level of eIF2alpha phosphorylation in the cell. These results support the idea that residues conserved between the pseudosubstrate K3L protein and the authentic substrate eIF2alpha play an important role in substrate recognition, and they suggest that PKR utilizes sequences both near and over 30 residues from the site of phosphorylation for substrate recognition. Finally, by reconstituting part of the mammalian antiviral defense mechanism in yeast, we have established a genetically useful system to study viral regulators of PKR.