gebhart/patrepeval huggingface dataset:
Platelet-derived growth factor. Specific binding to target cells. (1982)

The binding of the human platelet-derived growth factor (PDGF) to Swiss mouse 3T3 cells have been investigated. The binding is specific and reversible. The dissociation constant is approximately 0.7 x 10(-9) M with approximately 400,000 binding sites/cell. Two forms of PDGF, PDGF I (Mr = 31,000) and PDGF II (Mr = 28,000), previously identified (Deuel, T. F., Huang, J. S., Proffitt, R. T., Baenziger, J. U., Chang, D., and Kennedy, B. B. (1981) J. Biol. Chem. 256, 8896-8899 and Deuel, T. F., Huang. J. S., Proffitt, R. T., Chang, D., and Kennedy, B. B. (1981) J. Supramol. Cell Biochem. 5 (Suppl.), 128) bind equally well to 3T3 cells. Polylysine and histone, but not cytochrome c, partially inhibit the binding of PDGF to 3T3 cells. Protamine sulfate blocks binding in a competitive manner and is capable of displacing PDGF previously bound to the cell surface. EDTA influenced neither the binding of PDGF to the cell surface nor the displacement of cell-bound PDGF. At 37 degrees C, PDGF bound to the cell surface is lost and iodotyrosine is released free into the supernatant, with each process having a t 1/2 of approximately 90 min. The binding activity of the putative PDGF receptor is markedly reduced by previous incubation with PDGF, thereby apparently regulating its activity in a manner similar to epidermal growth factor.
CuAAC synthesis of resorcin[4]arene-based glycoclusters as multivalent ligands of lectins (2011)

Synthetic multivalent glycoclusters show promise as anti-adhesives for the treatment of bacterial infections. Here we report the synthesis of a family of tetravalent galactose and lactose functionalised macrocycles based on the resorcin[4]arene core. The development of diastereoselective synthetic routes for the formation of lower-rim propargylated resorcin[4]arenes and their functionalistion via Cu-catalyzed azide-alkyne click chemistry is described. ELLA binding studies confirm that galactose sugar clusters are effective ligands for the PA-IL bacterial lectin of Pseudomonas aeruginosa while poor binding for the lactose-based monovalent probe and no binding could be measured for the multivalent glycoclusters was observed for the human galectin-1.
Expression of Endomembrane Calcium Pumps in Colon and Gastric Cancer Cells (2002)

Calcium mobilization from the endoplasmic reticulum (ER) into the cytosol is a key component of several signaling networks controlling tumor cell growth, differentiation, or apoptosis. Sarco/endoplasmic reticulum calcium transport ATPases (SERCA-type calcium pumps), enzymes that accumulate calcium in the ER, play an important role in these phenomena. We report that SERCA3 expression is significantly reduced or lost in colon carcinomas when compared with normal colonic epithelial cells, which express this enzyme at a high level. To study the involvement of SERCA enzymes in differentiation, in this work differentiation of colon and gastric cancer cell lines was initiated, and the change in the expression of SERCA isoenzymes as well as intracellular calcium levels were investigated. Treatment of the tumor cells with butyrate or other established differentiation inducing agents resulted in a marked and specific induction of the expression of SERCA3, whereas the expression of the ubiquitous SERCA2 enzymes did not change significantly or was reduced. A similar marked increase in SERCA3 expression was found during spontaneous differentiation of post-confluent Caco-2 cells, and this closely correlated with the induction of other known markers of differentiation. Analysis of the expression of the SERCA3 alternative splice isoforms revealed induction of all three known iso-SERCA3 variants (3a, 3b, and 3c). Butyrate treatment of the KATO-III gastric cancer cells led to higher resting cytosolic calcium concentrations and, in accordance with the lower calcium affinity of SERCA3, to diminished ER calcium content. These data taken together indicate a defect in SERCA3 expression in colon cancers as compared with normal colonic epithelium, show that the calcium homeostasis of the endoplasmic reticulum may be remodeled during cellular differentiation, and indicate that SERCA3 constitutes an interesting new differentiation marker that may prove useful for the analysis of the phenotype of gastrointestinal adenocarcinomas.
Targeted complement inhibition by C3d recognition ameliorates tissue injury without apparent increase in susceptibility to infection (2005)

Previous studies indicate a pivotal role for complement in mediating both local and remote injury following ischemia and reperfusion of the intestine. Here, we report on the use of a mouse model of intestinal ischemia/reperfusion injury to investigate the strategy of targeting complement inhibition to sites of complement activation by linking an iC3b/C3dg-binding fragment of mouse complement receptor 2 (CR2) to a mouse complement-inhibitory protein, Crry. We show that the novel CR2-Crry fusion protein targets sites of local and remote (lung) complement activation following intestinal ischemia and reperfusion injury and that CR2-Crry requires a 10-fold lower dose than its systemic counterpart, Crry-Ig, to provide equivalent protection from both local and remote injury. CR2-Crry has a significantly shorter serum half-life than Crry-Ig and, unlike Crry-Ig, had no significant effect on serum complement activity at minimum effective therapeutic doses. Furthermore, the minimum effective dose of Crry-Ig significantly enhanced susceptibility to infection in a mouse model of acute septic peritonitis, whereas the effect of CR2-Crry on susceptibility to infection was indistinguishable from that of PBS control. Thus, compared with systemic inhibition, CR2-mediated targeting of a complement inhibitor of activation improved bioavailability, significantly enhanced efficacy, and maintained host resistance to infection.
The mouse thymidylate synthase promoter: essential elements are in close proximity to the transcriptional initiation sites. (1989)

The promoter region of the mouse thymidylate synthase gene was analyzed by deletion and site-directed mutagenesis. Elimination of an upstream Sp1 element reduced expression threefold, whereas elimination of an adenovirus upstream stimulatory factor element had little effect. All of the upstream elements that are essential for promoter activity are located within 22 nucleotides of the first transcriptional initiation site.
Isoelectric focusing isozyme profiles and taxonomic distances among Fusarium species of the sections Arthrosporiella and Sporotrichiella. (1993)

Isozymes from 18 isolates representing seven species of the Fusarium sections Arthrosporiella and Sporotrichiella were compared by isoelectric focusing in polyacrylamide gels. Of the six enzyme systems tested esterase and malate dehydrogenase showed the largest variation. A numerical analysis of the pI values determined for acid phosphatase, esterase, glucose-6-phosphate dehydrogenase, malate dehydrogenase, phosphoglucose isomerase and phosphoglucomutase resulted in a dendrogam demonstrating the taxonomical relationships of the seven species. Fusarium avenaceum and Fusarium pallidoroseum were the two most closely related species. The high degree of isoenzyme dissimilarity among Fusarium chlamydosporum, Fusarium poae, Fusarium tricinctum, the fungi that produce pyriform or citriform microconidia, suggests that they are distinct species and their reduction to a variety level is not reasonable. The taxonomical distinctness of Fusarium camptoceras, a lesser known and rarely occurring fungus was also proven.
Plasma thrombospondin levels in patients with colorectal carcinoma (1998)

We read with great interest the article by Yamashita et al.,1 who suggest a direct correlation between the plasma thrombospondin level and the degree of venous invasion. Thrombospondin is a known agent that possesses important antiangiogenic activity.2-4 Therefore, the increase in plasma level of thrombospondin appears not to be related primarily to the process of invasion, but it is more likely to occur as a secondary event. With regard to the source of thrombospondin, it is believed that the majority of plasma thrombospondin is derived from platelets.5 Therefore one might question the influence of the plasma platelet count on the plasma thrombospondin level. It is unclear whether the patients had received any antiplatelet drugs prior to the venipuncture that possibly could lower the level of thrombospondin by affecting its potential source, the platelets.6 Thrombospondin is the major secretable glycoprotein of human platelets that is stored in α-granules and released after activation of platelets by various substances such as epinephrine, norepinephrine, vasopressin, and some infectious agents.7 Even without the effect of any substances, platelets do vary in number among different individuals physiologically. The platelet count in the venous blood of normal adults averages 250,000/μL (range, 140-440,000/μL).8 It could be expected that any alterations in plasma platelet count are reflected in the plasma thrombospondin level, at least to some extent. Nevertheless, even after measuring the platelet count one still cannot be sure there are no qualitative disorders of platelet function, such as deficient release reaction, in which the platelets aggregate normally in response to exogenous agonists, but fail to release normal amounts of endogenous substances including thrombospondin. We believe these points should have been clarified by both measuring the plasma platelet count and performing the platelet function tests.6 With regard to the source of thrombospondin, it should be remembered that thrombospondin is known to be synthesized by some tumor cell lines.9-11 In case it also is synthesized by colorectal carcinoma cells, one can theorize that there would be an additional effect on the plasma thrombospondin level, but more important, the existence of a probable correlation between the plasma thrombospondin level and the amount of colorectal carcinoma cells, rather than platelets, should be suspected. It then could be claimed that the increase in the plasma thrombospondin level and the degree of venous invasion might be coincident and the relation exists due to the late stage of colorectal carcinoma. Ibrahim H. Gullu M.D.*, Salih Marangoz M.D.*
Activity-Based Probes That Target Functional Subclasses of Phospholipases in Proteomes (2010)

Phospholipases are a large and diverse set of enzymes that metabolize the phospholipid components of cell membranes and function in key lipid-signaling pathways. The molecular characterization of novel phospholipases would benefit from chemical probes that selectively target these enzymes on the basis of their distinct substrate specificities and catalytic properties. Here we present the synthesis and characterization of a set of activity-based protein profiling (ABPP) probes that contain key recognition and reactivity elements for targeting phospholipases of the serine hydrolase superfamily. We show that these probes accurately report on the sn-1 and sn-2 substrate specificities of phospholipases in cell and tissue proteomes, including the sn-1-selective phospholipase DDHD1 and a calcium-dependent transacylase activity implicated in endocannabinoid biosynthesis. We anticipate that these phospholipase-directed ABPP probes will facilitate the discovery of new lipid-metabolizing enzymes and provide valuable insights into their substrate preferences.
Bacterial Infection in Chronic Obstructive Pulmonary Disease in 2000: a State-of-the-Art Review (2001)

Chronic obstructive pulmonary disease (COPD) is the fourth leading cause of death in the United States. The precise role of bacterial infection in the course and pathogenesis of COPD has been a source of controversy for decades. Chronic bacterial colonization of the lower airways contributes to airway inflammation; more research is needed to test the hypothesis that this bacterial colonization accelerates the progressive decline in lung function seen in COPD (the vicious circle hypothesis). The course of COPD is characterized by intermittent exacerbations of the disease. Studies of samples obtained by bronchoscopy with the protected specimen brush, analysis of the human immune response with appropriate immunoassays, and antibiotic trials reveal that approximately half of exacerbations are caused by bacteria. Nontypeable Haemophilus influenzae, Moraxella catarrhalis, and Streptococcus pneumoniae are the most common causes of exacerbations, while Chlamydia pneumoniae causes a small proportion. The role of Haemophilus parainfluenzae and gram-negative bacilli remains to be established. Recent progress in studies of the molecular mechanisms of pathogenesis of infection in the human respiratory tract and in vaccine development guided by such studies promises to lead to novel ways to treat and prevent bacterial infections in COPD.
Broad-band OFDM radio transmission for multimedia applications (1999)

Future multimedia services will require the transmission of very high data rates over broad-band radio channels. In order to provide these services to mobile users, an appropriate transmission technique has to cope with frequency-selective and time-variant radio channels. The computation complexity for an equalizer increases in a frequency-selective radio channel for high data rate applications. Furthermore, the overhead for channel estimation procedures increases in time-variant channels. To overcome these drawbacks orthogonal frequency division multiplexing (OFDM) has been considered for broadband applications in many publications. The objective of this paper is to describe the large potential, the flexibility and adaptivity of the OFDM transmission technique in frequency-selective and time variant radio channels. Several technical aspects of OFDM transmission systems are discussed, especially the topics of differential modulation for which we compare different demodulation methods and channel coding with soft decision decoding. For higher level differential modulation, multilevel coding is taken into consideration.
TheChlamydomonas IDA7Locus Encodes a 140-kDa Dynein Intermediate Chain Required to Assemble the I1 Inner Arm Complex (1998)

To identify new loci that are involved in the assembly and targeting of dynein complexes, we have screened a collection of motility mutants that were generated by insertional mutagenesis. One such mutant, 5B10, lacks the inner arm isoform known as the I1 complex. This isoform is located proximal to the first radial spoke in each 96-nm axoneme repeat and is an important target for the regulation of flagellar motility. Complementation tests reveal that 5B10 represents a new I1 locus, IDA7. Biochemical analyses confirm that ida7 axonemes lack at least five I1 complex subunits. Southern blots probed with a clone containing the gene encoding the 140-kDa intermediate chain (IC) indicate that the ida7 mutation is the result of plasmid insertion into the IC140 gene. Transformation with a wild-type copy of the IC140 gene completely rescues the mutant defects. Surprisingly, transformation with a construct of the IC140 gene lacking the first four exons of the coding sequence also rescues the mutant phenotype. These studies indicate that IC140 is essential for assembly of the I1 complex, but unlike other dynein ICs, the N-terminal region is not critical for its activity.
FOETAL BRAIN DEVELOPMENT IN THE SHEEP (1979)

The pattern of normal foetal brain development has been described for the Merino sheep. Controlled flock matings were used and foetuses removed by hysterotomy at 40, 54, 67, 81, 90, 95, 109, 121 and 150 days of gestation. Lambs at 7 days after birth and adults were also studied. The CNS was dissected, separated and weighed as four segments--cerebral hemispheres, brain stem, cerebellum and spinal cord. Determinations of DNA, RNA, protein, cholesterol and water content were subsequently carried out on each segment. Brain weight increased from 0.264 g (40 days) to 52.74 g at 150 days. The ratio to body weight decreased from 6.7% (40 days) to 1.5% (150 days). DNA increased more rapidly from 40 to 90 days in the cerebral hemispheres and brain stem than in the cerebellum and spinal cord and this increase preceded the main increase in weight. Increases in cholesterol and decreases in water content were also more marked in the cerebral hemispheres and brain stem. Increase in brain weight occurred in two phases, one up to 90 days followed by a more rapid and larger increase after 90 days which continued to birth. These two phases appear to reflect an increase in neuroblast multiplication followed by neuroglial multiplication and myelination respectively. At birth, brain weight had reached 50% of adult size, the cerebral hemispheres 52% of adult size, the cerebellum 40% and spinal cord 40%. The relative maturity of the brain at birth justifies the classification of the sheep as a prenatal brain developer.
Combinatorial Technologies Involving Reiterative Division/Coupling/Recombination: Statistical Considerations (1994)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTCombinatorial Technologies Involving Reiterative Division/Coupling/Recombination: Statistical ConsiderationsKevin Burgess, Andy I. Liaw, and Naisyin WangCite this: J. Med. Chem. 1994, 37, 19, 2985–2987Publication Date (Print):September 16, 1994Publication History Published online1 May 2002Published inissue 16 September 1994https://pubs.acs.org/doi/10.1021/jm00045a001https://doi.org/10.1021/jm00045a001research-articleACS PublicationsRequest reuse permissionsArticle Views162Altmetric-Citations61LEARN 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-AlertscloseSupporting Info (1)»Supporting Information Supporting Information Get e-Alerts
Effect of Molecular Weight and Salt Concentration on Conductivity of Block Copolymer Electrolytes (2009)

The ionic conductivity, σ, of mixtures of nearly symmetric polystyrene-block-poly(ethylene oxide) copolymers and Li[N(SO2CF3)2] (LiTFSI) salt was measured as a function of molecular weight, salt concentration, and temperature. The molecular weight of the poly(ethylene oxide) block, MPEO, was varied from 7 to 98 kg/mol. The molar ratio of lithium to ethylene oxide, r, was varied from 0.02 to 0.10. In general, σ increases with increasing MPEO for all values of r. The data can be summarized by plots of normalized conductivity, σn, versus MPEO, where σn = σ/(fϕPEOσPEO), ϕPEO is the PEO volume fraction in the copolymer, σPEO is the conductivity of PEO homopolymer, and f is a morphology-dependent factor set equal to 2/3 for our lamellar samples. The temperature-dependent conductivity data at a given salt concentration collapse onto a single curve when plotted in this format. At r = 0.085, σn values reach a plateau in the vicinity of unity in the high MPEO limit. At other values of r, σn continues to increase with MPEO within the experimental range and reaches a value of around 0.5 in the high MPEO limit.
Shotgun DNA sequencing using cloned DNase I-generated fragments (1981)

A method for DNA sequencing has been developed that utilises libraries of cloned randomly-fragmented DNA. The DNA to be sequenced is first subjected to limit attach by a non-specific endonuclease (DNase I in the presence of Mn++), fractionated by size and cloned in a single-stranded phage vector. Clones are then picked at random and used to provide a template for sequencing by the dideoxynucleotide chain termination method. This technique was used to sequence completely a 4257 bp EcoRI fragment of bovine mitochondrial DNA. The cloned fragments were evenly distributed with respect to the EcoRI fragment, and completion of the entire sequence required the construction of only a single library. In general, once a clone library has been prepared, the speed of this approach (greater than 1000 nucleotides of randomly selected sequence per day) is limited mainly by the rate at which the data can be processed. Because the clones are selected randomly, however, the average amount of new sequence information per clone is substantially diminished as the sequence near completion.
Cost of Migration: Invasion of Malignant Gliomas and Implications for Treatment (2003)

Tumors of glial origin consist of a core mass and a penumbra of invasive, single cells, decreasing in numbers towards the periphery and still detectable several centimeters away from the core lesion. Several decades ago, the diffuse nature of malignant gliomas was recognized by neurosurgeons when super-radical resections using hemispherectomies failed to eradicate these tumors. Local invasiveness eventually leads to regrowth of a recurrent tumor predominantly adjacent to the resection cavity, which is not significantly altered by radiation or chemotherapy. This raises the question of whether invasive glioma cells activate cellular programs that render these cells resistant to conventional treatments. Clinical and experimental data demonstrate that glioma invasion is determined by several independent mechanisms that facilitate the spread of these tumors along different anatomic and molecular structures. A common denominator of this cellular behavior may be cell motility. Gene-expression profiling showed upregulation of genes related to motility, and functional studies demonstrated that cell motility contributes to the invasive phenotype of malignant gliomas. There is accumulating evidence that invasive glioma cells show a decreased proliferation rate and a relative resistance to apoptosis, which may contribute to chemotherapy and radiation resistance. Interestingly, interference with cell motility by different strategies results in increased susceptibility to apoptosis, indicating that this dynamic relationship can potentially be exploited as an anti-invasive treatment paradigm. In this review, we discuss mechanisms of glioma invasion, characteristics of the invasive cell, and consequences of this cellular phenotype for surgical resection, oncologic treatments, and future perspectives for anti-invasive strategies.