gebhart/patrepeval huggingface dataset:
Selective Estrogen Receptor Modulators (2003)

Because of recent concerns about the long-term risks of estrogen replacement therapy in postmenopausal women, there is growing interest in a group of compounds known as selective estrogen receptor modulators (SERMs). The SERMs bind to estrogen receptors and have tissue-specific effects that allow them to function as estrogen agonists in some tissues and estrogen antagonists in other tissues. There are four SERMs currently marketed in the United States. These include the triphenylethylenes--clomiphene citrate (Clomid), tamoxifen, and toremifene--and the benzothiophene, raloxifene. Clomid is used primarily in the treatment of infertility. Tamoxifen is indicated for the treatment and prevention of breast cancer. It has an estrogen antagonist effect on breast tissue, but an estrogen-like effect on lipids, bone, and the endometrium. Toremifene has an antagonist/agonist profile similar to that of tamoxifen. Raloxifene is approved for the prevention of osteoporosis in postmenopausal women. It is thought to be an estrogen antagonist on the uterus and breast tissues and an estrogen agonist with respect to bone and serum lipids.
Continuous monitoring of cerebrovascular pressure reactivity allows determination of optimal cerebral perfusion pressure in patients with traumatic brain injury (2002)

CPPOPT could be identified in a majority of patients. Patients with a mean CPP close to CPPOPT were more likely to have a favorable outcome than those whose mean CPP was more different from CPPOPT. We propose use of the criterion of minimal achievable PRx to guide future trials of CPP oriented treatment in head injured patients.
Mechanistic studies on dopamine .beta.-monooxygenase catalysis: N-dealkylation and mechanism-based inhibition by benzylic-nitrogen-containing compounds. Evidence for a single-electron-transfer mechanism (1987)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTMechanistic studies on dopamine .beta.-monooxygenase catalysis: N-dealkylation and mechanism-based inhibition by benzylic-nitrogen-containing compounds. Evidence for a single-electron-transfer mechanismKandatege Wimalasena and Sheldon W. MayCite this: J. Am. Chem. Soc. 1987, 109, 13, 4036–4046Publication Date (Print):June 1, 1987Publication History Published online1 May 2002Published inissue 1 June 1987https://doi.org/10.1021/ja00247a033RIGHTS & PERMISSIONSArticle Views855Altmetric-Citations42LEARN 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 InReddit PDF (1 MB) Get e-Alertsclose Get e-Alerts
Plasma interaction with microbes (2003)

The germicidal effects of a non-equilibrium atmospheric pressure plasma generated by a novel resistive barrier discharge on representatives of the two classes of bacteria (Gram-negative and Gram-positive) are discussed. The plasma exposure, while being lethal to both bacterial classes, also produced gross structural damage in the Gram-negative E. coli while none was observed in the more structurally robust Gram-positive Bacillus subtilis. An electrophysical process involving the role of the electrostatic tension on a charged body in a plasma is invoked to explain both observations. Since the efficacy of this electrophysical process depends not only on the tensile strength of the bacterial cell wall but also on its shape and texture, the need for more experimental studies, using a wide range of bacteria belonging to various morphological groups, is suggested. Ways to further test the validity of this electrophysical lysis mechanism for Gram-negative bacteria on one hand, and also to extend its operation to the more robust Gram-positive bacteria on the other, are suggested.
Efficient Reassignment of a Frequent Serine Codon in Wild-Type Escherichia coli (2015)

Expansion of the genetic code through engineering the translation machinery has greatly increased the chemical repertoire of the proteome. This has been accomplished mainly by read-through of UAG or UGA stop codons by the noncanonical aminoacyl-tRNA of choice. While stop codon read-through involves competition with the translation release factors, sense codon reassignment entails competition with a large pool of endogenous tRNAs. We used an engineered pyrrolysyl-tRNA synthetase to incorporate 3-iodo-l-phenylalanine (3-I-Phe) at a number of different serine and leucine codons in wild-type Escherichia coli. Quantitative LC-MS/MS measurements of amino acid incorporation yields carried out in a selected reaction monitoring experiment revealed that the 3-I-Phe abundance at the Ser208AGU codon in superfolder GFP was 65 ± 17%. This method also allowed quantification of other amino acids (serine, 33 ± 17%; phenylalanine, 1 ± 1%; threonine, 1 ± 1%) that compete with 3-I-Phe at both the aminoacylation and decoding steps of translation for incorporation at the same codon position. Reassignments of different serine (AGU, AGC, UCG) and leucine (CUG) codons with the matching tRNA(Pyl) anticodon variants were met with varying success, and our findings provide a guideline for the choice of sense codons to be reassigned. Our results indicate that the 3-iodo-l-phenylalanyl-tRNA synthetase (IFRS)/tRNA(Pyl) pair can efficiently outcompete the cellular machinery to reassign select sense codons in wild-type E. coli.
Highly Active Two-Photon Dyes:  Design, Synthesis, and Characterization toward Application (1998)

A series of compounds with systematically varied molecular structures which exhibit very large effective two-photon cross sections has been synthesized and characterized in solution using a nonlinear transmission technique. The general structure of these compounds can be categorized into two basic structural families: acceptor/donor/donor/acceptor and donor/bridge/acceptor. This study attempts to determine certain molecular structure/effective two-photon absorption relationships by careful characterization and as a function of systematically varied changes in the organic structure of the dye molecules. Such information can be useful in the design of more efficient two-photon dyes for imaging and power-limiting applications. The results of the study indicate that with the incorporation of certain combinations of structural elements, dyes can be synthesized which have greatly increased effective cross sections as high as 152.5 × 10-48 cm4 s/photon molecule in benzene solution at 800 nm using 8 ns pulses. This value is orders of magnitude higher than commercially available organic dyes measured at the same wavelength. Although the process is thought to involve a combination of two-photon absorption and excited state absorption phenomena, the information gathered from these new families of dyes has provided an important first step in producing improved materials for use in many different two-photon technology application.
[Ultrasonic technologies in diagnosis and treatment of patients with surgical diseases of lungs and pleura]. (2003)

The results of complex examination and treatment of 376 patients with different diseases of the lungs and pleura were analyzed. High-frequency ultrasound was used in 256 patients for diagnosis of lungs and pleura surgical diseases, 412 ultrasonic examinations were performed. Intraoperative treatment of pleura with low-frequency ultrasound was carried out 134 times for prophylaxis and treatment of acute postoperative pleura empyema in 120 patients operated on for malignant tumors and chronic purulent diseases of the lungs. High efficacy of high-frequency ultrasound for diagnosis of pleura empyema, diffuse and encapsulated pleurisy is demonstrated. Ultrasound-assisted pleural punctures an transthoracic aspiration biopsies permit to avoid complications. Ultrasonic examination of the lungs during surgery in patient suspected of lung cancer permits to study tumor structure. Treatment of pleura with low-frequency ultrasound and combination of this method with photodynamic therapy promote reliable sanation of pleural cavity. Limited rethoracotomy and treatment of pleura with low-frequency ultrasound is the method of choice in the treatment of acute postoperative empyema when there is no effect of conservative treatment.
Medical-concept Models and Medical Records: An Approach Based on GALEN and PEN&PAD (1995)

The compositional approach plus the PEN&PAD medical-record model allowed detailed information in the radiographic report to be represented, including information about the inferences and the clinical process. The resulting representation was large, and more compact representations may be necessary for some systems. Alternative encapsulations of the information as might be used in such systems were successfully prepared. The compositional approach avoided many issues that often cause controversy in the design of traditional coding and classification systems, but it raised other issues, including the handling of ambiguity and underspecification, linkage to information not explicitly present in the report, and questions concerning the focus of individual concepts. All work is preliminary and definitive conclusions await further studies and systematic evaluation.
Effect of ligand on the synthesis of star polymers by resorcinarene‐based ATRP initiators (2005)

Abstract The effect of the steric hindrance on the initiating properties of two multifunctional resorcinarene‐based initiators in atom transfer radical polymerization (ATRP) was studied by using Cu(I)‐complexes of three multidentate amine ligands in the polymerization of tert ‐butyl acrylate and methyl methacrylate. These ligands are less sterically hindered and have higher activities in the catalysis of ATRP of (meth)acrylates than 2,2′‐bipyridine. The polymerizations were faster and more controlled than with the 2,2′‐bipyridyl catalyst, but the tendency for bimolecular coupling increased. Even though the initiator was octafunctional, the resulting star polymers had only four arms. This indicates that the steric hindrance arising from the conformations of the initiators determines the structure of the polymer, but the ligand noticeably affects the controllability of the polymerization © 2005 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem 43: 3349–3358, 2005
Intrapericardial, Intrapleural, and Intracardiac Pressures during Acute Heart Failure in Dogs Studied without Thoracotomy (1966)

Pressures at multiple sites in the thorax of supine anesthetized dogs were recorded simultaneously with fluid-filled catheters inserted percutaneously. Pleural and pericardial pressures were corrected to the level of their respective recording catheter tips as determined by roentgenograms. Intracardiac pressures were referred to the midthoracic coronal plane or to the vertical level of the pericardial catheter tip. Pericardial pressures at end-expiration averaged -5.0 cm H 2 O (range 0 to - 13) and varied with the vertical position of the catheter tip, becoming less negative as the height above the midthoracic coronal plane diminished. Acute right heart failure was produced by partial obstruction of the pulmonary artery by a catheter-tip balloon. Although mean right atrial pressure increased by an average of 26 cm H 2 O, consistent increases in pericardial pressure did not occur. Similarly, during acute obstruction to left ventricular outflow by inflation of a balloon within the thoracic aorta, left atrial end-diastolic pressure increased by an average of 14.5 cm H 2 O, but no consistent increase in pericardial pressure was recorded. No systematic changes in pleural pressure were detected in either case. Thus there was no evidence of pericardial restriction of cardiac dilatation during acute heart failure under these experimental conditions.
Structure and function relationship of Pseudomonas exotoxin A (1989)

We have raised antisera against Pseudomonas exotoxin A (PE) and domains Ia and III to study the structure-function relationships of PE. Anti-PE antibody (AbPE) was shown to abolish the ADP-ribosylation activity of PE. However, neither antidomain Ia antibody nor antidomain III antibody inhibited the ADP-ribosylation activity of PE. This suggests that the inhibition of ADP-ribosylation by AbPE results from the binding of AbPE to the region between domains Ia and III. Since the binding of AbPE to PE did not inhibit NAD hydrolysis in the absence of elongation factor 2, the inhibitory effect of AbPE on ADP-ribosylation may be due to steric hindrance rather than a direct action on the catalytic function. Thus, the interface between domain Ia and III may be the site of entry of elongation factor 2 during ADP-ribosylation. The antibodies were also used to study both the inhibitory effects of PE on protein synthesis and its cytotoxic activity. Either AbPE or antidomain Ia antibody, but not antidomain III antibody, was able to reverse the inhibition of protein synthesis by PE and to block its cytotoxicity. In addition, rabbits immunized with domain Ia acquired tolerance against 100 micrograms of PE injected subcutaneously. These results suggest that domain Ia is the cell-binding domain of PE and may be used for vaccination against PE-mediated diseases.
Coagulant properties of hybrid human/porcine factor VIII molecules. (1992)

Human and porcine factor VIII (fVIII) are activated by thrombin to form a heterotrimer composed of subunits designated A1 and A2 derived from the fVIII heavy chain (HC) and a subunit designated A3-C1-C2 derived from the fVIII light chain (LC). Human and porcine fVIII were activated at the same rate to the same peak levels but dissociation of the A2 subunit and concomitant loss of fVIIIa activity at pH 7.4 and 22 degrees C was 3-fold faster with human fVIIIa compared to porcine fVIIIa (0.35 min-1 versus 0.12 min-1, respectively). To determine structural requirements for the increased activity of porcine fVIII, plasma-derived hybrid human/porcine fVIII molecules were isolated. Porcine HC/human LC (pHC/hLC) fVIII had 44-fold higher coagulant activity than reconstituted human fVIII (hHC/hLC), 40-fold higher activity than hHC/pLC, and slightly (1.4-fold) higher activity than reconstituted porcine fVIII (pHC/pLC). Additionally, human and porcine A2 subunits and inactive A1/A3-C1-C2 human and porcine dimers were isolated and reconstitution experiments were done. Addition of the porcine A2 subunit to the human A1/A3-C1-C2 dimer produced coagulant activity similar to that found with porcine fVIIIa and superior to human fVIIIa. These results suggest that human fVIII has weaker coagulant activity than porcine fVIII due to faster dissociation of the A2 subunit and that the A2 subunit itself is responsible for the difference.
Multiple DNA-binding sites in Tetrahymena telomerase (2008)

Telomerase is a ribonucleoprotein enzyme that maintains chromosome ends through de novo addition of telomeric DNA. The ability of telomerase to interact with its DNA substrate at sites outside its catalytic centre ('anchor sites') is important for its unique ability to undergo repeat addition processivity. We have developed a direct and quantitative equilibrium primer-binding assay to measure DNA-binding affinities of regions of the catalytic protein subunit of recombinant Tetrahymena telomerase (TERT). There are specific telomeric DNA-binding sites in at least four regions of TERT (the TEN, RBD, RT and C-terminal domains). Together, these sites contribute to specific and high-affinity DNA binding, with a K(d) of approximately 8 nM. Both the K(m) and K(d) increased in a stepwise manner as the primer length was reduced; thus recombinant Tetrahymena telomerase, like the endogenous enzyme, contains multiple anchor sites. The N-terminal TEN domain, which has previously been implicated in DNA binding, shows only low affinity binding. However, there appears to be cooperativity between the TEN and RNA-binding domains. Our data suggest that different DNA-binding sites are used by the enzyme during different stages of the addition cycle.
PARSESNP: a tool for the analysis of nucleotide polymorphisms (2003)

PARSESNP is a tool for the display and analysis of polymorphisms in genes. Using a reference DNA sequence, an exon/intron position model and a list of polymorphisms, it determines the effects of these polymorphisms on the expressed gene product, as well as the changes in restriction enzyme recognition sites. It shows the locations and effects of the polymorphisms in summary on a stylized graphic and in detail on a display of the protein sequence aligned with the DNA sequence. The addition of a homology model, in the form of an alignment of related protein sequences, allows for prediction of the severity of missense changes. PARSESNP is available on the World Wide Web at http://www.proweb.org/parsesnp/.
VERDANDI Is a Direct Target of the MADS Domain Ovule Identity Complex and Affects Embryo Sac Differentiation in Arabidopsis (2010)

In Arabidopsis thaliana, the three MADS box genes SEEDSTICK (STK), SHATTERPROOF1 (SHP1), and SHP2 redundantly regulate ovule development. Protein interaction studies have shown that a multimeric complex composed of the ovule identity proteins together with the SEPALLATA MADS domain proteins is necessary to determine ovule identity. Despite the extensive knowledge that has become available about these MADS domain transcription factors, little is known regarding the genes that they regulate. Here, we show that STK, SHP1, and SHP2 redundantly regulate VERDANDI (VDD), a putative transcription factor that belongs to the plant-specific B3 superfamily. The vdd mutant shows defects during the fertilization process resulting in semisterility. Analysis of the vdd mutant female gametophytes indicates that antipodal and synergid cell identity and/or differentiation are affected. Our results provide insights into the pathways regulated by the ovule identity factors and the role of the downstream target gene VDD in female gametophyte development.
Embodied social proxy (2010)

Current business conditions have given rise to distributed teams that are mostly collocated except for one remote member. These "hub-and-satellite" teams face the challenge of the satellite colleague being out-of-sight and out-of-mind. We developed a telepresence device, called an Embodied Social Proxy (ESP), which represents the satellite coworker 24x7. Beyond using ESPs in our own group, we deployed an ESP in four product teams within our company for six weeks. We studied how ESP was used through ethnographic observations, surveys, and usage log data. ESP not only increased the satellite worker's ability to fully participate in meetings, it also increased the hub's attention and affinity towards the satellite. The continuous physical presence of ESP in each team improved the interpersonal social connections between hub and satellite colleagues.
Monosized, magnetic polymer particles: Their use in separation of cells and subcellular components, and in the study of lymphocyte functionin vitro (1988)

By employing the principles of "activated swelling", monosized, superparamagnetic polymer particles have been prepared ranging in size from 1-100 microns. Both during and after the swelling process, the particles can be modified to meet a series of specific demands making them potentially very interesting for many separation and assay purposes. Using monoclonal antibodies to direct the magnetic beads to their targets, immunomagnetic separation has turned out to be one of the most specific, reliable and, above all, the fastest technique available today to isolate particulate material for further studies. So far, most efforts have been concentrated on methodology for fractionation of cells in suspension, such as removal of tumour cells from bone marrow or isolation of lymphoid cells from peripheral blood. These studies have both established the parameters necessary for optimal performance and at the same time laid the groundwork for future developments making immunomagnetic separation an exciting new tool in many research areas. High speed and specificity are the most conspicuous features of immunomagnetic cell separation. These properties have been exploited in the successful development of a new technique for tissue typing of cells directly from peripheral blood specimens. Both higher sensitivity and specificity have been obtained. The same principles can be used for fast and safe quantification of cell populations and subpopulations in blood and cell suspensions. The functions of, and interactions between, peripheral blood cell populations or subpopulations in the immune response have also been studied with high precision. The significance of direct cell contact on the one hand, and soluble factors on the other, can now be established in detail. Immunomagnetic beads have also been used to study the interaction between various T lymphocyte membrane molecules in the early phases of the activation process. Finally, the usefulness of specially developed particles for the fractionation of subcellular components is described.
The intestinal stem cell niche: There grows the neighborhood (2001)

What do realtors always emphasize? Location. Location. Location. This mantra is worth repeating for those studying gut stem cell biology. During the past 18 months, the scientific community has been captivated by the importance of neighborhood (niche) in defining a cellular state of “stemness.” We have heard that adult bone marrow-derived stem cells are able to establish residence in, and supply appropriate differentiated lineages to, heart, vascular endothelium, liver, brain, and muscle (reviewed in Blau et al.; ref. 1). Elegant studies in invertebrates also have emphasized the importance of niche in regulating expression of stem cell features (e.g., ref. 2).