gebhart/patrepeval huggingface dataset:
Simplified stereo-optical ultrasound plane calibration (2013)

Image guided therapy is a natural concept and commonly used in medicine. In anesthesia, a common task is the injection of an anesthetic close to a nerve under freehand ultrasound guidance. Several guidance systems exist using electromagnetic tracking of the ultrasound probe as well as the needle, providing the physician with a precise projection of the needle into the ultrasound image. This, however, requires additional expensive devices. We suggest using optical tracking with miniature cameras attached to a 2D ultrasound probe to achieve a higher acceptance among physicians. The purpose of this paper is to present an intuitive method to calibrate freehand ultrasound needle guidance systems employing a rigid stereo camera system. State of the art methods are based on a complex series of error prone coordinate system transformations which makes them susceptible to error accumulation. By reducing the amount of calibration steps to a single calibration procedure we provide a calibration method that is equivalent, yet not prone to error accumulation. It requires a linear calibration object and is validated on three datasets utilizing di erent calibration objects: a 6mm metal bar and a 1:25mm biopsy needle were used for experiments. Compared to existing calibration methods for freehand ultrasound needle guidance systems, we are able to achieve higher accuracy results while additionally reducing the overall calibration complexity. Ke
Electrochemotherapy with cisplatin in the treatment of tumor cells resistant to cisplatin. (1999)

The aim of our study was to investigate the role of electroporation in the treatment of cisplatin resistant tumor cells in vitro. For this purpose we used well characterized human ovarian carcinoma IGROV I cells and their resistant subclone IGROV 1/DDP. The cells were either continuously exposed to cisplatin or treated with electrochemotherapy (exposure time: 5 minutes). After chronic exposure of cells to cisplatin, IGROV 1/DDP cells exhibited 8-fold resistance to cisplatin. Cisplatin cytotoxicity was greatly potentiated by treatment with electric pulses in both cell lines. However, the IGROV 1/DDP cells still exhibited a 50-fold resistance. Our results demonstrate that electroporation treatment potentiates cytotoxicity in both human ovarian carcinoma IGROV 1 cells as well as in their resistant subclone IGROV 1/DDP.
Analysis of affinity and structural selectivity in the binding of proteins to glycosaminoglycans: development of a sensitive electrophoretic approach. (1991)

Members of several families of cell surface and secreted proteins bind glycosaminoglycans (GAGs), the structurally heterogeneous polysaccharides found on proteoglycans. To understand the physiological significance of the interactions of proteins with GAGs, it is critical that relationships between GAG structure and binding be analyzed. It is particularly important that interactions depending on common structural features of GAGs (e.g., size, charge density, and disaccharide repeat unit) be distinguished from those mediated by specific sequences of carbohydrate modification. Gathering the information needed to make such distinctions has so far been difficult, however, partly because structurally homogeneous samples of GAGs are lacking but also because of technical difficulties associated with performing and interpreting assays of protein-GAG binding. We describe an electrophoretic method useful for both measuring affinity and evaluating structural selectivity in protein-GAG binding. Data are presented on the binding of the GAG heparin to the protease inhibitor antithrombin III, the acidic and basic fibroblast growth factors, and the extracellular matrix protein fibronectin. Results obtained with fibronectin are consistent with a model in which high-affinity binding (Kd approximately 34 nM) is mediated through the recognition of specific carbohydrate sequences.
Lysis of RNA tumor viruses by human serum: direct antibody-independent triggering of the classical complement pathway. (1976)

In earlier studies we found that human serum, but not serum from multiple other species, inactivated and lysed oncornaviruses from a number of diverse sources in the apparent absence of antibody. A detailed analysis of the role of the human complement (C) system in mediating this lytic process indicates that human C1q interacts directly, in the absence of immunoglobulin, with oncornaviruses. Binding of C1 via C1q in this manner leads to activation of C1r, C1s, and thus of the classical C pathway. Integrity of the classical pathway is an absolute requirement for lysis although activation of the alternative pathway considerably amplifies the amount of lysis obtained, possibly through involvement of the C3b-dependent feedback mechanism. Activation of C is accompanied by deposition of C components on the viral surface and lysis on completion of the C reaction sequence. Thus in this system, the C1q subunit of C1 subserves a specific recognition function normally associated with antibody. This ability of human serum to inactivate oncornaviruses may represent a natural defense mechanism operative in vivo which deters expression of intact oncornaviruses in human malignancies.
A modification of the Sheverdina-Kocheshkov amination: the use of methoxyamine-methyl lithium as a convenient synthetic equivalent for NH2+ (1982)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTA modification of the Sheverdina-Kocheshkov amination: the use of methoxyamine-methyl lithium as a convenient synthetic equivalent for NH2+Peter Beak and Bruce J. KokkoCite this: J. Org. Chem. 1982, 47, 14, 2822–2823Publication Date (Print):July 1, 1982Publication History Published online1 May 2002Published inissue 1 July 1982https://pubs.acs.org/doi/10.1021/jo00135a040https://doi.org/10.1021/jo00135a040research-articleACS PublicationsRequest reuse permissionsArticle Views529Altmetric-Citations48LEARN 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
Methods to score vertebral deformities in patients with rheumatoid arthritis (1997)

The objective was to compare four different scoring methods for vertebral deformities: the semiquantitative Kleerekoper score and three quantitative scores (according to Minne, Melton and Raymakers) in patients with rheumatoid arthritis (RA). Lateral radiographs of the thoracic and lumbar vertebral column were scored in 52 RA patients treated with corticosteroids (Cs) and 52 RA patients not Cs treated (matched for age and gender). Clinically manifest vertebral fractures were defined as a vertebral deformity leading to the prescription of therapy: bedrest and/or analgesies. The number of Cs-treated RA patients with vertebral deformities was only increased according to the Kleerekoper score (relative risk 2.31; 95% confidence interval 1.36-3.90). The total number of vertebral deformities was increased in Cs-treated RA patients according to the method of Kleerekoper. Minne and Raymakers, but not according to Melton. The Spinal Deformity Index was increased in the Cs-treated RA patients according to Minne (P < 0.05), but not according to Raymakers. In both patient groups, the number of patients with clinically manifest vertebral fractures was much lower than that of vertebral deformities, e.g. in the Cs-treated patients 13% vs 35.79% (depending on the scoring method used). All eight patients with clinically manifest vertebral fractures had severe height loss (25% or more) in at least one vertebra. Vertebral deformities seem to occur more often in Cs-treated patients than in those not Cs-treated. However, differences exist in the number of patients with vertebral deformities and in the total number of vertebral deformities between different scoring methods. This emphasizes the need for a gold standard or consensus for defining vertebral deformities, in which, in our opinion, a Spinal Deformity Index has to be included. Clinically manifest vertebral fractures are predominantly characterized by severe vertebral deformities on X-rays.
Possible detrimental effects of beta‐2‐microglobulin knockout in pigs (2019)

Here, we demonstrate the feasibility of generating SLA class I knockout pigs by targeting the porcine beta-2-microglobulin gene using the CRISPR/Cas9 system. Additionally, our findings indicate for the first time that this genetic modification might have a negative impact on the viability of the animals. These issues need to be solved to unveil the real value for xenotransplantation in the future.
Spectrofluorometric and microcalorimetric study of the thermal poration relevant to the mechanism of thermohaemolysis (1999)

This study sheds light on the structural changes in erythrocyte membrane during thermally induced poration, an event involved in thermohaemolysis. Two major membrane disturbing events can be induced during transient heating, the denaturation of spectrin and thermoporation. The first one precedes the latter but is not involved in it. Ethanol linearly reduces the onset temperature of both events but with different efficiencies. Thermoporation efficiency exceeds by 3.5 fold that of spectrin denaturation. Thus, at a specific concentration of ethanol (18% v/v), the poration occurs at 39.5 degrees C, which precedes the denaturation of spectrin by 6 degrees C. To induce and study the poration avoiding spectrin denaturation, cells were put in contact with preheated (39 degrees C) isotonic (60mM) NaCl) media containing 18% v/v ethanol and sucrose as an osmotic protectant. After 3 min heating, the porated cells were washed, their membranes isolated and studied. The control cells were processed similarly except that they were incubated at 23 degrees C, thus avoiding thermoporation. Using scanning microcalorimetry, the enthalpy and the temperature of denaturation of spectrin were found to be the same in control as well as in porated membranes which indicates similar spectrin structure in both membranes. While the enthalpy of denaturation of the anion channel was preserved, its denaturation temperature was lowered by 2.5 degrees C after poration. These results confirmed that the heat denaturation of the main membrane proteins was not needed and not involved in thermoporation and, hence, in thermohaemolysis. Analysis of the fluorescence of membrane bound ANS gave an apparent increase in the number of binding sites for ANS in membranes after poration. In relation to the control, the eximerization of pyrene in porated membranes changed, depending on the location of the probe: in the domain of free lipids it decreased by 18% but it increased by 60% in the lipid milieu proximal to membrane proteins. Likewise, the eximerization of N-(3-Pyrene) maleimide bound to membrane proteins increased by 67% after poration, which proves increased intramolecular mobility of proteins following poration. The maximal efficiency for transferring energy from tryptophans to neighbouring pyrene was determined to be 0.93 in control, which is almost the same as in intact membranes, and 0.70 in porated membranes, indicating a strong decrease in the lipid/protein contact zone. This data suggests a mild conformational change, possibly an irreversible perturbance of the transbilayer distribution of membrane proteins in porated membranes in comparison to the control and intact ones.
Surgical Site Infections Associated with Methicillin‐ResistantStaphylococcus aureus:Do Postoperative Factors Play a Role? (2003)

Patients with surgical site infections (SSIs) who underwent surgery during the period of September 1997 through December 1999 and January through July 2001 were retrospectively studied to compare patients infected with methicillin-resistant Staphylococcus aureus (MRSA) with those infected with organisms other than MRSA. Of patients with SSI who had known culture results, 77 (28.5%) of 270 had cultures that yielded MRSA. On univariate analysis, age of >or=70 years, duration of surgery of >or=4 h, duration of postoperative antibiotic treatment of >1 day, and discharge to a long-term care facility (LTCF) were significantly associated with MRSA SSI (P<.05 for all). On multivariate analysis, only discharge to an LTCF (odds ratio [OR], 2.3; P=.04) and duration of postoperative antibiotic treatment of >1 day (OR, 2.0; P=.03) were significantly associated with MRSA SSI; there was also a trend toward MRSA SSI being associated with use of a surgical drain for >1 day (P=.078). Postoperative factors may play a more important role in the causation of MRSA SSI than has previously been appreciated.
Identification of the components necessary for adenovirus translational control and their utilization in cDNA expression vectors. (1985)

A transient expression system was used to study the role of the adenovirus late and simian virus 40 (SV40) early mRNA leader sequences and adenovirus virus-associated (VA) RNAs in mRNA translation. Hybrid transcription units containing the adenovirus late and SV40 early promoters fused to various coding regions were introduced into monkey COS cells on plasmids containing a SV40 origin of replication. The translational efficiencies of the mRNAs produced from these plasmids were determined after alterations in the viral leader sequences or in the presence of VA RNAs provided by adenovirus infection of the transfected cells or by cotransfection with plasmids containing the VA genes. Efficient translation of mRNA with either adenovirus or SV40 leader sequences is dependent upon the presence of VA RNA. Translational stimulation by VA RNA of mRNAs containing the adenovirus tripartite leader sequences is dramatically reduced if leader exons 2 and 3 are removed or if their orientation is altered. Sequence analysis has indicated a homology between the nontranslated 5' end of SV40 early mRNA and sequences at the border of the 2nd and 3rd tripartite leader exons, which may be responsible for the increased translation of these mRNAs in the presence of VA RNA.
Cyber Security Strategy (2012)

Following the publication of the government's UK Cyber Security Strategy in November 2011, Louise Bennett FBCS CITP gives her thoughts on it and what it means for the industry and the nation.
A peripheral protein associated with the cis-Golgi network redistributes in the intermediate compartment upon brefeldin A treatment. (1994)

Human autoantibodies offer unique tools for the study of cellular constituents since they usually recognize highly conserved components, the most difficult to detect due to their low immunogenicity. The serum from a patient with Sjögren's syndrome (RM serum) showing a very high reactivity to the Golgi complex has been shown to immunoprecipitate and to immunodetect by Western blotting experiments a protein mol wt 210,000 (p210) that was shown to be peripheral and cytoplasmically disposed. A close examination of the p210 labeling revealed some differences with Golgi markers: RM serum staining was slightly more extensive than several Golgi markers and showed a discontinuous or granular appearance. Nocodazole induced a specific and early segregation of many p210-associated vesicles or tubules from Golgi apparatus. Upon brefeldin A treatment, p210 did not redistribute in the ER as did other Golgi proteins. In contrast, it exhibited a vesicular pattern reminiscent to that displayed by proteins residing in the intermediate compartment. Double staining immunofluorescence using the RM serum and the marker of the intermediate compartment, p58, revealed segregation of both proteins in control conditions but colocalization in BFA-treated cells. We have further demonstrated by combining different drug treatments that p210-containing elements in brefeldin A-treated cells belong indeed to the intermediate compartment. Experiments on brefeldin A recovery suggested that these p210 elements might play a role in reformation and repositioning of the Golgi apparatus. Ultrastructural localization performed by immunoperoxidase staining allowed us to establish that p210 interacted with the external side of an abundant tubulo-vesicular system on the cis side of the Golgi complex which extended to connecting structures and vesicles between saccules or stacks of cisternae, p210 appears to be a novel protein residing in the cis-Golgi network that may cycle between the Golgi apparatus and the intermediate compartment.
Solution Structure of the N-Terminal EGF-like Domain from Human Factor VII, (1998)

Blood coagulation is initiated by Ca(2+)-dependent binding of coagulation factor VIIa (FVIIa) to its cofactor, tissue factor (TF). The TF:FVIIa complex activates factors IX and X, ultimately leading to the formation of thrombin and the coagulation of blood. FVII consists of an N-terminal gamma-carboxyglutamic-acid-containing (Gla) domain followed by two epidermal growth factor (EGF) like domains, the first of which can bind one Ca2+ ion (Kd approximately 150 microM) and a C-terminal serine protease domain. Using 1H nuclear magnetic resonance spectroscopy, we have determined the solution structure of a synthetic N-terminal EGF-like domain (EGF1) of human FVII (residues 45-85) in the absence of Ca2+. A comparison of this structure of apo EGF1 with the Ca(2+)-bound EGF1 in the complex of FVIIa and TF [Banner, D. W., et al. (1996) Nature 380, 41-46] suggests that the structural changes in the EGF1 domain upon Ca2+ binding are minor and are concentrated near the Ca(2+)-binding site, which is facing away from the TF interaction surface. Amino acid side chains that are crucial for the binding of FVII to TF show a similar conformation in both structures and are therefore unlikely to directly influence the Ca(2+)-dependent binding of FVII to TF. As Ca2+ binding to EGF1 does not lead to a conformational change in the residues constituting the interaction surface for binding to TF, our results are consistent with the idea that the altered orientation between the Gla and EGF1 domains that result from Ca2+ binding is responsible for the increased affinity of FVII/FVIIa for TF.
Tilt and decentration of spherical and aspheric intraocular lenses: Effect on higher-order aberrations (2009)

The amounts of tilt and decentration of both IOLs were not large enough to cause deterioration of optical quality. Thus, when IOL tilt and decentration are within normal limits, they do not compromise the correction of spherical aberration by the aspheric IOL.
The effect of water and shampooing on the efficacy of fluralaner spot-on solution against Ixodes ricinus and Ctenocephalides felis infestations in dogs (2016)

Fluralaner spot-on solution provides immediate and persistent efficacy against tick and flea infestations in dogs and cats for 12-weeks following topical administration. The active ingredient fluralaner is distributed systemically following transdermal absorption. Therefore, this study tested the hypothesis whether water-immersion or shampooing of dogs following administration of fluralaner spot-on solution has an impact on subsequent tick and flea efficacy. Thirty-two Beagle dogs were allocated to four study groups of 8 dogs each. On day 0, dogs in the 2 treatment groups received topical administration of fluralaner (Bravecto™ spot-on solution) according to label instructions. Dogs in the 2 corresponding control groups remained untreated. On days 3, 21, 49, and 77 dogs in one treatment group and control group were water-immersed for 2–5 min, while dogs in the other treatment group and control group were shampooed 6–8 min with a commercial foaming micro-emulsion, unscented product. On days 4, 28, 56, and 84 all dogs were co-infested with 50 ± 2 female and 10 ± 2 male Ixodes ricinus and 100 ± 4 Ctenocephalides felis, with tick and flea removal and counts 48 ± 2 h post-infestation. Efficacy against ticks and fleas was calculated for each assessment time point. No treatment-related adverse event was observed in any of the 16 dogs treated with fluralaner spot-on solution during the study. Efficacy against ticks at each assessment time point was between 99.7 and 100 % in the water-immersed group and between 99.2 and 100 % in the shampooed group. Efficacy against fleas was 100 % at each assessment time point as well in the water-immersed as the shampooed group. Tick and flea reduction in both treatment groups was significant at all assessment time points (p < 0.0001). Neither water-immersion nor shampooing after single topical administration of fluralaner spot-on solution had an impact on the excellent tick and flea efficacy over the 12-week recommended re-treatment interval.
Oxygen Tension Directs Chondrogenic Differentiation of Myelo-Monocytic Progenitors During Endochondral Bone Formation (2007)

Synthesis of bone requires both essential progenitors to form the various structures and the correct microenvironment for their differentiation. To identify these factors, we have used a system that exploits bone morphogenetic protein's ability to induce endochondral bone formation rapidly. One of the earliest events observed was the influx and proliferation of fibroblastic cells that express both vascular smooth muscle cell markers, alpha smooth muscle actin (alpha SMA), smooth muscle myosin heavy chain, and the monocytic marker CD68. The expression of these factors was lost by days 4 to 5, coincident with the up-regulation of Sox9 and the appearance of chondrocytes. Studies with a cyclization recombination (Cre)/lox system, in which a myeloid-specific promoter driving Cre recombinase can irreversibly unblock expression of beta-galactosidase only in cells of myeloid origin, showed specific activity in the newly formed chondrocytes. These results suggest that early chondrocyte progenitors are of myeloid origin. Simultaneous with this recruitment, we determined that a numbers of these cells were in a hypoxic state, indicative of a low-oxygen environment. The cells in the hypoxic regions were undergoing chondrogenesis, whereas cells in adjacent normoxic regions appeared to be assembling into new vessels, suggesting that the oxygen microenvironment is critical for establishment of the cartilage.
Inflammatory Bowel Disease and Adenomas in Mice Expressing a Dominant Negative N-Cadherin (1995)

Cadherins mediate cell adhesion and are essential for normal development. Embryonic stem cells were transfected with a dominant negative N-cadherin mutant (NCAD delta) under the control of promoters active in small intestinal epithelial cells and then introduced into C57BL/6 mouse blastocysts. Analysis of adult chimeric mice revealed that expression of NCAD delta along the entire crypt-villus axis, but not in the villus epithelium alone, produced an inflammatory bowel disease resembling Crohn's disease. NCAD delta perturbed proliferation, migration, and death programs in crypts, which lead to adenomas. This model provides insights about cadherin function in an adult organ and the factors underlying inflammatory bowel disease and intestinal neoplasia.