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https://www.readbyqxmd.com/read/29158538/pinapl-py-a-comprehensive-web-application-for-the-analysis-of-crispr-cas9-screens
#1
Philipp N Spahn, Tyler Bath, Ryan J Weiss, Jihoon Kim, Jeffrey D Esko, Nathan E Lewis, Olivier Harismendy
Large-scale genetic screens using CRISPR/Cas9 technology have emerged as a major tool for functional genomics. With its increased popularity, experimental biologists frequently acquire large sequencing datasets for which they often do not have an easy analysis option. While a few bioinformatic tools have been developed for this purpose, their utility is still hindered either due to limited functionality or the requirement of bioinformatic expertise. To make sequencing data analysis of CRISPR/Cas9 screens more accessible to a wide range of scientists, we developed a Platform-independent Analysis of Pooled Screens using Python (PinAPL-Py), which is operated as an intuitive web-service...
November 20, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29151226/erratum-to-sequential-super-resolution-imaging-of-bacterial-regulatory-proteins-the-nucleoid-and-the-cell-membrane-in-single-fixed-e-coli-cells
#2
Christoph Spahn, Mathilda Glaesmann, Yunfeng Gao, Yong Hwee Foo, Marko Lampe, Linda J Kenney, Mike Heilemann
No abstract text is available yet for this article.
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29129353/impact-of-lymph-node-dissection-at-the-time-of-radical-nephrectomy-with-tumor-thrombectomy-on-oncological-outcomes-results-from-the-international-renal-cell-carcinoma-venous-thrombus-consortium-ircc-vtc
#3
Derya Tilki, Thenappan Chandrasekar, Umberto Capitanio, Gaetano Ciancio, Siamak Daneshmand, Paolo Gontero, Javier Gonzalez, Axel Haferkamp, Markus Hohenfellner, William C Huang, Estefania Linares Espinós, Adam Lorentz, Juan I Martinez-Salamanca, Viraj A Master, James M McKiernan, Francesco Montorsi, Giacomo Novara, Sascha Pahernik, Juan Palou, Raj S Pruthi, Oscar Rodriguez-Faba, Paul Russo, Douglas S Scherr, Shahrokh F Shariat, Martin Spahn, Carlo Terrone, Cesar Vera-Donoso, Richard Zigeuner, John A Libertino, Christopher P Evans
OBJECTIVES: To study the effect of lymph node dissection (LND) at the time of nephrectomy and tumor thrombectomy on oncological outcomes in patients with renal cell carcinoma (RCC) and tumor thrombus. PATIENTS AND METHODS: The records of 1,978 patients with RCC and tumor thrombus who underwent radical nephrectomy and tumor thrombectomy from 1985 to 2014 at 24 centers were analyzed. None of the patients had distant metastases. Extent and pathologic results of LND were compared with respect to cancer-specific survival (CSS)...
November 9, 2017: Urologic Oncology
https://www.readbyqxmd.com/read/29110328/development-of-novel-radionuclides-for-medical-applications-%C3%A2
#4
Syed M Qaim, Ingo Spahn
Medical radionuclide production technology is well established. There is, however, a constant need for further development of radionuclides. The present efforts are mainly devoted to non-standard positron emitters (e.g. (64) Cu, (86) Y, (124) I, (73) Se) and novel therapeutic radionuclides emitting low-range β(-) particles (e. g. (67) Cu, (186) Re), conversion or Auger electrons (e.g. (117m) Sn, (77) Br) and α-particles (e.g. (225) Ac). A brief account of various aspects of development work (i.e. nuclear data, targetry, chemical processing, quality control) is given...
November 6, 2017: Journal of Labelled Compounds & Radiopharmaceuticals
https://www.readbyqxmd.com/read/29052534/specialist-advice-may-improve-patient-selection-for-decompression-therapy-following-diving-accidents-a-retrospective-observational-study
#5
Daniel Steffensmeier, Roland Albrecht, Jürg Wendling, Roger Melliger, Donat R Spahn, Philipp Stein, Christophe Wyss
BACKGROUND: Even in a landlocked country like Switzerland recreational diving is becoming more and more popular. Smaller lakes in the Alps are located at an altitude of 2500 m above sea level. The incidence of diving accidents among all helicopter emergency service missions and the consecutive medical knowledge about decompression injuries is low. Thus, a collaboration between the Swiss Air-Ambulance (Rega) and the divers alert network (DAN) was initiated to improve patient treatment and identification of decompression injury and necessity of hyperbaric oxygen therapy (HBO)...
October 19, 2017: Scandinavian Journal of Trauma, Resuscitation and Emergency Medicine
https://www.readbyqxmd.com/read/29033103/re-metastasis-free-survival-is-a-strong-surrogate-of-overall-survival-in-localized-prostate-cancer
#6
Martin Spahn
No abstract text is available yet for this article.
October 12, 2017: European Urology
https://www.readbyqxmd.com/read/28984799/reply-to-comparing-c-mac-videolaryngoscope-with-direct-laryngoscopy-for-emergency-intubation
#7
Kurt Ruetzler, Simon Sulser, Dirk Ubmann, Donat R Spahn
No abstract text is available yet for this article.
November 2017: European Journal of Anaesthesiology
https://www.readbyqxmd.com/read/28952153/what-is-the-evidence-for-platelet-transfusion-in-perioperative-settings
#8
REVIEW
J H Levy, R Rossaint, K Zacharowski, D R Spahn
BACKGROUND AND OBJECTIVES: Platelet transfusions are widely administered to restore perioperative haemostasis in haemorrhagic patients; however, the role of platelet transfusion is not well understood and administration is often based on empiric data. This review aims to explore consensus regarding platelet transfusion trigger, dose and how the haemostatic efficacy of platelet transfusion was assessed for the treatment of perioperative bleeding. MATERIALS AND METHODS: A literature search was carried out using MEDLINE (PubMed) on 28 February 2017, to identify publications reporting the effect of platelet transfusion in relation to triggers, dose and assessment of haemostatic efficacy in bleeding patients in a perioperative setting...
September 26, 2017: Vox Sanguinis
https://www.readbyqxmd.com/read/28940528/assessment-of-a-photon-counting-detector-for-a-dual-energy-c-arm-angiographic-system
#9
Moiz Ahmad, Rebecca Fahrig, Leland Pung, Martin Spahn, Niko S Köster, Silke Reitz, Teri Moore, Jang-Hwan Choi, Waldo Hinshaw, Yan Xia, Kerstin Müller
PURPOSE: This article presents the implementation and assessment of photon-counting dual-energy x-ray detector technology for angiographic C-arm systems in interventional radiology. METHODS: A photon-counting detector was successfully integrated into a clinical C-arm CT system. Detector performance was assessed using image uniformity metrics in both 2D projections and 3D cone-beam computed tomography (CBCT) images. Uniform exposure fields were acquired to analyze projection images and scans of a homogeneous cylinder phantom were taken to analyze 3D reconstructions...
September 22, 2017: Medical Physics
https://www.readbyqxmd.com/read/28930917/shock-2017-military-supplement-an-overview-of-two-human-trials-of-perfluorocarbon-emulsions-in-non-cardiac-surgery
#10
Donat R Spahn, Peter E Keipert
Perfluorochemicals (PFCs) constitute one class of artificial oxygen carriers that are being produced completely synthetically. One formulation that has been evaluated extensively in clinical trials is a 60% w/v perflubron-based emulsion. Efficacy and safety of this perflubron emulsion was evaluated in a Phase 2 and a large prospective randomized Phase 3 multicenter European study, which collectively included a total of 639 patients. Perflubron emulsion was highly successful in improving organ function, reversing physiologic transfusion triggers and in reducing the need for allogeneic blood transfusions...
September 19, 2017: Shock
https://www.readbyqxmd.com/read/28915523/-biologic-reconstruction-of-full-sized-cartilage-defects-of-the-hip-a-guideline-from-the-dgou-group-clinical-tissue-regeneration-and-the-hip-committee-of-the-aga
#11
Stefan Fickert, Matthias Aurich, Dirk Albrecht, Peter Angele, Lorenz Büchler, Michael Dienst, Christoph Erggelet, Jürgen Fritz, Christoph Gebhart, Hans Gollwitzer, Moritz Kindler, Christoph Lampert, Henning Madry, Gregor Möckel, Phillip Niemeyer, Jörg Schröder, Christian Sobau, Gunter Spahn, Wolfgang Zinser, Stefan Landgraeber
Background Symptomatic pre-arthritic deformities such as femoroacetabular impingement (FAI) or hip dysplasia often lead to localised cartilage defects and subsequently to osteoarthritis. The present review of the working group "Clinical Tissue Regeneration" of the German Society of Orthopaedics and Trauma (DGOU) and the hip committee of the AGA (German speaking Society for Arthroscopy and Joint Surgery) provides an overview of current knowledge of the diagnosis and surgical treatment of cartilage defects, in order to infer appropriate therapy recommendations for the hip...
September 15, 2017: Zeitschrift Für Orthopädie und Unfallchirurgie
https://www.readbyqxmd.com/read/28895646/transfusion-approaches-and-mortality-in-trauma-patients-a-narrative-review
#12
Dietmar Fries, Petra Innerhofer, Donat R Spahn
No abstract text is available yet for this article.
October 2017: Seminars in Thrombosis and Hemostasis
https://www.readbyqxmd.com/read/28869567/using-next-generation-sequencing-to-identify-and-quantify-the-genetic-composition-of-resistance-breaking-commercial-isolates-of-cydia-pomonella-granulovirus
#13
Gianpiero Gueli Alletti, Annette J Sauer, Birgit Weihrauch, Eva Fritsch, Karin Undorf-Spahn, Jörg T Wennmann, Johannes A Jehle
The use of Cydia pomonella granulovirus (CpGV) isolates as biological control agents of codling moth (CM) larvae is important in organic and integrated pome fruit production worldwide. The commercially available isolates CpGV-0006, CpGV-R5, and CpGV-V15 have been selected for the control of CpGV resistant CM populations in Europe. In infection experiments, CpGV-0006 and CpGV-R5 were able to break type I resistance and to a lower extent also type III resistance, whereas CpGV-V15 overcame type I and the rarely occurring type II and type III resistance...
September 4, 2017: Viruses
https://www.readbyqxmd.com/read/28842890/sequential-super-resolution-imaging-of-bacterial-regulatory-proteins-the-nucleoid-and-the-cell-membrane-in-single-fixed-e-coli-cells
#14
Christoph Spahn, Mathilda Glaesmann, Yunfeng Gao, Yong Hwee Foo, Marko Lampe, Linda J Kenney, Mike Heilemann
Despite their small size and the lack of compartmentalization, bacteria exhibit a striking degree of cellular organization, both in time and space. During the last decade, a group of new microscopy techniques emerged, termed super-resolution microscopy or nanoscopy, which facilitate visualizing the organization of proteins in bacteria at the nanoscale. Single-molecule localization microscopy (SMLM) is especially well suited to reveal a wide range of new information regarding protein organization, interaction, and dynamics in single bacterial cells...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28763361/dexmedetomidine-associated-hyperthermia-a-series-of-9-cases-and-a-review-of-the-literature
#15
Bernard D Krüger, Judith Kurmann, Natascia Corti, Donat R Spahn, Dominique Bettex, Alain Rudiger
Dexmedetomidine, an α2-adrenergic agonist, can be used to perform mild to moderate sedation in critically ill patients. In this case series, 9 cardiovascular intensive care unit patients with hyperthermia during dexmedetomidine administration, suggestive of drug fever, are presented. Hyperthermia (>38.5°C) occurred 6 (4-10) hours (median [interquartile range]) after dexmedetomidine initiation at a dose of 1.0 (0.8-1.3) μg/kg/h and was resolved 3 (1-8) hours after discontinuation of dexmedetomidine. All patients were screened for infectious and noninfectious causes of hyperthermia, and the findings were analyzed by 2 adverse drug reaction (ADR) assessment methods-the World Health Organization-Uppsala Monitoring Centre (WHO-UMC) Causality Assessment and the Naranjo ADR scale...
July 28, 2017: Anesthesia and Analgesia
https://www.readbyqxmd.com/read/28753838/the-empact-classifier-a-validated-tool-to-predict-postoperative-prostate-cancer-related-death-using-competing-risk-analysis
#16
Lorenzo Tosco, Annouschka Laenen, Alberto Briganti, Paolo Gontero, R Jeffrey Karnes, Patrick J Bastian, Piotr Chlosta, Frank Claessens, Felix K Chun, Wouter Everaerts, Christian Gratzke, Maarten Albersen, Markus Graefen, Burkhard Kneitz, Giansilvio Marchioro, Rafael Sanchez Salas, Bertrand Tombal, Thomas Van den Broeck, Henk Van Der Poel, Jochen Walz, Gert De Meerleer, Alberto Bossi, Karin Haustermans, Hendrik Van Poppel, Martin Spahn, Steven Joniau
BACKGROUND: Accurate prediction of survival after radical prostatectomy (RP) is important for making decisions regarding multimodal therapies. There is a lack of tools to predict prostate cancer-related death (PCRD) in patients with high-risk features. OBJECTIVE: To develop and validate a prognostic model that predicts PCRD combining pathologic features and using competing-risks analysis. DESIGN, SETTING, AND PARTICIPANTS: This was a retrospective multi-institutional observational cohort study of 5876 patients affected by high-risk prostate cancer...
January 17, 2017: European Urology Focus
https://www.readbyqxmd.com/read/28707777/pain-assessment-discrepancies-a-cross-sectional-study-highlights-the-amount-of-underrated-pain
#17
Andrea van Ransbeeck, Ana Budilivski, Donat R Spahn, Lucian Macrea, Francesca Giuliani, Konrad Maurer
BACKGROUND: Inadequately treated postoperative pain can lead to longer healing processes, longer hospital stays and the development of chronic pain. In a 900-bed university hospital in Switzerland pain scores were assessed systematically. The study's primary aim was to define whether the routine pain assessment on the ward is accurate and reproducible. Subsequently the obtained data were used for a benchmark analysis to determine the hospitals performance in pain assessment quality compared with similar centers...
July 14, 2017: Pain Practice: the Official Journal of World Institute of Pain
https://www.readbyqxmd.com/read/28684008/ribosomal-chamber-music-toward-an-understanding-of-ires-mechanisms
#18
REVIEW
Hiroshi Yamamoto, Anett Unbehaun, Christian M T Spahn
Internal initiation is a 5'-end-independent mode of translation initiation engaged by many virus- and putatively some cell-encoded templates. Internal initiation is facilitated by specific RNA tertiary folds, called internal ribosomal entry sites (IRESs), in the 5' untranslated region (UTR) of the respective transcripts. In this review we discuss recent structural insight into how established IRESs first capture and then manipulate the eukaryotic translation machinery through non-canonical interactions and by guiding the intrinsic conformational flexibility of the eukaryotic ribosome...
August 2017: Trends in Biochemical Sciences
https://www.readbyqxmd.com/read/28673386/polyglycerol-opioid-conjugate-produces-analgesia-devoid-of-side-effects
#19
Sara González-Rodríguez, Mohiuddin A Quadir, Shilpi Gupta, Karolina A Walker, Xuejiao Zhang, Viola Spahn, Dominika Labuz, Antonio Rodriguez-Gaztelumendi, Martin Schmelz, Jan Joseph, Maria K Parr, Halina Machelska, Rainer Haag, Christoph Stein
Novel painkillers are urgently needed. The activation of opioid receptors in peripheral inflamed tissue can reduce pain without central adverse effects such as sedation, apnoea, or addiction. Here, we use an unprecedented strategy and report the synthesis and analgesic efficacy of the standard opioid morphine covalently attached to hyperbranched polyglycerol (PG-M) by a cleavable linker. With its high-molecular weight and hydrophilicity, this conjugate is designed to selectively release morphine in injured tissue and to prevent blood-brain barrier permeation...
July 4, 2017: ELife
https://www.readbyqxmd.com/read/28667116/a-third-type-of-resistance-to-cydia-pomonella-granulovirus-in-codling-moths-shows-a-mixed-z-linked-and-autosomal-inheritance-pattern
#20
A J Sauer, S Schulze-Bopp, E Fritsch, K Undorf-Spahn, J A Jehle
Different isolates of Cydia pomonella granulovirus (CpGV) are used worldwide to control codling moth larvae (Cydia pomonella) in pome fruit production. Two types of dominantly inherited field resistance of C. pomonella to CpGV have been recently identified: Z-chromosomal type I resistance and autosomal type II resistance. In the present study, a CpGV-resistant C. pomonella field population (termed SA-GO) from northeastern Germany was investigated. SA-GO individuals showed cross-resistance to CpGV isolates of genome group A (CpGV-M) and genome group E (CpGV-S), whereas genome group B (CpGV-E2) was still infective...
September 1, 2017: Applied and Environmental Microbiology
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