Stefan Rödiger @pangolin · activity timestamp 10 years ago R as an Environment for the Reproducible Analysis of DNA Amplification Experiments (PDF) Reply Boost Like More actions Copy link Flag this media Block
Stefan Rödiger @pangolin · activity timestamp 10 years ago SpringerLink Mikropartikelsysteme für die Nukleinsäurediagnostik - BIOspektrum PCR is a simplistic and robust laboratory technology for nucleic acid detection. However, for research and diagnostics processing multiple targets within one reaction in an automatic fashion is a demanded feature. Combining two multiplex read out technologies, such as microarray and microbeads, the VideoScan platform was designed. This microscope imaging technology enables an automatable high throughput multiplex measurement of genetic material from biological and patient samples. Reply Boost Like More actions Copy link Flag this media Block
Stefan Rödiger @pangolin · activity timestamp 10 years ago ORCID Reply Boost Like More actions Copy link Flag this media Block
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Stefan Rödiger @pangolin · activity timestamp 10 years ago chipPCR: an R package to pre-process raw data of amplification curves Reply Boost Like More actions Copy link Flag this media Block
Stefan Rödiger @pangolin · activity timestamp 10 years ago De Gruyter Brill Clinical Chemistry and Laboratory Medicine (CCLM) Objective Clinical Chemistry and Laboratory Medicine ( CCLM ) publishes articles on novel teaching and training methods applicable to laboratory medicine. It is focused on basic and applied research and cutting-edge clinical laboratory medicine. CCLM is one of the leading international journals in the field of clinical laboratory sciences and drives progress in the field. CCLM is led by a multi-institutional editorial board. All contributions submitted for publication in CCLM are single-blind peer reviewed by at least two experts in the field. CCLM is led by a multi-institutional editorial board. It is issued monthly , both in print and electronically. Letters to the Editor and Congress Abstracts are published online only. CCLM is the official journal of the European Federation of Clinical Chemistry and Laboratory Medicine (EFLM) . Topics clinical biochemistry clinical genomics and molecular biology clinical haematology and coagulation clinical immunology and autoimmunity clinical microbiology drug monitoring and analysis evaluation of diagnostic biomarkers disease-oriented topics (cardiovascular disease, cancer diagnostics, diabetes) new reagents, instrumentation and technologies new methodologies reference materials and methods reference values and decision limits quality and safety in laboratory medicine translational laboratory medicine clinical metrology Article formats Research Articles, Reviews, Mini Reviews and Opinion Papers on all aspects of clinical chemistry and laboratory medicine, Guidelines and Recommendations, Point/Counterpoint Articles, Letters to the Editor, Editorials For EFLM Academy Members To take advantage of all the opportunities offered to members of the EFLM Academy, please access your personal area in the EFLM Academy at the link https://academy.eflm.eu/secretariat/login (if you do not remember your login details, you can use the option FORGOT PASSWORD). Click on the section “International Journals” on the left-hand side where you find CCLM as the first listed journal. Reply Boost Like More actions Copy link Flag this media Block
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Stefan Rödiger @pangolin · activity timestamp 10 years ago SpringerLink Simultaneous detection of celiac disease-specific IgA antibodies and total IgA - Autoimmunity Highlights Purpose Celiac disease (CD) serology requires analysis of tissue transglutaminase type-2 (TG2autoAbs), deamidated gliadin (DGAbs), and as reference endomysial autoantibodies (EmA). Total IgA assessment helps to determine IgA-deficient CD patients. The novel multiplex indirect immunofluorescence (IIF) technique CytoBead was used to develop the first quantitative one-step serological CD assay comprising both simultaneous IgA autoAb and total IgA testing. Methods CytoBead CeliAK detecting TG2autoAb, DGAb, EmA, and simultaneously total IgA uses fluorescent microparticles for antigen and antibody immobilization along with monkey-esophagus tissue sections on glass slides. The assay was interpreted visually by classical fluorescent microscopy and digital IIF using AKLIDES®. Overall, 380 samples (155 CD patients, 5 with IgA deficiency, 68 with cystic fibrosis, 59 with eye disease, 93 blood donors) were run for performance analysis. Data were compared with classical IgA autoAb analysis by ELISA and IIF. Results Comparing CD-specific IgA autoAb testing by CytoBead with classical IIF and ELISA, very good agreements for EmA, TG2autoAb, and DGAb were determined (Cohen’s κ = 0.98, 0.96, 0.85, respectively). The difference between multiplex and single testing revealed a significant difference for TG2autoAb testing only (McNemar, p = 0.0078). Four CD patients and 4 controls demonstrated TG2autoAb positivity by ELISA but were negative by CytoBead. Further, 140/155 (90.9 %) CD patients demonstrated TG2autoAb levels above ten times the upper normal and all five IgA-deficient samples IgA levels <0.2 g/L by CytoBead. Conclusions The novel multiplex CytoBead CeliAK enables simultaneous CD-specific autoAb and IgA deficiency analyses comparable with classical testing by single-parameter assays. Thus, comprehensive CD serology by CytoBead can alleviate the workload in routine laboratories. Reply Boost Like More actions Copy link Flag this media Block
Lambert Heller @Lambo · activity timestamp 10 years ago Zenodo Forschungsinformationssysteme in Hochschulen und Forschungseinrichtungen. Positionspapier Forschungsberichterstattung ist mittlerweile Alltag auf allen Ebenen des Wissenschaftsbetriebs:Forschende erfüllen regelmäßig Berichtspflichten gegenüber externen Förderorganisationen und Geldgebern. Leitungen benötigen im Wettbewerb um Ausstattung und Köpfe eine Übersicht über die Vielzahl an Forschungsinformationen, um gute Entscheidungen treffen zu können. Die öffentliche Rechenschaftslegung über Forschung, insbesondere über die Finanzierung, hat ebenfalls an Bedeutung gewonnen. Gleichzeitig haben Hochschulen und Forschungseinrichtungen immer noch überraschend große Probleme bei der Bereitstellung fachbezogener Informationen. Die Ursachen sind in den Institutionen meist ähnlich – eine verteile Datenhaltung ohne Schnittstellen, Verwaltungssysteme, die Forschungskontexte nicht abbilden, sowie die begrenzte Nutzbarkeit vorhandener Systeme für die Durchführung differenzierter Auswertungen. Mehrfacherfassungen sind an der Tagesordnung. Institutionsübergreifend bestehen weitere Hindernisse für ein effizientes Informationsmanagement: Fach- und Förderdatenbanken werden isoliert betrieben, es fehlt an Schnittstellen und Austauschformaten und bei der Entwicklung von Systemen werden Standardisierungsmöglichkeiten zu wenig genutzt. Die Entwicklung finanzierbarer und funktionaler Forschungs-informationssysteme und vor allem der Austausch vorhandener Informationen gehört ebenso zur IT-Entwicklung für die Wissenschaft, wie Campusmanagement oder geeignete Personal-und Finanzsysteme. Es ist schwer vorstellbar, dass Prozesse, die auf manuelle Eingaben und jährliche Datenabfragen angewiesen sind, in den zahlreichen wissenschaftlichen Einrichtungen dieser Welt auf Dauer erfolgreich fortgeführt werden können. Ebenso wenig ist wahrscheinlich, dass die Berichtsanforderungen abnehmen. Das Positionspapier zeigt auf strategischer Ebene auf, welche konkreten Schritte zur Entwicklung eines nachhaltigen Informationsmanagements in der Forschungsberichterstattung gegangen werden müssen. Eine Verständigung auf gemeinsame Standards ist die Grundvoraussetzung dafür, dass der nicht unbeträchtliche Aufwand für den Betrieb der Systeme gesenkt werden kann und mobilen Forschenden ermöglicht wird, ihr Portfolio in verschiedene Anwendungen zu übertragen und auch in andere Forschungseinrichtungen mitzunehmen. Die Arbeitsgruppe hat darüber hinaus konkrete handlungspraktische Hinweise für Systemauswahl, Einführung und Betrieb, Projektmanagement und Gestaltung der Systeme erarbeitet. Diese richten sich an Institutionen, die selbst ein Forschungsinformationssystem einführen oder entwickeln wollen. Reply Boost Like More actions Copy link Flag this media Block
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Lambert Heller @Lambo · activity timestamp 10 years ago Zenodo Research information systems at universities and research institutions - Position Paper of DINI AG FIS This is the English translation of a position paper published by the German DINI Working Group on Research Information Systems (DINI AG FIS) in 2015. Reporting has become a regular part of science at every level. Researchers are required to report to external funding organisations and sponsors. Management needs an overview of the multitude of research information available in order to be able to make sound decisions and compete successfully for equipment and funding. Public accountability, particularly in terms of financing, has also grown in importance over time. At the same time, universities and research institutions still face major problems when it comes to providing information on research performance. The causes of these problems are often very similar at each institution – distributed data storage without any interfaces, management systems that fail to map research contexts, and limited usability of existing systems when it comes to carrying out differentiated analyses: Specialist and funding databases are managed independently of one another, interfaces and exchange formats simply do not exist, and standardisation options are seldom used when developing such systems. The development of financeable and functional research information systems and, above all, the exchange of existing information are of equal importance as campus management or suitable HR and finance systems when it comes to IT development in scientific institutions. It is difficult to imagine institutions being able to manage processes requiring manual input and annual data requests in the long term. Reporting requirements are also likely to increase over time. This position paper describes specific strategic steps that need to be taken in order to develop long-term research reporting information management processes in German research insttutions. Common standards need to be agreed on as they are a prerequisite both for reducing the considerable amount of work required to run systems and for enabling mobile researchers to transfer their portfolio to various applications and different research institutions. The working group also devised specific practical tips on designing, choosing, introducing and running a system as well as advice with regard to project management. These tips and advice are aimed at institutions wishing to introduce or develop a research information system. Reply Boost Like More actions Copy link Flag this media Block
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Lambert Heller @Lambo · activity timestamp 10 years ago ORCID Reply Boost Like More actions Copy link Flag this media Block
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Lambert Heller @Lambo · activity timestamp 10 years ago Impact of Social Sciences What will the scholarly profile page of the future look like? Provision of metadata is enabling experimentation. From multi-stakeholder platforms like ORCID, to commercial services like Google Scholar, academic profiles exist in a complex landscape of information flows. Lambert Heller provides an overview of … Reply Boost Like More actions Copy link Flag this media Block
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