27 results on '"Nehring, S."'
Search Results
2. Resting eggs of zooplankton (Copepoda and Cladocera) from the Kiel Bay and adjacent waters (southwestern Baltic)
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Madhupratap, M., Nehring, S., and Lenz, J.
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- 1996
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3. Dinoflagellate resting cysts as factors in phytoplankton ecology of the North Sea
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Nehring, S.
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- 1995
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4. Long-term changes in Prosobranchia (Gastropoda) abundances on the German North Sea coast: the role of the anti-fouling biocide tributyltin
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Nehring, S
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- 2000
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5. Parasite communities and infection levels of the invasive Chinese sleeper Perccottus glenii (Actinopterygii: Odontobutidae) from the Naab river basin, Germany.
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Kvach, Y., Janáč, M., Nehring, S., Ondračková, M., and Jurajda, P.
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AMUR sleeper ,WATERSHEDS ,PARASITES ,MOLLUSKS ,TAPEWORMS - Abstract
The Chinese sleeper (Perccottus glenii), an invasive Asian fish, was first registered in Germany in 2009 (westernmost extent of its invasive range). We sampled Chinese sleepers from two localities on the Bücherlgraben creek (a tributary of the River Naab) in south-eastern Germany in November 2015 and examined them for parasite infection. Twelve taxa were registered, including ciliates (unidentified Trichodina), a monogenean, three cestode species, two digenean taxa, two acanthocephalan species, two nematode species and one mollusc glochidia. Infracommunities consisted of 1–5 species, with 10% of fish uninfected. Three parasite species (Acanthocephalus anguillae, Gyrodactylus luciopercae and Pseudocapillaria tomentosa) were recorded on Chinese sleepers for the first time. The results highlight the important role of the Chinese sleeper as a second intermediate host in the life cycle of heron and grebe parasites. The Chinese sleeper parasite community displayed low homogeneity at both localities sampled, with allogenic parasites (metacercariae and mesocercoids) mostly shared. Differences between localities were mainly caused by autogenic parasites. No invasive parasites associated with the Chinese sleeper were observed in the study area, all parasites being representatives of European fauna. This supports the hypothesis of introduction via the aquarium trade or through transport with commercial fish. [ABSTRACT FROM AUTHOR]
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- 2017
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6. Changes in North Sea macrofauna communities and species distribution between 1986 and 2000
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Kroncke, I., Reiss, H., Eggleton, Jd, Aldridge, Jn, Bergman, M J N, Cochrane, S., Craeymeersch J, A., Degraer, S., Desroy, N., Dewarumez, Jean-Marie, Gerard, Claudia, Duineveld, G. A., Essink, K., Hillewaert, H., Lavaleye, M., Moll, A., Nehring, S., Newell, R., Oug, E., Pohlmann, T., Rachor, E., Robertson, M., Rumohr, H., Schratzberger, M., Smith, R., Vanden Berghe, E., van Dalfsen, J., van Hoey, G., Vincx, V., Willems, W., Rees, Hl, Laboratoire Environnement Ressource Bretagne Nord (LERBN), Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER), Laboratoire d’Océanologie et de Géosciences (LOG) - UMR 8187 (LOG), Centre National de la Recherche Scientifique (CNRS)-Université du Littoral Côte d'Opale (ULCO)-Université de Lille-Institut national des sciences de l'Univers (INSU - CNRS), The Centre for Environment, Flanders Marine Institute, VLIZ, LITTORAL (LITTORAL), Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER), and Institut national des sciences de l'Univers (INSU - CNRS)-Université du Littoral Côte d'Opale (ULCO)-Université de Lille-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Nord])
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[SDU.STU.OC]Sciences of the Universe [physics]/Earth Sciences/Oceanography - Abstract
International audience; The North Sea Benthos Project 2000 was initiated as a follow-up to the 1986 ICES North Sea Benthos Survey with the major aim to identify changes in the macrofauna species distribution and community structure in the North Sea and their likely causesThe results showed that the large-scale spatial distribution of macrofauna communities in the North Sea hardly changed between 1986 and 2000, with the main divisions at the 50 m and 100 m depth contours. Water temperature and salinity as well as wave exposure, tidal stress and primary production were influential environmental factors on a large (North Sea-wide) spatial scale. The increase in abundance and regional changes in distribution of various species with a southern distribution in the North Sea in 2000 were largely associated with an increase in sea surface temperature, primary production and, thus, food supply. This can be most likely related to the North Sea hydro-climate change in the late 1980s influenced by the variability in the North Atlantic Oscillation (NAO). Only one cold-temperate species decreased in abundance in 2000 at most of the stations. Indications for newly established populations of offshore non-native species were not found. Differences in macrofauna community structure on localised spatial scales were predominantly found north of the 50 m depth contour off the British coast along the Flamborough Head Front towards the Dogger Bank, off the coast of Jutland and at the Frisian Front. These changes were most likely attributed to stronger frontal systems in 2000 caused by the increased inflow of Atlantic water masses in relation to the hydro-climate change in the late 1980s.
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- 2011
7. Biological Invasions Via Inland Water Corridors: Developing a Risk Assessment Tool for European Inland Waterways
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Panov, Vadim, Nehring, S., Devin, Simon, Alexandrov, Ludmil B, Paunovic, Momir, Senchenko, V., Mastitsky, Sergey, Minchin, Dan, Saint Petersburg State University (SPBU), Laboratoire des Interactions Ecotoxicologie, Biodiversité, Ecosystèmes (LIEBE), Université Paul Verlaine - Metz (UPVM)-Centre National de la Recherche Scientifique (CNRS), Los Alamos National Laboratory (LANL), Institute for Biological Research Sinisa Stankovic [Belgrade] (IBISS), University of Belgrade [Belgrade], Division of Theoretical Bioinformatics [Heidelberg], German Cancer Research Center - Deutsches Krebsforschungszentrum [Heidelberg] (DKFZ), Marine Organism Investigations, Partenaires INRAE, and Devin, Simon
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[SDV.EE]Life Sciences [q-bio]/Ecology, environment ,[STAT]Statistics [stat] ,[SDV.EE] Life Sciences [q-bio]/Ecology, environment ,[SDV.TOX.ECO] Life Sciences [q-bio]/Toxicology/Ecotoxicology ,[SDV.EE.ECO]Life Sciences [q-bio]/Ecology, environment/Ecosystems ,[SDV.EE.ECO] Life Sciences [q-bio]/Ecology, environment/Ecosystems ,[SDV.TOX.ECO]Life Sciences [q-bio]/Toxicology/Ecotoxicology ,ComputingMilieux_MISCELLANEOUS ,[STAT] Statistics [stat] - Abstract
International audience
- Published
- 2007
8. Changes in North Sea macrofauna communities between 1986 and 2000
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Kröncke, I., Reiss, H., Bergman, M. J. N., Cochrane, S., Craeymeersch, J, Degraer, S., Desroy, M., Dewarumez, J.-M., Duineveld, G., Eggleton, J. D., Essink, K., Hillewaert, H., Lavaleye, M., Moll, A., Nehring, S., Newell, J., Oug, E., Pohlmann, T., Rachor, E., Rees, H. L., Robertson, M., Rumohr, Heye, Schratzberger, M., Smith, R., van den Berghe, E., van Dalfsen, J., van Hoey, G., Vincx, M., and Willems, W.
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Sediments ,Long-term variations ,Microbenthos ,ANE, North Sea - Abstract
This paper is chapter 5.2 of the ICES CRR “Structure and dynamics of the North Sea benthos” (ICES 2007) compiled by the ICES Study Group on the North Sea Benthos Project 2000. The North Sea Benthos Project 2000 (NSBP) was initiated as a follow-up to the earlier 1986 ICES North Sea Benthos Survey (NSBS). One major aim of the NSBP 2000 was to compare the outcome with that of the 1986 NSBS, in order to identify any significant changes in the community structure and their likely causes. In general, the spatial distribution of the macrofaunal communities in 2000 was rather similar to that in 1986. But changes were found within communities which were addressed to changes in the hydroclimate caused by changes in the North Atlantic Oscillation influencing changes in currents and sediment structure as well as food availability.
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- 2007
9. Infauna, epifauna and demersal fish communities in the North Sea: community patterns and underlying processes
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Reiss, H., Rees, H.L., Kröncke, I., Aldridge, J.N., Bergman, M.J.N., Bolam, T., Cochrane, S.J., Craeymeersch, J.A., Degraer, S., Desroy, N., Dewarumez, J.-M., Duineveld, G.C.A., Eggleton, J.D., Hillewaert, H., Kershaw, P.J., Lavaleye, M.S.S., Mason, C., Moll, A., Nehring, S., Newell, R., Oug, E., Pohlmann, T., Rachor, E., Robertson, M., Rumohr, H., Schratzberger, M., Smith, R., Vanden Berghe, E., van Dalfsen, J., Van Hoey, G., and Willems, W.
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Benthic infauna ,ANE, North Sea ,Epibenthos - Abstract
In order to provide a broad ecosystem context for the interpretation of the infauna community data revealed during the ‘North Sea Benthos Project 2000’, the data were analysed in conjunction with epifaunal and demersal fish assemblage data collected under other (EU and ICES) auspices. The objectives were to compare the spatial community patterns of all three faunal components and to relate the spatial patterns in the different faunal components to environmental parameters to get insights into their functional similarities and differences. Patterns in the distribution of infaunal, epifaunal and fish assemblage types determined from cluster analyses were very similar, with major distinctions between the southern (
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- 2007
10. Handlungsoptionen und -erfordernisse.
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Essl, F., Schlatter, C., Balzer, S., Ellwanger, G., Gruttke, H., and Nehring, S.
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- 2013
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11. The times are changing: temporal shifts in patterns of fish invasions in central European fresh waters.
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Rabitsch, W., Milasowszky, N., Nehring, S., Wiesner, C., Wolter, C., and Essl, F.
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FRESHWATER fishes ,INTRODUCED species ,AQUACULTURE ,CLASSIFICATION of fish - Abstract
This study examines the invasion history of alien fish species based on exhaustive national data sets on fish invasions of two contiguous central European countries (Germany and Austria). Fifteen alien fish species are currently established in both countries, constituting 14 and 17% of the total freshwater fish fauna of Germany and Austria, respectively. In both countries, six alien species are present, but not established. The status of five alien species in Germany and three species in Austria remains unknown. Accumulation rates of alien fish species have increased in recent decades with >50% of them reported after 1971. North America and Asia were the primary sources of alien fish species in Germany and Austria up to the 1980s, whereas European species of Ponto-Caspian origin dominate now. Fisheries (including aquaculture) and the animal trade were responsible for most earlier introductions, whereas waterways were the main pathway for recent invaders. The extent of the spatial distribution of alien species was positively correlated with residence time, i.e. the time elapsed since the first national record. Different thermal preferences of early invaders (mostly coldwater species) and new invaders (typically warmwater adapted) may benefit the latter in the face of climate change. It is concluded that new challenges for alien fish management arise and that ecosystem-based approaches as endorsed by the E.U. Water Framework Directive (maintaining or restoring good ecological status of rivers and streams) should become the centrepiece of river management in Europe. [ABSTRACT FROM AUTHOR]
- Published
- 2013
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12. Colorectal surgery surgical site infection reduction program: a national surgical quality improvement program-driven multidisciplinary single-institution experience.
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Cima R, Dankbar E, Lovely J, Pendlimari R, Aronhalt K, Nehring S, Hyke R, Tyndale D, Rogers J, Quast L, and Colorectal Surgical Site Infection Reduction Team
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- 2013
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13. Apical bulkheads accumulate as adaptive response to impaired bile flow in liver disease.
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Mayer C, Nehring S, Kücken M, Repnik U, Seifert S, Sljukic A, Delpierre J, Morales-Navarrete H, Hinz S, Brosch M, Chung B, Karlsen T, Huch M, Kalaidzidis Y, Brusch L, Hampe J, Schafmayer C, and Zerial M
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- Mice, Animals, Liver, Bile Canaliculi, Hepatocytes, Bile, Liver Diseases
- Abstract
Hepatocytes form bile canaliculi that dynamically respond to the signalling activity of bile acids and bile flow. Little is known about their responses to intraluminal pressure. During embryonic development, hepatocytes assemble apical bulkheads that increase the canalicular resistance to intraluminal pressure. Here, we investigate whether they also protect bile canaliculi against elevated pressure upon impaired bile flow in adult liver. Apical bulkheads accumulate upon bile flow obstruction in mouse models and patients with primary sclerosing cholangitis (PSC). Their loss under these conditions leads to abnormally dilated canaliculi, resembling liver cell rosettes described in other hepatic diseases. 3D reconstruction reveals that these structures are sections of cysts and tubes formed by hepatocytes. Mathematical modelling establishes that they positively correlate with canalicular pressure and occur in early PSC stages. Using primary hepatocytes and 3D organoids, we demonstrate that excessive canalicular pressure causes the loss of apical bulkheads and formation of rosettes. Our results suggest that apical bulkheads are a protective mechanism of hepatocytes against impaired bile flow, highlighting the role of canalicular pressure in liver diseases., (© 2023 The Authors. Published under the terms of the CC BY 4.0 license.)
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- 2023
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14. Loss of hepatic Mboat7 leads to liver fibrosis.
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Thangapandi VR, Knittelfelder O, Brosch M, Patsenker E, Vvedenskaya O, Buch S, Hinz S, Hendricks A, Nati M, Herrmann A, Rekhade DR, Berg T, Matz-Soja M, Huse K, Klipp E, Pauling JK, Wodke JA, Miranda Ackerman J, Bonin MV, Aigner E, Datz C, von Schönfels W, Nehring S, Zeissig S, Röcken C, Dahl A, Chavakis T, Stickel F, Shevchenko A, Schafmayer C, Hampe J, and Subramanian P
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- Acyltransferases deficiency, Adult, Aged, Animals, Biopsy, Disease Models, Animal, Disease Progression, Female, Genotype, Haplotypes, Humans, Inflammation genetics, Male, Membrane Proteins deficiency, Mice, Inbred C57BL, Middle Aged, Polymorphism, Single Nucleotide, Mice, Acyltransferases genetics, Liver Cirrhosis genetics, Membrane Proteins genetics, Non-alcoholic Fatty Liver Disease genetics
- Abstract
Objective: The rs641738C>T variant located near the membrane-bound O-acyltransferase domain containing 7 (MBOAT7) locus is associated with fibrosis in liver diseases, including non-alcoholic fatty liver disease (NAFLD), alcohol-related liver disease, hepatitis B and C. We aim to understand the mechanism by which the rs641738C>T variant contributes to pathogenesis of NAFLD., Design: Mice with hepatocyte-specific deletion of MBOAT7 (Mboat7
Δhep ) were generated and livers were characterised by histology, flow cytometry, qPCR, RNA sequencing and lipidomics. We analysed the association of rs641738C>T genotype with liver inflammation and fibrosis in 846 NAFLD patients and obtained genotype-specific liver lipidomes from 280 human biopsies., Results: Allelic imbalance analysis of heterozygous human liver samples pointed to lower expression of the MBOAT7 transcript on the rs641738C>T haplotype. Mboat7Δhep mice showed spontaneous steatosis characterised by increased hepatic cholesterol ester content after 10 weeks. After 6 weeks on a high fat, methionine-low, choline-deficient diet, mice developed increased hepatic fibrosis as measured by picrosirius staining (p < 0.05), hydroxyproline content (p < 0.05) and transcriptomics, while the inflammatory cell populations and inflammatory mediators were minimally affected. In a human biopsied NAFLD cohort, MBOAT7 rs641738C>T was associated with fibrosis (p = 0.004) independent of the presence of histological inflammation. Liver lipidomes of Mboat7Δhep mice and human rs641738TT carriers with fibrosis showed increased total lysophosphatidylinositol levels. The altered lysophosphatidylinositol and phosphatidylinositol subspecies in MBOAT7Δhep livers and human rs641738TT carriers were similar., Conclusion: Mboat7 deficiency in mice and human points to an inflammation-independent pathway of liver fibrosis that may be mediated by lipid signalling and a potentially targetable treatment option in NAFLD., Competing Interests: Competing interests: None declared., (© Author(s) (or their employer(s)) 2021. Re-use permitted under CC BY-NC. No commercial re-use. See rights and permissions. Published by BMJ.)- Published
- 2021
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15. Identification of monoclonal antibody variants involved in aggregate formation - Part 2: Hydrophobicity variants.
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Meyer RM, Berger L, Nerkamp J, Scheler S, Nehring S, and Friess W
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- Drug Stability, Drug Storage, Hydrophobic and Hydrophilic Interactions, Antibodies, Monoclonal chemistry, Biological Products chemistry, Protein Aggregates
- Abstract
Monoclonal antibodies (mAbs) are valuable tools both in therapy and in diagnostic. Their tendency to aggregate is a serious concern. Since a mAb drug substance (DS) is composed of different variants, it is important for manufacturers to know the behavior and stability not only of the mAb as a whole, but also of the variants contained in the product. We present a method to separate hydrophobicity variants of a mAb and subsequently analyzed these variants for stability and aggregation propensity. We identified a potentially aggregation prone hydrophilic variant which is interrelated with another previously identified aggregation prone acidic charge variant. Additionally, we assessed the risk posed by the aggregation prone variant to the DS by spiking hydrophobicity variants into DS and did not observe an enhanced aggregation propensity. Thus we present an approach to separate, characterize and analyze the criticality of aggregation prone variants in protein DS which is a step forward to further assure drug safety., (Copyright © 2021 Elsevier B.V. All rights reserved.)
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- 2021
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16. Identification of monoclonal antibody variants involved in aggregate formation - Part 1: Charge variants.
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Meyer RM, Berger L, Nerkamp J, Scheler S, Nehring S, and Friess W
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- Antibodies, Monoclonal chemistry, Antibodies, Monoclonal metabolism, Biological Products chemistry, Biological Products metabolism, Biological Products standards, Cation Exchange Resins, Chromatography, Gel, Chromatography, Ion Exchange, Dynamic Light Scattering, Protein Unfolding, Quality Control, Antibodies, Monoclonal isolation & purification, Biological Products isolation & purification, Protein Aggregates
- Abstract
Biopharmaceutical products contain conformational and chemical variants, that are typically well characterized regarding identity and activity. However, little is known about their self-interaction propensity and tendency to unfold, which are critical characteristics for drug stability and safety. This study aimed to separate and compare charge variants of a monoclonal antibody (mAb) and to identify aggregation prone species. We show a semi-preparative cation exchange method, that we developed to separate the individual acidic and basic variants from the naïve mAb. Additionally, we demonstrate, that the yield and purity of the fractionated charge species, extracted by that method, were sufficient for subsequent analysis of aggregate content, conformation stability and self-interaction. Our analysis revealed a differently behaving acidic variant and confirmed its increased aggregation propensity by molecular modeling. During a stability study, the potentially aggregation prone charge variant posed a limited risk to the drug substance (DS). We are the first to look at the stability of single charge variants of biopharmaceuticals, and thus present manufacturers and regulatory authorities with a method to enhance drug safety., (Copyright © 2020 Elsevier B.V. All rights reserved.)
- Published
- 2021
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17. Transfer learning with chest X-rays for ER patient classification.
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Stubblefield J, Hervert M, Causey JL, Qualls JA, Dong W, Cai L, Fowler J, Bellis E, Walker K, Moore JH, Nehring S, and Huang X
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- Humans, Respiratory Distress Syndrome etiology, Retrospective Studies, Deep Learning, Disease classification, Emergency Service, Hospital, Patients classification, Radiography, Thoracic, Respiratory Distress Syndrome diagnostic imaging
- Abstract
One of the challenges with urgent evaluation of patients with acute respiratory distress syndrome (ARDS) in the emergency room (ER) is distinguishing between cardiac vs infectious etiologies for their pulmonary findings. We conducted a retrospective study with the collected data of 171 ER patients. ER patient classification for cardiac and infection causes was evaluated with clinical data and chest X-ray image data. We show that a deep-learning model trained with an external image data set can be used to extract image features and improve the classification accuracy of a data set that does not contain enough image data to train a deep-learning model. An analysis of clinical feature importance was performed to identify the most important clinical features for ER patient classification. The current model is publicly available with an interface at the web link: http://nbttranslationalresearch.org/ .
- Published
- 2020
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18. Detecting Asymmetric Patterns and Localizing Cancers on Mammograms.
- Author
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Guan Y, Wang X, Li H, Zhang Z, Chen X, Siddiqui O, Nehring S, and Huang X
- Abstract
One in eight women develops invasive breast cancer in her lifetime. The frontline protection against this disease is mammography. While computer-assisted diagnosis algorithms have made great progress in generating reliable global predictions, few focus on simultaneously producing regions of interest (ROIs) for biopsy. Can we combine ROI-oriented algorithms with global classification of cancer status, which simultaneously highlight suspicious regions and optimize classification performance? Can the asymmetry of breasts be adopted in deep learning for finding lesions and classifying cancers? We answer the above questions by building deep-learning networks that identify masses and microcalcifications in paired mammograms, exclude false positives, and stepwisely improve performance of the model with asymmetric information regarding the breasts. This method achieved a co-leading place in the Digital Mammography DREAM Challenge for predicting breast cancer. We highlight here the importance of this dual-purpose process that simultaneously provides the locations of potential lesions in mammograms., Competing Interests: DECLARATION OF INTERESTS The authors declare no competing interests.
- Published
- 2020
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19. Genetic Variation in HSD17B13 Reduces the Risk of Developing Cirrhosis and Hepatocellular Carcinoma in Alcohol Misusers.
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Stickel F, Lutz P, Buch S, Nischalke HD, Silva I, Rausch V, Fischer J, Weiss KH, Gotthardt D, Rosendahl J, Marot A, Elamly M, Krawczyk M, Casper M, Lammert F, Buckley TWM, McQuillin A, Spengler U, Eyer F, Vogel A, Marhenke S, von Felden J, Wege H, Sharma R, Atkinson S, Franke A, Nehring S, Moser V, Schafmayer C, Spahr L, Lackner C, Stauber RE, Canbay A, Link A, Valenti L, Grove JI, Aithal GP, Marquardt JU, Fateen W, Zopf S, Dufour JF, Trebicka J, Datz C, Deltenre P, Mueller S, Berg T, Hampe J, and Morgan MY
- Subjects
- Aged, Aged, 80 and over, Carcinoma, Hepatocellular epidemiology, Carcinoma, Hepatocellular etiology, Cohort Studies, Female, Humans, Liver Cirrhosis, Alcoholic epidemiology, Liver Cirrhosis, Alcoholic etiology, Liver Neoplasms complications, Liver Neoplasms epidemiology, Liver Neoplasms etiology, Male, Middle Aged, Risk Assessment, 17-Hydroxysteroid Dehydrogenases genetics, Alcoholism complications, Carcinoma, Hepatocellular genetics, Genetic Variation, Liver Cirrhosis, Alcoholic genetics, Liver Neoplasms genetics
- Abstract
Background and Aims: Carriage of rs738409:G in patatin-like phospholipase domain containing 3 (PNPLA3) is associated with an increased risk for developing alcohol-related cirrhosis and hepatocellular carcinoma (HCC). Recently, rs72613567:TA in hydroxysteroid 17-beta dehydrogenase 13 (HSD17B13) was shown to be associated with a reduced risk for developing alcohol-related liver disease and to attenuate the risk associated with carriage of PNPLA3 rs738409:G. This study explores the risk associations between these two genetic variants and the development of alcohol-related cirrhosis and HCC., Approach and Results: Variants in HSD17B13 and PNPLA3 were genotyped in 6,171 participants, including 1,031 with alcohol-related cirrhosis and HCC, 1,653 with alcohol-related cirrhosis without HCC, 2,588 alcohol misusers with no liver disease, and 899 healthy controls. Genetic associations with the risks for developing alcohol-related cirrhosis and HCC were determined using logistic regression analysis. Carriage of HSD17B13 rs72613567:TA was associated with a lower risk for developing both cirrhosis (odds ratio [OR], 0.79; 95% confidence interval [CI], 0.72-0.88; P = 8.13 × 10
-6 ) and HCC (OR, 0.77; 95% CI, 0.68-0.89; P = 2.27 × 10-4 ), whereas carriage of PNPLA3 rs738409:G was associated with an increased risk for developing cirrhosis (OR, 1.70; 95% CI, 1.54-1.88; P = 1.52 × 10-26 ) and HCC (OR, 1.77; 95% CI, 1.58-1.98; P = 2.31 × 10-23 ). These associations remained significant after adjusting for age, sex, body mass index, type 2 diabetes, and country. Carriage of HSD17B13 rs72613567:TA attenuated the risk for developing cirrhosis associated with PNPLA3 rs738409:G in both men and women, but the protective effect against the subsequent development of HCC was only observed in men (ORallelic , 0.75; 95% CI, 0.64-0.87; P = 1.72 × 10-4 )., Conclusions: Carriage of variants in PNPLA3 and HSD17B13 differentially affect the risk for developing advanced alcohol-related liver disease. A genotypic/phenotypic risk score might facilitate earlier diagnosis of HCC in this population., (© 2019 by the American Association for the Study of Liver Diseases.)- Published
- 2020
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20. Venous thromboembolism chemoprophylaxis in mastectomy patients: A 5-year follow-up study.
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Vu TND, Melik RE, Nehring S, Bergquist W, Hoskin T, Day C, and Jakub JW
- Abstract
Background: Venous thromboembolism (VTE) chemoprophylaxis in breast surgery remains controversial. In 2012, we instituted a practice change of routine chemoprophylaxis for patients with invasive cancer undergoing mastectomy. Herein, we report the effects of this on rates of VTE and hematoma., Methods: Our 30-day rates of VTE and hematoma requiring reoperation among patients with mastectomy since the practice change were retrospectively collected from National Surgical Quality Improvement Program (NSQIP). The subsequent 5-year data (2012-2017) was compared with historic NSQIP data (2006-2010). We utilized information from our 30-day follow-up databank to assess patients not sampled by NSQIP., Results: After the practice change, the heparin prophylaxis rate rose from 19.5% to 95.6% (P < .001) and the VTE rate fell from 0.8% to 0% (P = .30). There was no significant change in reoperative hematoma rate (P = .39). The majority of the current NSQIP patient population (93.1%) had a Caprini score of 5 or greater. Among 663 patients obtained from 30-day postoperative follow-up, there were 2 VTE (0.3%) and 7 (1.1%) reoperations for hematoma., Conclusions: The practice change resulted in an increase of VTE chemoprophylaxis without significant change in hematoma incidence. Although not statistically significant, VTE incidence decreased. This supports the use of standardized VTE chemoprophylaxis in this population and warrants further study., (© 2019 Wiley Periodicals, Inc.)
- Published
- 2020
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21. Epigenomic map of human liver reveals principles of zonated morphogenic and metabolic control.
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Brosch M, Kattler K, Herrmann A, von Schönfels W, Nordström K, Seehofer D, Damm G, Becker T, Zeissig S, Nehring S, Reichel F, Moser V, Thangapandi RV, Stickel F, Baretton G, Röcken C, Muders M, Matz-Soja M, Krawczak M, Gasparoni G, Hartmann H, Dahl A, Schafmayer C, Walter J, and Hampe J
- Subjects
- Adult, Aged, Animals, DNA Methylation, Female, Gene Expression Profiling, Humans, Liver anatomy & histology, Liver growth & development, Male, Mice, Middle Aged, Non-alcoholic Fatty Liver Disease genetics, Non-alcoholic Fatty Liver Disease pathology, Epigenomics, Hepatocytes metabolism, Liver metabolism, Morphogenesis genetics
- Abstract
A deeper epigenomic understanding of spatial organization of cells in human tissues is an important challenge. Here we report the first combined positional analysis of transcriptomes and methylomes across three micro-dissected zones (pericentral, intermediate and periportal) of human liver. We identify pronounced anti-correlated transcriptional and methylation gradients including a core of 271 genes controlling zonated metabolic and morphogen networks and observe a prominent porto-central gradient of DNA methylation at binding sites of 46 transcription factors. The gradient includes an epigenetic and transcriptional Wnt signature supporting the concept of a pericentral hepatocyte regeneration pathway under steady-state conditions. While donors with non-alcoholic fatty liver disease show consistent gene expression differences corresponding to the severity of the disease across all zones, the relative zonated gene expression and DNA methylation patterns remain unchanged. Overall our data provide a wealth of new positional insights into zonal networks controlled by epigenetic and transcriptional gradients in human liver.
- Published
- 2018
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22. Risk of Surgical Site Infection (SSI) following Colorectal Resection Is Higher in Patients With Disseminated Cancer: An NCCN Member Cohort Study.
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Kamboj M, Childers T, Sugalski J, Antonelli D, Bingener-Casey J, Cannon J, Cluff K, Davis KA, Dellinger EP, Dowdy SC, Duncan K, Fedderson J, Glasgow R, Hall B, Hirsch M, Hutter M, Kimbro L, Kuvshinoff B, Makary M, Morris M, Nehring S, Ramamoorthy S, Scott R, Sovel M, Strong V, Webster A, Wick E, Aguilar JG, Carlson R, and Sepkowitz K
- Subjects
- Adult, Aged, Cohort Studies, Colorectal Neoplasms epidemiology, Databases, Factual, Female, Humans, Logistic Models, Male, Middle Aged, Rectum surgery, Risk Factors, United States epidemiology, Colorectal Neoplasms surgery, Digestive System Surgical Procedures adverse effects, Surgical Wound Infection epidemiology, Surgical Wound Infection etiology
- Abstract
BACKGROUNDSurgical site infections (SSIs) following colorectal surgery (CRS) are among the most common healthcare-associated infections (HAIs). Reduction in colorectal SSI rates is an important goal for surgical quality improvement.OBJECTIVETo examine rates of SSI in patients with and without cancer and to identify potential predictors of SSI risk following CRSDESIGNAmerican College of Surgeons National Surgical Quality Improvement Program (ACS NSQIP) data files for 2011-2013 from a sample of 12 National Comprehensive Cancer Network (NCCN) member institutions were combined. Pooled SSI rates for colorectal procedures were calculated and risk was evaluated. The independent importance of potential risk factors was assessed using logistic regression.SETTINGMulticenter studyPARTICIPANTSOf 22 invited NCCN centers, 11 participated (50%). Colorectal procedures were selected by principal procedure current procedural technology (CPT) code. Cancer was defined by International Classification of Disease, Ninth Revision, Clinical Modification (ICD-9-CM) codes.MAIN OUTCOMEThe primary outcome of interest was 30-day SSI rate.RESULTSA total of 652 SSIs (11.06%) were reported among 5,893 CRSs. Risk of SSI was similar for patients with and without cancer. Among CRS patients with underlying cancer, disseminated cancer (SSI rate, 17.5%; odds ratio [OR], 1.66; 95% confidence interval [CI], 1.23-2.26; P=.001), ASA score ≥3 (OR, 1.41; 95% CI, 1.09-1.83; P=.001), chronic obstructive pulmonary disease (COPD; OR, 1.6; 95% CI, 1.06-2.53; P=.02), and longer duration of procedure were associated with development of SSI.CONCLUSIONSPatients with disseminated cancer are at a higher risk for developing SSI. ASA score >3, COPD, and longer duration of surgery predict SSI risk. Disseminated cancer should be further evaluated by the Centers for Disease Control and Prevention (CDC) in generating risk-adjusted outcomes.Infect Control Hosp Epidemiol 2018;39:555-562.
- Published
- 2018
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23. Performance analysis of orthogonal pairs designed for an expanded eukaryotic genetic code.
- Author
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Nehring S, Budisa N, and Wiltschi B
- Subjects
- Amino Acyl-tRNA Synthetases metabolism, Cloning, Molecular, Codon, Terminator chemistry, Codon, Terminator genetics, Escherichia coli, Eukaryota, Genetic Code, Genetic Engineering, Genetic Vectors, Genomic Library, Humans, Mutation, Protein Biosynthesis, RNA, Transfer metabolism, Saccharomyces cerevisiae metabolism, Saccharomyces cerevisiae Proteins metabolism, Superoxide Dismutase antagonists & inhibitors, Superoxide Dismutase genetics, Superoxide Dismutase metabolism, Superoxide Dismutase-1, Tyrosine analogs & derivatives, Amino Acyl-tRNA Synthetases genetics, RNA, Transfer genetics, Saccharomyces cerevisiae genetics, Saccharomyces cerevisiae Proteins genetics, Tyrosine genetics
- Abstract
Background: The suppression of amber stop codons with non-canonical amino acids (ncAAs) is used for the site-specific introduction of many unusual functions into proteins. Specific orthogonal aminoacyl-tRNA synthetase (o-aaRS)/amber suppressor tRNA(CUA) pairs (o-pairs) for the incorporation of ncAAs in S. cerevisiae were previously selected from an E. coli tyrosyl-tRNA synthetase/tRNA(CUA) mutant library. Incorporation fidelity relies on the specificity of the o-aaRSs for their ncAAs and the ability to effectively discriminate against their natural substrate Tyr or any other canonical amino acid., Methodology/principal Findings: We used o-pairs previously developed for ncAAs carrying reactive alkyne-, azido-, or photocrosslinker side chains to suppress an amber mutant of human superoxide dismutase 1 in S. cerevisiae. We found worse incorporation efficiencies of the alkyne- and the photocrosslinker ncAAs than reported earlier. In our hands, amber suppression with the ncAA containing the azido group did not occur at all. In addition to the incorporation experiments in S. cerevisiae, we analyzed the catalytic properties of the o-aaRSs in vitro. Surprisingly, all o-aaRSs showed much higher preference for their natural substrate Tyr than for any of the tested ncAAs. While it is unclear why efficiently recognized Tyr is not inserted at amber codons, we speculate that metabolically inert ncAAs accumulate in the cell, and for this reason they are incorporated despite being weak substrates for the o-aaRSs., Conclusions/significance: O-pairs have been developed for a whole plethora of ncAAs. However, a systematic and detailed analysis of their catalytic properties is still missing. Our study provides a comprehensive scrutiny of o-pairs developed for the site-specific incorporation of reactive ncAAs in S. cerevisiae. It suggests that future development of o-pairs as efficient biotechnological tools will greatly benefit from sound characterization in vivo and in vitro in parallel to monitoring intracellular ncAA levels.
- Published
- 2012
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24. Assessing the risks of aquatic species invasions via European inland waterways: from concepts to environmental indicators.
- Author
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Panov VE, Alexandrov B, Arbaciauskas K, Binimelis R, Copp GH, Grabowski M, Lucy F, Leuven RS, Nehring S, Paunović M, Semenchenko V, and Son MO
- Subjects
- Animals, Ecosystem, Europe, Fishes, Human Activities, International Cooperation, Plants, Rivers, Transportation, Water Movements, Conservation of Natural Resources methods, Environmental Monitoring methods
- Abstract
Over the past century, the potential for aquatic species to expand their ranges in Europe has been enhanced both as a result of the construction of new canals and because of increased international trade. A complex network of inland waterways now connects some previously isolated catchments in southern (Caspian, Azov, Black, Mediterranean seas) and northern (Baltic, North, Wadden, White seas) Europe, and these waterways act as corridors for nonnative species invasions. We have developed a conceptual risk assessment model for invasive alien species introductions via European inland waterways, with specific protocols that focus on the development of environmental indicators within the socioeconomic context of the driving forces-pressures-state-impact-response framework. The risk assessment protocols and water quality indicators on alien species were tested for selected ecosystems within 3 main European invasion corridors, and these can be recommended for application as part of the Common Implementation Strategy of the European Commission Water Framework Directive, which aims to provide a holistic risk-based management of European river basins. The conceptual structure of the online Risk Assessment Toolkit for aquatic invasive alien species is provided and includes 3 main interlinked components: online risk assessment protocols, an early warning system, and an information transmitter for risk communication to end users.
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- 2009
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25. Predictive value of CA 125 and CA 72-4 in ovarian borderline tumors.
- Author
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Lenhard MS, Nehring S, Nagel D, Mayr D, Kirschenhofer A, Hertlein L, Friese K, Stieber P, and Burges A
- Subjects
- Adolescent, Adult, Aged, Aged, 80 and over, Disease-Free Survival, Female, Humans, Middle Aged, Neoplasm Staging, Ovarian Neoplasms pathology, Ovarian Neoplasms surgery, Predictive Value of Tests, Retrospective Studies, Young Adult, Antigens, Tumor-Associated, Carbohydrate blood, Biomarkers, Tumor blood, CA-125 Antigen blood, Neoplasm Recurrence, Local blood, Ovarian Neoplasms blood
- Abstract
Background: The aim of this study was to assess the prognostic value of cancer antigen (CA) 125 and CA 72-4 in patients with ovarian borderline tumor (BOT)., Methods: All women diagnosed and treated for BOT at our institution between 1981 and 2008 were included into this retrospective study (n=101). Preoperatively collected serum samples were analyzed for CA 125 (Architect, Abbott and Elecsys, Roche) and CA 72-4 (Elecsys, Roche) with reference to clinical data and compared to healthy women (n=109) and ovarian cancer patients (n=130)., Results: With a median of 34.7 U/mL (range 18.1-385.0 U/mL) for CA 125 and 2.3 U/mL (range 0.2-277.0 U/mL) for CA 72-4, serum tumor markers in BOT patients were significantly elevated as compared to healthy women with a median CA 125 of 13.5 U/mL (range 4.0-49.7 U/mL) and median CA 72-4 of 0.8 U/mL (range 0.2-20.6 U/mL). In addition, there was a significant difference compared with ovarian cancer patients who showed a median CA 125 of 401.5 U/mL (range 12.5-35,813 U/mL), but no difference was observed for CA 72-4 (median 3.9 U/mL, range 0.3-10,068 U/mL). Patients with a pT1a tumor stage had significantly lower values of CA 125 but not of CA 72-4 compared with individuals with higher tumor stages (median CA 125 29.9 U/mL for pT1a vs. 50.9 U/mL for >pT1a; p=0.014). There was a trend for increased concentrations of CA 125 but not of CA 72-4 in the presence of ascites, endometriosis or peritoneal implants at primary diagnosis. With respect to the prognostic value of CA 125 or CA 72-4, CA 125 was significantly higher at primary diagnosis in patients who later developed recurrence (251.0 U/mL vs. 34.65 U/mL, p=0.012)., Conclusions: Serum CA 125 and CA 72-4 concentrations in BOT patients differ from healthy controls and patients with ovarian cancer. CA 125, but not CA 72-4, at primary diagnosis correlates with tumor stage and tends to be increased in the presence of ascites, endometriosis or peritoneal implants. Moreover, CA 125 at primary diagnosis appears to have prognostic value for recurrence.
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- 2009
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26. Expanding the genetic code of Saccharomyces cerevisiae with methionine analogues.
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Wiltschi B, Wenger W, Nehring S, and Budisa N
- Subjects
- Alkynes metabolism, Glycine analogs & derivatives, Glycine genetics, Glycine metabolism, Humans, Methionine metabolism, Norleucine genetics, Norleucine metabolism, Recombinant Proteins biosynthesis, Superoxide Dismutase biosynthesis, Genetic Code, Methionine analogs & derivatives, Methionine genetics, Saccharomyces cerevisiae genetics
- Abstract
We replaced the single N-terminal methionine in heterologously expressed human Cu/Zn superoxide dismutase with the non-canonical methionine analogues homopropargylglycine and norleucine in the yeast Saccharomyces cerevisiae. Our non-canonical amino acid incorporation protocol involves a two-step procedure. In the first step, the methionine auxotrophic yeast cells are accumulated in synthetic medium containing methionine while the target protein production is shut off. After a short methionine depletion phase, the cells are transferred to inducing medium that contains the methionine analogue instead of methionine and target protein expression is switched on. The initially low level incorporation of approximately 12% could be elevated to 40% by increasing the non-canonical amino acid concentration in the medium by 10-fold. With this approach we were able to produce up to 5 mg substituted protein per litre of yeast culture., ((c) 2008 John Wiley & Sons, Ltd.)
- Published
- 2008
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27. Structural basis for DNA duplex separation by a superfamily-2 helicase.
- Author
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Büttner K, Nehring S, and Hopfner KP
- Subjects
- Adenosine Triphosphate chemistry, Amino Acid Sequence, Base Sequence, Binding Sites, Crystallography, X-Ray, DNA chemistry, Helix-Loop-Helix Motifs, Molecular Sequence Data, Protein Conformation, Archaeal Proteins chemistry, Archaeoglobus fulgidus enzymology, DNA Helicases chemistry
- Abstract
To reveal the mechanism of processive strand separation by superfamily-2 (SF2) 3'-->5' helicases, we determined apo and DNA-bound crystal structures of archaeal Hel308, a helicase that unwinds lagging strands and is related to human DNA polymerase theta. Our structure captures the duplex-unwinding reaction, shows that initial strand separation does not require ATP and identifies a prominent beta-hairpin loop as the unwinding element. Similar loops in hepatitis C virus NS3 helicase and RNA-decay factors support the idea that this duplex-unwinding mechanism is applicable to a broad subset of SF2 helicases. Comparison with ATP-bound SF2 enzymes suggests that ATP promotes processive unwinding of 1 base pair by ratchet-like transport of the 3' product strand. Our results provide a first structural framework for strand separation by processive SF2 3'-->5' helicases and reveal important mechanistic differences from SF1 helicases.
- Published
- 2007
- Full Text
- View/download PDF
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