Search Results - "Wright, Patrick R."

IntaRNA 2.0: enhanced and customizable prediction of RNA-RNA interactions by Mann, Martin, Wright, Patrick R, Backofen, Rolf

“…The IntaRNA algorithm enables fast and accurate prediction of RNA-RNA hybrids by incorporating seed constraints and interaction site accessibility. Here, we…”
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CopraRNA and IntaRNA: predicting small RNA targets, networks and interaction domains by Wright, Patrick R, Georg, Jens, Mann, Martin, Sorescu, Dragos A, Richter, Andreas S, Lott, Steffen, Kleinkauf, Robert, Hess, Wolfgang R, Backofen, Rolf

“…CopraRNA (Comparative prediction algorithm for small RNA targets) is the most recent asset to the Freiburg RNA Tools webserver. It incorporates and extends the…”
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Comparative genomics boosts target prediction for bacterial small RNAs by Wright, Patrick R., Richter, Andreas S., Papenfort, Kai, Mann, Martin, Vogel, Jörg, Hess, Wolfgang R., Backofen, Rolf, Georg, Jens

“…Small RNAs (sRNAs) constitute a large and heterogeneous class of bacterial gene expression regulators. Much like eukaryotic microRNAs, these sRNAs typically…”
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Freiburg RNA tools: a central online resource for RNA-focused research and teaching by Raden, Martin, Ali, Syed M, Alkhnbashi, Omer S, Busch, Anke, Costa, Fabrizio, Davis, Jason A, Eggenhofer, Florian, Gelhausen, Rick, Georg, Jens, Heyne, Steffen, Hiller, Michael, Kundu, Kousik, Kleinkauf, Robert, Lott, Steffen C, Mohamed, Mostafa M, Mattheis, Alexander, Miladi, Milad, Richter, Andreas S, Will, Sebastian, Wolff, Joachim, Wright, Patrick R, Backofen, Rolf

“…Abstract The Freiburg RNA tools webserver is a well established online resource for RNA-focused research. It provides a unified user interface and…”
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A glutamine riboswitch is a key element for the regulation of glutamine synthetase in cyanobacteria by Klähn, Stephan, Bolay, Paul, Wright, Patrick R, Atilho, Ruben M, Brewer, Kenneth I, Hagemann, Martin, Breaker, Ronald R, Hess, Wolfgang R

“…Abstract As the key enzyme of bacterial nitrogen assimilation, glutamine synthetase (GS) is tightly regulated. In cyanobacteria, GS activity is controlled by…”
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A stress-induced small RNA modulates alpha-rhizobial cell cycle progression by Robledo, Marta, Frage, Benjamin, Wright, Patrick R, Becker, Anke

“…Mechanisms adjusting replication initiation and cell cycle progression in response to environmental conditions are crucial for microbial survival. Functional…”
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Antioxidant activity of Hawaiian marine algae by Kelman, Dovi, Posner, Ellen Kromkowski, McDermid, Karla J, Tabandera, Nicole K, Wright, Patrick R, Wright, Anthony D

“…Marine algae are known to contain a wide variety of bioactive compounds, many of which have commercial applications in pharmaceutical, medical, cosmetic,…”
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Two separate modules of the conserved regulatory RNA AbcR1 address multiple target mRNAs in and outside of the translation initiation region by Overlöper, Aaron, Kraus, Alexander, Gurski, Rosemarie, Wright, Patrick R, Georg, Jens, Hess, Wolfgang R, Narberhaus, Franz

“…The small RNA AbcR1 regulates the expression of ABC transporters in the plant pathogen Agrobacterium tumefaciens, the plant symbiont Sinorhizobium meliloti,…”
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Hydrogen isotopes reveal evidence of migration of Miniopterus schreibersii in Europe by Wright, Patrick G. R, Newton, Jason, Agnelli, Paolo, Budinski, Ivana, Di Salvo, Ivy, Flaquer, Carles, Fulco, Antonio, Georgiakakis, Panagiotis, Martinoli, Adriano, Mas, Maria, Mazija, Mirna, Mucedda, Mauro, Papadatou, Eleni, Petrov, Boyan, Rodrigues, Luisa, Mathews, Fiona, Russo, Danilo

“…Abstract Background The Schreiber’s bat, Miniopterus schreibersii , is adapted to long-distance flight, yet long distance movements have only been recorded…”
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Global RNA recognition patterns of post-transcriptional regulators Hfq and CsrA revealed by UV crosslinking in vivo by Holmqvist, Erik, Wright, Patrick R, Li, Lei, Bischler, Thorsten, Barquist, Lars, Reinhardt, Richard, Backofen, Rolf, Vogel, Jörg

“…The molecular roles of many RNA‐binding proteins in bacterial post‐transcriptional gene regulation are not well understood. Approaches combining in vivo UV…”
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Body composition analysis in patients with acute heart failure: the Scale Heart Failure trial by De Ieso, Fiorangelo, Mutke, Markus Reinhold, Brasier, Noe Karl, Raichle, Christina Janitha, Keller, Bettina, Sucker, Celine, Abdelhamid, Khaled, Bloch, Tiziano, Reissenberger, Pamela, Schönenberg, Ladina, Fischer, Sandro Kevin, Saboz, Jonas, Weber, Nora, Schädelin, Sabine, Bruni, Nicole, Wright, Patrick R., Eckstein, Jens

“…Aims In this study, we aimed to investigate whether body composition analysis (BCA) derived from bioelectrical impedance vector analysis (BIVA) could be used…”
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Application of a novel molecular method to age free‐living wild Bechstein's bats by Wright, Patrick G. R., Mathews, Fiona, Schofield, Henry, Morris, Colin, Burrage, Joe, Smith, Adam, Dempster, Emma L., Hamilton, Patrick B.

“…The age profile of populations fundamentally affects their conservation status. Yet, age is frequently difficult to assess in wild animals. Here, we assessed…”
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Computational analysis of CLIP-seq data by Uhl, Michael, Houwaart, Torsten, Corrado, Gianluca, Wright, Patrick R., Backofen, Rolf

“…•CLIP-seq is the standard procedure for finding transcriptome-wide RBP binding sites.•New CLIP-seq methods offer increased efficiency with shorter preparation…”
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Workflow for a Computational Analysis of an sRNA Candidate in Bacteria by Wright, Patrick R, Georg, Jens

“…Computational methods can often facilitate the functional characterization of individual sRNAs and furthermore allow high-throughput analysis on large numbers…”
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OxyS small RNA induces cell cycle arrest to allow DNA damage repair by Barshishat, Shir, Elgrably‐Weiss, Maya, Edelstein, Jonathan, Georg, Jens, Govindarajan, Sutharsan, Haviv, Meytal, Wright, Patrick R, Hess, Wolfgang R, Altuvia, Shoshy

“…To maintain genome integrity, organisms employ DNA damage response, the underlying principles of which are conserved from bacteria to humans. The bacterial…”
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Can effective population size estimates be used to monitor population trends of woodland bats? A case study of Myotis bechsteinii by Wright, Patrick G. R., Schofield, Henry, Mathews, Fiona

“…Molecular approaches to calculate effective population size estimates (Ne) are increasingly used as an alternative to long‐term demographic monitoring of…”
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Photorhabdus‐nematode symbiosis is dependent on hfq‐mediated regulation of secondary metabolites by Tobias, Nicholas J., Heinrich, Antje K., Eresmann, Helena, Wright, Patrick R., Neubacher, Nick, Backofen, Rolf, Bode, Helge B.

“…Summary Photorhabdus luminescens maintains a symbiotic relationship with the nematodes Heterorhabditis bacteriophora and together they infect and kill insect…”
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Impact of Sodium Levels on Functional Outcomes in Patients With Stroke - A Swiss Stroke Registry Analysis by Potasso, Laura, Refardt, Julie, De Marchis, Gian Marco, Wiencierz, Andrea, Wright, Patrick R, Wagner, Benjamin, Dittrich, Tolga, Polymeris, Alexandros A, Gensicke, Henrik, Bonati, Leo H, Christ-Crain, Mirjam

“…Correction of hyponatremia might represent an additional treatment for improving stroke patients' clinical outcomes. Admission hyponatremia is associated with…”
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Differentiation of ncRNAs from small mRNAs in Escherichia coli O157:H7 EDL933 (EHEC) by combined RNAseq and RIBOseq - ryhB encodes the regulatory RNA RyhB and a peptide, RyhP by Neuhaus, Klaus, Landstorfer, Richard, Simon, Svenja, Schober, Steffen, Wright, Patrick R, Smith, Cameron, Backofen, Rolf, Wecko, Romy, Keim, Daniel A, Scherer, Siegfried

“…While NGS allows rapid global detection of transcripts, it remains difficult to distinguish ncRNAs from short mRNAs. To detect potentially translated RNAs, we…”
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Predicting hedgehog mortality risks on British roads using habitat suitability modelling by Wright, Patrick G R, Coomber, Frazer G, Bellamy, Chloe C, Perkins, Sarah E, Mathews, Fiona

“…Road vehicle collisions are likely to be an important contributory factor in the decline of the European hedgehog ( in Britain. Here, a collaborative roadkill…”
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