High-resolution TADs reveal DNA sequences underlying genome organization in flies
Ramírez, Fidel, Bhardwaj, Vivek, Arrigoni, Laura, Lam, Kin Chung, Grüning, Björn A, Villaveces, José, Habermann, Bianca, Akhtar, Asifa, Manke, Thomas
Published in Nature communications (15.01.2018)
Published in Nature communications (15.01.2018)
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Journal Article
Galaxy HiCExplorer: a web server for reproducible Hi-C data analysis, quality control and visualization
Wolff, Joachim, Bhardwaj, Vivek, Nothjunge, Stephan, Richard, Gautier, Renschler, Gina, Gilsbach, Ralf, Manke, Thomas, Backofen, Rolf, Ramírez, Fidel, Grüning, Björn A
Published in Nucleic acids research (02.07.2018)
Published in Nucleic acids research (02.07.2018)
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Journal Article
BioContainers: an open-source and community-driven framework for software standardization
da Veiga Leprevost, Felipe, Grüning, Björn A, Alves Aflitos, Saulo, Röst, Hannes L, Uszkoreit, Julian, Barsnes, Harald, Vaudel, Marc, Moreno, Pablo, Gatto, Laurent, Weber, Jonas, Bai, Mingze, Jimenez, Rafael C, Sachsenberg, Timo, Pfeuffer, Julianus, Vera Alvarez, Roberto, Griss, Johannes, Nesvizhskii, Alexey I, Perez-Riverol, Yasset
Published in Bioinformatics (Oxford, England) (15.08.2017)
Published in Bioinformatics (Oxford, England) (15.08.2017)
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Journal Article
Distinct epigenetic programs regulate cardiac myocyte development and disease in the human heart in vivo
Gilsbach, Ralf, Schwaderer, Martin, Preissl, Sebastian, Grüning, Björn A, Kranzhöfer, David, Schneider, Pedro, Nührenberg, Thomas G, Mulero-Navarro, Sonia, Weichenhan, Dieter, Braun, Christian, Dreßen, Martina, Jacobs, Adam R, Lahm, Harald, Doenst, Torsten, Backofen, Rolf, Krane, Markus, Gelb, Bruce D, Hein, Lutz
Published in Nature communications (26.01.2018)
Published in Nature communications (26.01.2018)
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Journal Article
Dynamic DNA methylation orchestrates cardiomyocyte development, maturation and disease
Gilsbach, Ralf, Preissl, Sebastian, Grüning, Björn A, Schnick, Tilman, Burger, Lukas, Benes, Vladimir, Würch, Andreas, Bönisch, Ulrike, Günther, Stefan, Backofen, Rolf, Fleischmann, Bernd K, Schübeler, Dirk, Hein, Lutz
Published in Nature communications (22.10.2014)
Published in Nature communications (22.10.2014)
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Journal Article
deepTools: a flexible platform for exploring deep-sequencing data
Ramírez, Fidel, Dündar, Friederike, Diehl, Sarah, Grüning, Björn A., Manke, Thomas
Published in Nucleic acids research (01.07.2014)
Published in Nucleic acids research (01.07.2014)
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Journal Article
DNA methylation signatures follow preformed chromatin compartments in cardiac myocytes
Nothjunge, Stephan, Nührenberg, Thomas G, Grüning, Björn A, Doppler, Stefanie A, Preissl, Sebastian, Schwaderer, Martin, Rommel, Carolin, Krane, Markus, Hein, Lutz, Gilsbach, Ralf
Published in Nature communications (21.11.2017)
Published in Nature communications (21.11.2017)
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Journal Article
Impact of high platelet turnover on the platelet transcriptome: Results from platelet RNA-sequencing in patients with sepsis
Nührenberg, Thomas G, Stöckle, Jasmin, Marini, Federico, Zurek, Mark, Grüning, Björn A, Benes, Vladimir, Hein, Lutz, Neumann, Franz-Josef, Stratz, Christian, Cederqvist, Marco, Hochholzer, Willibald
Published in PloS one (27.01.2022)
Published in PloS one (27.01.2022)
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Journal Article
Deciphering the Epigenetic Code of Cardiac Myocyte Transcription
Preissl, Sebastian, Schwaderer, Martin, Raulf, Alexandra, Hesse, Michael, Grüning, Björn A, Köbele, Claudia, Backofen, Rolf, Fleischmann, Bernd K, Hein, Lutz, Gilsbach, Ralf
Published in Circulation research (14.08.2015)
Published in Circulation research (14.08.2015)
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Journal Article
DOT1L Activity Promotes Proliferation and Protects Cortical Neural Stem Cells from Activation of ATF4‐DDIT3‐Mediated ER Stress In Vitro
Roidl, Deborah, Hellbach, Nicole, Bovio, Patrick P., Villarreal, Alejandro, Heidrich, Stefanie, Nestel, Sigrun, Grüning, Björn A., Boenisch, Ulrike, Vogel, Tanja
Published in Stem cells (Dayton, Ohio) (01.01.2016)
Published in Stem cells (Dayton, Ohio) (01.01.2016)
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Journal Article
Regio- and Stereoselective Intermolecular Oxidative Phenol Coupling in Streptomyces
Präg, Andreas, Grüning, Björn A, Häckh, Matthias, Lüdeke, Steffen, Wilde, Marcel, Luzhetskyy, Andriy, Richter, Michael, Luzhetska, Marta, Günther, Stefan, Müller, Michael
Published in Journal of the American Chemical Society (30.04.2014)
Published in Journal of the American Chemical Society (30.04.2014)
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Journal Article
The Purchasable Chemical Space: A Detailed Picture
Lucas, Xavier, Grüning, Björn A, Bleher, Stefan, Günther, Stefan
Published in Journal of chemical information and modeling (26.05.2015)
Published in Journal of chemical information and modeling (26.05.2015)
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Journal Article
Jupyter and Galaxy: Easing entry barriers into complex data analyses for biomedical researchers
Grüning, Björn A, Rasche, Eric, Rebolledo-Jaramillo, Boris, Eberhard, Carl, Houwaart, Torsten, Chilton, John, Coraor, Nate, Backofen, Rolf, Taylor, James, Nekrutenko, Anton
Published in PLoS computational biology (01.05.2017)
Published in PLoS computational biology (01.05.2017)
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Journal Article
The omics discovery REST interface
Dass, Gaurhari, Vu, Manh-Tu, Xu, Pan, Audain, Enrique, Hitz, Marc-Phillip, Grüning, Björn A, Hermjakob, Henning, Perez-Riverol, Yasset
Published in Nucleic acids research (02.07.2020)
Published in Nucleic acids research (02.07.2020)
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Journal Article
The ChemicalToolbox: reproducible, user-friendly cheminformatics analysis on the Galaxy platform
Bray, Simon A., Lucas, Xavier, Kumar, Anup, Grüning, Björn A.
Published in Journal of cheminformatics (01.06.2020)
Published in Journal of cheminformatics (01.06.2020)
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Journal Article
Fostering accessible online education using Galaxy as an e-learning platform
Serrano-Solano, Beatriz, Föll, Melanie C, Gallardo-Alba, Cristóbal, Erxleben, Anika, Rasche, Helena, Hiltemann, Saskia, Fahrner, Matthias, Dunning, Mark J, Schulz, Marcel H, Scholtz, Beáta, Clements, Dave, Nekrutenko, Anton, Batut, Bérénice, Grüning, Björn A
Published in PLoS computational biology (13.05.2021)
Published in PLoS computational biology (13.05.2021)
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Journal Article
Intuitive, reproducible high-throughput molecular dynamics in Galaxy: a tutorial
Bray, Simon A., Senapathi, Tharindu, Barnett, Christopher B., Grüning, Björn A.
Published in Journal of cheminformatics (10.09.2020)
Published in Journal of cheminformatics (10.09.2020)
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Journal Article
Catching the Wave: Detecting Strain-Specific SARS-CoV-2 Peptides in Clinical Samples Collected during Infection Waves from Diverse Geographical Locations
Mehta, Subina, Carvalho, Valdemir M, Rajczewski, Andrew T, Pible, Olivier, Grüning, Björn A, Johnson, James E, Wagner, Reid, Armengaud, Jean, Griffin, Timothy J, Jagtap, Pratik D
Published in Viruses (01.10.2022)
Published in Viruses (01.10.2022)
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