MOF-associated complexes ensure stem cell identity and Xist repression von Chelmicki, Tomasz, Dündar, Friederike, Turley, Matthew James, Khanam, Tasneem, Aktas, Tugce, Ramírez, Fidel, Gendrel, Anne-Valerie, Wright, Patrick Rudolf, Videm, Pavankumar, Backofen, Rolf, Heard, Edith, Manke, Thomas, Akhtar, Asifa

Volltext

BlockClust: efficient clustering and classification of non-coding RNAs from short read RNA-seq profiles von Videm, Pavankumar, Rose, Dominic, Costa, Fabrizio, Backofen, Rolf

Volltext

The RNA workbench 2.0: next generation RNA data analysis von Fallmann, Jörg, Videm, Pavankumar, Bagnacani, Andrea, Batut, Bérénice, Doyle, Maria A, Klingstrom, Tomas, Eggenhofer, Florian, Stadler, Peter F, Backofen, Rolf, Grüning, Björn

Volltext

FOXG1 Regulates PRKAR2B Transcriptionally and Posttranscriptionally via miR200 in the Adult Hippocampus von Weise, Stefan C., Arumugam, Ganeshkumar, Villarreal, Alejandro, Videm, Pavankumar, Heidrich, Stefanie, Nebel, Nils, Dumit, Verónica I., Sananbenesi, Farahnaz, Reimann, Viktoria, Craske, Madeline, Schilling, Oliver, Hess, Wolfgang R., Fischer, Andre, Backofen, Rolf, Vogel, Tanja

Volltext

DOT1L promotes progenitor proliferation and primes neuronal layer identity in the developing cerebral cortex von Franz, Henriette, Villarreal, Alejandro, Heidrich, Stefanie, Videm, Pavankumar, Kilpert, Fabian, Mestres, Ivan, Calegari, Federico, Backofen, Rolf, Manke, Thomas, Vogel, Tanja

Volltext

CheRRI—Accurate classification of the biological relevance of putative RNA–RNA interaction sites von Müller, Teresa, Mautner, Stefan, Videm, Pavankumar, Eggenhofer, Florian, Raden, Martin, Backofen, Rolf

Volltext

ChiRA: an integrated framework for chimeric read analysis from RNA-RNA interactome and RNA structurome data von Videm, Pavankumar, Kumar, Anup, Zharkov, Oleg, Grüning, Björn Andreas, Backofen, Rolf

Volltext

The RNA workbench: best practices for RNA and high-throughput sequencing bioinformatics in Galaxy von Grüning, Björn A, Fallmann, Jörg, Yusuf, Dilmurat, Will, Sebastian, Erxleben, Anika, Eggenhofer, Florian, Houwaart, Torsten, Batut, Bérénice, Videm, Pavankumar, Bagnacani, Andrea, Wolfien, Markus, Lott, Steffen C, Hoogstrate, Youri, Hess, Wolfgang R, Wolkenhauer, Olaf, Hoffmann, Steve, Akalin, Altuna, Ohler, Uwe, Stadler, Peter F, Backofen, Rolf

Volltext

The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2022 update von Afgan, Enis, Nekrutenko, Anton, Grüning, Bjórn, Blankenberg, Daniel, Goecks, Jeremy, Schatz, Michael, Ostrovsky, Alexander, Mahmoud, Alexandru, Lonie, Andrew, Syme, Anna, Fouilloux, Anne, Bretaudeau, Anthony, Kumar, Anup, Eschenlauer, Arthur, Desanto, Assunta, Guerler, Aysam, Serrano-Solano, Beatriz, Batut, Bérénice, Grüning, Björn, Langhorst, Bradley, Carr, Bridget, Raubenolt, Bryan, Hyde, Cameron, Bromhead, Catherine, Barnett, Christopher, Royaux, Coline, Gallardo, Cristóbal, Fornika, Daniel, Baker, Dannon, Bouvier, Dave, Clements, Dave, de Lima Morais, David, Tabernero, David Lopez, Lariviere, Delphine, Nasr, Engy, Zambelli, Federico, Heyl, Florian, Psomopoulos, Fotis, Coppens, Frederik, Price, Gareth, Cuccuru, Gianmauro, Corguillé, Gildas Le, von Kuster, Greg, Akbulut, Gulsum Gudukbay, Rasche, Helena, Hotz, Hans-Rudolf, Eguinoa, Ignacio, Makunin, Igor, Ranawaka, Isuru, Taylor, James, Joshi, Jayadev, Hillman-Jackson, Jennifer, Chilton, John, Kamali, Kaivan, Suderman, Keith, Poterlowicz, Krzysztof, Le Bras, Yvan, Lopez-Delisle, Lucille, Sargent, Luke, Bassetti, Madeline, Tangaro, Marco Antonio, van den Beek, Marius, Čech, Martin, Bernt, Matthias, Fahrner, Matthias, Tekman, Mehmet, Föll, Melanie, Pétéra, Mélanie, Crusoe, Michael, Roncoroni, Miguel, Kucher, Natalie, Coraor, Nate, Stoler, Nicholas, Rhodes, Nick, Soranzo, Nicola, Pinter, Niko, Goonasekera, Nuwan, Moreno, Pablo, Videm, Pavankumar, Mandreoli, Pietro, Jagtap, Pratik, Gu, Qiang, Weber, Ralf, Lazarus, Ross, Vorderman, Ruben, Hiltemann, Saskia, Golitsynskiy, Sergey, Garg, Shilpa, Bray, Simon, Gladman, Simon, Leo, Simone, Mehta, Subina, Griffin, Timothy, Jalili, Vahid, Yves, Vandenbrouck, Wen, Victor, Nagampalli, Vijay, Bacon, Wendi, de Koning, Willem, Maier, Wolfgang

Volltext

Test data for Galaxy IWC RNA-seq workflows von Videm, Pavankumar

Volltext bestellen

Test data for Galaxy IUC `muon` tool von Videm, Pavankumar

Volltext bestellen

Test data for Galaxy IUC SnapATAC2 tool von Videm, Pavankumar

Volltext bestellen

Automated peptide mapping and protein-topographical annotation of proteomics data von Videm, Pavankumar, Gunasekaran, Deepika, Schröder, Bernd, Mayer, Bettina, Biniossek, Martin L, Schilling, Oliver

Volltext

Community-driven ELIXIR activities in single-cell omics [version 1; peer review: 2 approved with reservations] von Czarnewski, Paulo, Mahfouz, Ahmed, Calogero, Raffaele A., Palagi, Patricia M., Portell-Silva, Laura, Gonzalez-Uriarte, Asier, Soneson, Charlotte, Burdett, Tony, Szomolay, Barbara, Videm, Pavankumar, Hotz, Hans-Rudolf, Papatheodorou, Irene, Hancock, John M., Grüning, Björn, Haerty, Wilfried, Krause, Roland, Capella-Gutierrez, Salvador, Leskošek, Brane, Alessandri, Luca, Arigoni, Maddalena, Rezen, Tadeja, Botzki, Alexander, Ferk, Polonca, Lindvall, Jessica, Heil, Katharina F., Ishaque, Naveed, Korpelainen, Eija

Volltext

Training material for the mapping and quantification of single-cell ATAC-seq 10X Datasets von Videm, Pavankumar

Volltext bestellen

Training material for the mapping and quantification of single-cell ATAC-seq 10X Datasets von Videm, Pavankumar

Volltext bestellen

Community-Driven Data Analysis Training for Biology von Batut, Bérénice, Hiltemann, Saskia, Bagnacani, Andrea, Baker, Dannon, Bhardwaj, Vivek, Blank, Clemens, Bretaudeau, Anthony, Brillet-Guéguen, Loraine, Čech, Martin, Chilton, John, Clements, Dave, Doppelt-Azeroual, Olivia, Erxleben, Anika, Freeberg, Mallory Ann, Gladman, Simon, Hoogstrate, Youri, Hotz, Hans-Rudolf, Houwaart, Torsten, Jagtap, Pratik, Larivière, Delphine, Le Corguillé, Gildas, Manke, Thomas, Mareuil, Fabien, Ramírez, Fidel, Ryan, Devon, Sigloch, Florian Christoph, Soranzo, Nicola, Wolff, Joachim, Videm, Pavankumar, Wolfien, Markus, Wubuli, Aisanjiang, Yusuf, Dilmurat, Taylor, James, Backofen, Rolf, Nekrutenko, Anton, Grüning, Björn

Volltext

Benchmark data used in the evaluation of ChiRA tool-suite von Videm, Pavankumar

Volltext bestellen

Data for tutorial of RNA interactome data analysis von Pavankumar Videm

Volltext bestellen

Test data for Galaxy IWC RNA-seq workflows von Videm, Pavankumar, Lopez-Delisle, Lucille

Volltext bestellen