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1.

The human SMAD9 (GCC) repeat links to natural selection and late-onset neurocognitive disorders.

Alizadeh, Samira; Khamse, Safoura; Vafadar, Sara; Bernhart, Stephan H; Afshar, Hossein; Vahedi, Mohsen; Rezaei, Omid; Delbari, Ahmad; Ohadi, Mina.

Neurol Sci; 2024 Jun 14.

Artículo en Inglés | MEDLINE | ID: mdl-38877206

2.

Focal structural variants revealed by whole genome sequencing disrupt the histone demethylase KDM4C in B-cell lymphomas.

Lopez, Cristina; Schleussner, Nikolai; Bernhart, Stephan H; Kleinheinz, Kortine; Sungalee, Stephanie; Sczakiel, Henrike L; Kretzmer, Helene; Toprak, Umut H; Glaser, Selina; Wagener, Rabea; Ammerpohl, Ole; Bens, Susanne; Giefing, Maciej; Sanchez, Juan C Gonzalez; Apic, Gordana; Hubschmann, Daniel; Janz, Martin; Kreuz, Markus; Mottok, Anja; Muller, Judith M; Seufert, Julian; Hoffmann, Steve; Korbel, Jan O; Russell, Robert B; Schule, Roland; Trumper, Lorenz; Klapper, Wolfram; Radlwimmer, Bernhard; Lichter, Peter; Kuppers, Ralf; Schlesner, Matthias; Mathas, Stephan; Siebert, Reiner.

Haematologica; 108(2): 543-554, 2023 02 01.

Artículo en Inglés | MEDLINE | ID: mdl-35522148

3.

Transcription factor RFX7 governs a tumor suppressor network in response to p53 and stress.

Coronel, Luis; Riege, Konstantin; Schwab, Katjana; Förste, Silke; Häckes, David; Semerau, Lena; Bernhart, Stephan H; Siebert, Reiner; Hoffmann, Steve; Fischer, Martin.

Nucleic Acids Res; 49(13): 7437-7456, 2021 07 21.

Artículo en Inglés | MEDLINE | ID: mdl-34197623

4.

T-cell prolymphocytic leukemia is associated with deregulation of oncogenic microRNAs on transcriptional and epigenetic level.

Patil, Paurnima; Hillebrecht, Sina; Chteinberg, Emil; López, Cristina; Toprak, Umut H; Seufert, Julian; Bernhart, Stephan H; Kretzmer, Helene; Bergmann, Anke K; Bens, Susanne; Högel, Josef; Müller, Annika; Jebaraj, Billy Michael; Schrader, Alexandra; Johansson, Patricia; Costa, Dolors; Schlesner, Matthias; Dürig, Jan; Herling, Marco; Campo, Elias; Stilgenbauer, Stephan; Wiehle, Laura; Siebert, Reiner.

Genes Chromosomes Cancer; 61(7): 432-436, 2022 07.

Artículo en Inglés | MEDLINE | ID: mdl-35218115

5.

Multiomics reveal unique signatures of human epiploic adipose tissue related to systemic insulin resistance.

Krieg, Laura; Didt, Konrad; Karkossa, Isabel; Bernhart, Stephan H; Kehr, Stephanie; Subramanian, Narmadha; Lindhorst, Andreas; Schaudinn, Alexander; Tabei, Shirin; Keller, Maria; Stumvoll, Michael; Dietrich, Arne; von Bergen, Martin; Stadler, Peter F; Laurencikiene, Jurga; Krüger, Martin; Blüher, Matthias; Gericke, Martin; Schubert, Kristin; Kovacs, Peter; Chakaroun, Rima; Massier, Lucas.

Gut; 71(11): 2179-2193, 2022 11.

Artículo en Inglés | MEDLINE | ID: mdl-34598978

6.

Effects of lifestyle interventions on epigenetic signatures of liver fat: Central randomized controlled trial.

Yaskolka Meir, Anat; Keller, Maria; Müller, Luise; Bernhart, Stephan H; Tsaban, Gal; Zelicha, Hila; Rinott, Ehud; Kaplan, Alon; Gepner, Yftach; Shelef, Ilan; Schwarzfuchs, Dan; Ceglarek, Uta; Stadler, Peter; Blüher, Matthias; Stumvoll, Michael; Kovacs, Peter; Shai, Iris.

Liver Int; 41(9): 2101-2111, 2021 09.

Artículo en Inglés | MEDLINE | ID: mdl-33938135

7.

Improved annotation of protein-coding genes boundaries in metazoan mitochondrial genomes.

Donath, Alexander; Jühling, Frank; Al-Arab, Marwa; Bernhart, Stephan H; Reinhardt, Franziska; Stadler, Peter F; Middendorf, Martin; Bernt, Matthias.

Nucleic Acids Res; 47(20): 10543-10552, 2019 11 18.

Artículo en Inglés | MEDLINE | ID: mdl-31584075

8.

DREAM and RB cooperate to induce gene repression and cell-cycle arrest in response to p53 activation.

Uxa, Sigrid; Bernhart, Stephan H; Mages, Christina F S; Fischer, Martin; Kohler, Robin; Hoffmann, Steve; Stadler, Peter F; Engeland, Kurt; Müller, Gerd A.

Nucleic Acids Res; 47(17): 9087-9103, 2019 09 26.

Artículo en Inglés | MEDLINE | ID: mdl-31400114

9.

Reconstruction of rearranged T-cell receptor loci by whole genome and transcriptome sequencing gives insights into the initial steps of T-cell prolymphocytic leukemia.

Patil, Paurnima; Cieslak, Agata; Bernhart, Stephan H; Toprak, Umut H; Wagener, Rabea; López, Cristina; Wiehle, Laura; Bens, Susanne; Altmüller, Janine; Franitza, Marek; Scholz, Ingrid; Jayne, Sandrine; Ahearne, Matthew J; Scheffold, Annika; Jebaraj, Billy M C; Schneider, Christof; Costa, Dolors; Braun, Till; Schrader, Alexandra; Campo, Elias; Dyer, Martin J S; Nürnberg, Peter; Dürig, Jan; Johansson, Patricia; Böttcher, Sebastian; Schlesner, Matthias; Herling, Marco; Stilgenbauer, Stephan; Macintyre, Elizabeth; Siebert, Reiner.

Genes Chromosomes Cancer; 59(4): 261-267, 2020 04.

Artículo en Inglés | MEDLINE | ID: mdl-31677197

10.

Identification of RNA 3´ ends and termination sites in Haloferax volcanii.

Berkemer, Sarah J; Maier, Lisa-Katharina; Amman, Fabian; Bernhart, Stephan H; Wörtz, Julia; Märkle, Pascal; Pfeiffer, Friedhelm; Stadler, Peter F; Marchfelder, Anita.

RNA Biol; 17(5): 663-676, 2020 05.

Artículo en Inglés | MEDLINE | ID: mdl-32041469

11.

metilene: fast and sensitive calling of differentially methylated regions from bisulfite sequencing data.

Jühling, Frank; Kretzmer, Helene; Bernhart, Stephan H; Otto, Christian; Stadler, Peter F; Hoffmann, Steve.

Genome Res; 26(2): 256-62, 2016 Feb.

Artículo en Inglés | MEDLINE | ID: mdl-26631489

12.

DIEGO: detection of differential alternative splicing using Aitchison's geometry.

Doose, Gero; Bernhart, Stephan H; Wagener, Rabea; Hoffmann, Steve.

Bioinformatics; 34(6): 1066-1068, 2018 03 15.

Artículo en Inglés | MEDLINE | ID: mdl-29088309

13.

Temperature-responsive in vitro RNA structurome of Yersinia pseudotuberculosis.

Righetti, Francesco; Nuss, Aaron M; Twittenhoff, Christian; Beele, Sascha; Urban, Kristina; Will, Sebastian; Bernhart, Stephan H; Stadler, Peter F; Dersch, Petra; Narberhaus, Franz.

Proc Natl Acad Sci U S A; 113(26): 7237-42, 2016 06 28.

Artículo en Inglés | MEDLINE | ID: mdl-27298343

14.

MINCR is a MYC-induced lncRNA able to modulate MYC's transcriptional network in Burkitt lymphoma cells.

Doose, Gero; Haake, Andrea; Bernhart, Stephan H; López, Cristina; Duggimpudi, Sujitha; Wojciech, Franziska; Bergmann, Anke K; Borkhardt, Arndt; Burkhardt, Birgit; Claviez, Alexander; Dimitrova, Lora; Haas, Siegfried; Hoell, Jessica I; Hummel, Michael; Karsch, Dennis; Klapper, Wolfram; Kleo, Karsten; Kretzmer, Helene; Kreuz, Markus; Küppers, Ralf; Lawerenz, Chris; Lenze, Dido; Loeffler, Markus; Mantovani-Löffler, Luisa; Möller, Peter; Ott, German; Richter, Julia; Rohde, Marius; Rosenstiel, Philip; Rosenwald, Andreas; Schilhabel, Markus; Schneider, Markus; Scholz, Ingrid; Stilgenbauer, Stephan; Stunnenberg, Hendrik G; Szczepanowski, Monika; Trümper, Lorenz; Weniger, Marc A; Hoffmann, Steve; Siebert, Reiner; Iaccarino, Ingram.

Proc Natl Acad Sci U S A; 112(38): E5261-70, 2015 Sep 22.

Artículo en Inglés | MEDLINE | ID: mdl-26351698

15.

Alterations of microRNA and microRNA-regulated messenger RNA expression in germinal center B-cell lymphomas determined by integrative sequencing analysis.

Hezaveh, Kebria; Kloetgen, Andreas; Bernhart, Stephan H; Mahapatra, Kunal Das; Lenze, Dido; Richter, Julia; Haake, Andrea; Bergmann, Anke K; Brors, Benedikt; Burkhardt, Birgit; Claviez, Alexander; Drexler, Hans G; Eils, Roland; Haas, Siegfried; Hoffmann, Steve; Karsch, Dennis; Klapper, Wolfram; Kleinheinz, Kortine; Korbel, Jan; Kretzmer, Helene; Kreuz, Markus; Küppers, Ralf; Lawerenz, Chris; Leich, Ellen; Loeffler, Markus; Mantovani-Loeffler, Luisa; López, Cristina; McHardy, Alice C; Möller, Peter; Rohde, Marius; Rosenstiel, Philip; Rosenwald, Andreas; Schilhabel, Markus; Schlesner, Matthias; Scholz, Ingrid; Stadler, Peter F; Stilgenbauer, Stephan; Sungalee, Stéphanie; Szczepanowski, Monika; Trümper, Lorenz; Weniger, Marc A; Siebert, Reiner; Borkhardt, Arndt; Hummel, Michael; Hoell, Jessica I.

Haematologica; 101(11): 1380-1389, 2016 11.

Artículo en Inglés | MEDLINE | ID: mdl-27390358

16.

The PCBP1 gene encoding poly(rC) binding protein I is recurrently mutated in Burkitt lymphoma.

Wagener, Rabea; Aukema, Sietse M; Schlesner, Matthias; Haake, Andrea; Burkhardt, Birgit; Claviez, Alexander; Drexler, Hans G; Hummel, Michael; Kreuz, Markus; Loeffler, Markus; Rosolowski, Maciej; López, Cristina; Möller, Peter; Richter, Julia; Rohde, Marius; Betts, Matthew J; Russell, Robert B; Bernhart, Stephan H; Hoffmann, Steve; Rosenstiel, Philip; Schilhabel, Markus; Szczepanowski, Monika; Trümper, Lorenz; Klapper, Wolfram; Siebert, Reiner.

Genes Chromosomes Cancer; 54(9): 555-64, 2015 Sep.

Artículo en Inglés | MEDLINE | ID: mdl-26173642

17.

Folding RNA/DNA hybrid duplexes.

Lorenz, Ronny; Hofacker, Ivo L; Bernhart, Stephan H.

Bioinformatics; 28(19): 2530-1, 2012 Oct 01.

Artículo en Inglés | MEDLINE | ID: mdl-22829626

18.

Identification of two unannotated miRNAs in classic Hodgkin lymphoma cell lines.

Ustaszewski, Adam; Paczkowska, Julia; Janiszewska, Joanna; Bernhart, Stephan H; Bein, Julia; Russiñol, Núria; Hansmann, Martin-Leo; Chapaprieta, Vicente; Martín-Subero, José I; Siebert, Reiner; Hartmann, Sylvia; Giefing, Maciej.

PLoS One; 18(3): e0283186, 2023.

Artículo en Inglés | MEDLINE | ID: mdl-36961799

19.

Defining the landscape of circular RNAs in neuroblastoma unveils a global suppressive function of MYCN.

Fuchs, Steffen; Danßmann, Clara; Klironomos, Filippos; Winkler, Annika; Fallmann, Jörg; Kruetzfeldt, Louisa-Marie; Szymansky, Annabell; Naderi, Julian; Bernhart, Stephan H; Grunewald, Laura; Helmsauer, Konstantin; Rodriguez-Fos, Elias; Kirchner, Marieluise; Mertins, Philipp; Astrahantseff, Kathy; Suenkel, Christin; Toedling, Joern; Meggetto, Fabienne; Remke, Marc; Stadler, Peter F; Hundsdoerfer, Patrick; Deubzer, Hedwig E; Künkele, Annette; Lang, Peter; Fuchs, Jörg; Henssen, Anton G; Eggert, Angelika; Rajewsky, Nikolaus; Hertwig, Falk; Schulte, Johannes H.

Nat Commun; 14(1): 3936, 2023 07 04.

Artículo en Inglés | MEDLINE | ID: mdl-37402719

20.

Molecular characterization of Richter syndrome identifies de novo diffuse large B-cell lymphomas with poor prognosis.

Broséus, Julien; Hergalant, Sébastien; Vogt, Julia; Tausch, Eugen; Kreuz, Markus; Mottok, Anja; Schneider, Christof; Dartigeas, Caroline; Roos-Weil, Damien; Quinquenel, Anne; Moulin, Charline; Ott, German; Blanchet, Odile; Tomowiak, Cécile; Lazarian, Grégory; Rouyer, Pierre; Chteinberg, Emil; Bernhart, Stephan H; Tournilhac, Olivier; Gauchotte, Guillaume; Lomazzi, Sandra; Chapiro, Elise; Nguyen-Khac, Florence; Chery, Céline; Davi, Frédéric; Hunault, Mathilde; Houlgatte, Rémi; Rosenwald, Andreas; Delmer, Alain; Meyre, David; Béné, Marie-Christine; Thieblemont, Catherine; Lichter, Peter; Ammerpohl, Ole; Guéant, Jean-Louis; Guièze, Romain; Martin-Subero, José Ignacio; Cymbalista, Florence; Feugier, Pierre; Siebert, Reiner; Stilgenbauer, Stephan.

Nat Commun; 14(1): 309, 2023 01 19.

Artículo en Inglés | MEDLINE | ID: mdl-36658118

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