Transcription start site choice diversifies mRNA isoforms and defines cancer cell behavior

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Identification of downstream effectors of retinoic acid specifying the zebrafish pancreas by integrative genomics von López-Pérez, Ana R., Balwierz, Piotr J., Lenhard, Boris, Muller, Ferenc, Wardle, Fiona C., Manfroid, Isabelle, Voz, Marianne L., Peers, Bernard

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Mutations in VIPAR cause an arthrogryposis, renal dysfunction and cholestasis syndrome phenotype with defects in epithelial polarization von Cullinane, Andrew R, Straatman-Iwanowska, Anna, Zaucker, Andreas, Wakabayashi, Yoshiyuki, Bruce, Christopher K, Luo, Guanmei, Rahman, Fatimah, Gürakan, Figen, Utine, Eda, Özkan, Tanju B, Denecke, Jonas, Vukovic, Jurica, Di Rocco, Maja, Mandel, Hanna, Cangul, Hakan, Matthews, Randolph P, Thomas, Steve G, Rappoport, Joshua Z, Arias, Irwin M, Wolburg, Hartwig, Knisely, A S, Kelly, Deirdre A, Müller, Ferenc, Maher, Eamonn R, Gissen, Paul

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Pancreatic islet enhancer clusters enriched in type 2 diabetes risk-associated variants von Pasquali, Lorenzo, Gaulton, Kyle J, Rodríguez-Seguí, Santiago A, Mularoni, Loris, Miguel-Escalada, Irene, Akerman, İldem, Tena, Juan J, Morán, Ignasi, Gómez-Marín, Carlos, van de Bunt, Martijn, Ponsa-Cobas, Joan, Castro, Natalia, Nammo, Takao, Cebola, Inês, García-Hurtado, Javier, Maestro, Miguel Angel, Pattou, François, Piemonti, Lorenzo, Berney, Thierry, Gloyn, Anna L, Ravassard, Philippe, Skarmeta, José Luis Gómez, Müller, Ferenc, McCarthy, Mark I, Ferrer, Jorge

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Artificial sperm insemination in externally fertilised fish as a novel tool for ex situ and in situ conservation of valuable populations von Gazsi, G, Ivánovics, B, Izabella, RB, Szabó, T, Daniel, Z, Kucska, B, Urbányi, B, Horváth, L, Müller, F, Müller, T

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Dual-initiation promoters with intertwined canonical and TCT/TOP transcription start sites diversify transcript processing von Nepal, Chirag, Hadzhiev, Yavor, Balwierz, Piotr, Tarifeño-Saldivia, Estefanía, Cardenas, Ryan, Wragg, Joseph W., Suzuki, Ana-Maria, Carninci, Piero, Peers, Bernard, Lenhard, Boris, Andersen, Jesper B., Müller, Ferenc

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Two independent transcription initiation codes overlap on vertebrate core promoters von Haberle, Vanja, Li, Nan, Hadzhiev, Yavor, Plessy, Charles, Previti, Christopher, Nepal, Chirag, Gehrig, Jochen, Dong, Xianjun, Akalin, Altuna, Suzuki, Ana Maria, van IJcken, Wilfred F. J., Armant, Olivier, Ferg, Marco, Strähle, Uwe, Carninci, Piero, Müller, Ferenc, Lenhard, Boris

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A native, highly active Tc1/mariner transposon from zebrafish (ZB) offers an efficient genetic manipulation tool for vertebrates von Shen, Dan, Song, Chengyi, Miskey, Csaba, Chan, Shuheng, Guan, Zhongxia, Sang, Yatong, Wang, Yali, Chen, Cai, Wang, Xiaoyan, Müller, Ferenc, Ivics, Zoltán, Gao, Bo

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CMTr mediated 2′- O -ribose methylation status of cap-adjacent nucleotides across animals von Dix, Thomas C., Haussmann, Irmgard U., Brivio, Sarah, Nallasivan, Mohannakarthik P., HadzHiev, Yavor, Müller, Ferenc, Müller, Berndt, Pettitt, Jonathan, Soller, Matthias

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Germline mutations in DIS3L2 cause the Perlman syndrome of overgrowth and Wilms tumor susceptibility von Astuti, Dewi, Morris, Mark R, Cooper, Wendy N, Staals, Raymond H J, Wake, Naomi C, Fews, Graham A, Gill, Harmeet, Gentle, Dean, Shuib, Salwati, Ricketts, Christopher J, Cole, Trevor, van Essen, Anthonie J, van Lingen, Richard A, Neri, Giovanni, Opitz, John M, Rump, Patrick, Stolte-Dijkstra, Irene, Müller, Ferenc, Pruijn, Ger J M, Latif, Farida, Maher, Eamonn R

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TBPL2/TFIIA complex establishes the maternal transcriptome through oocyte-specific promoter usage von Yu, Changwei, Cvetesic, Nevena, Hisler, Vincent, Gupta, Kapil, Ye, Tao, Gazdag, Emese, Negroni, Luc, Hajkova, Petra, Berger, Imre, Lenhard, Boris, Müller, Ferenc, Vincent, Stéphane D., Tora, László

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RNA polymerase II transcription initiation in holo-TFIID-depleted mouse embryonic stem cells von Hisler, Vincent, Bardot, Paul, Detilleux, Dylane, Bernardini, Andrea, Stierle, Matthieu, Sanchez, Emmanuel Garcia, Richard, Claire, Arab, Lynda Hadj, Ehrhard, Cynthia, Morlet, Bastien, Hadzhiev, Yavor, Jung, Matthieu, Le Gras, Stéphanie, Négroni, Luc, Müller, Ferenc, Tora, László, Vincent, Stéphane D.

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Transcriptional, post-transcriptional and chromatin-associated regulation of pri-miRNAs, pre-miRNAs and moRNAs von Nepal, Chirag, Coolen, Marion, Hadzhiev, Yavor, Cussigh, Delphine, Mydel, Piotr, Steen, Vidar M, Carninci, Piero, Andersen, Jesper B, Bally-Cuif, Laure, Müller, Ferenc, Lenhard, Boris

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Zebrafish regulatory genomic resources for disease modelling and regeneration von Jimenez Gonzalez, Ada, Baranasic, Damir, Müller, Ferenc

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Chromatin and DNA sequences in defining promoters for transcription initiation von Müller, Ferenc, Tora, Làszlò

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Ferredoxin 1b (Fdx1b) Is the Essential Mitochondrial Redox Partner for Cortisol Biosynthesis in Zebrafish von Griffin, Aliesha, Parajes, Silvia, Weger, Meltem, Zaucker, Andreas, Taylor, Angela E, O'Neil, Donna M, Müller, Ferenc, Krone, Nils

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A cell cycle-coordinated Polymerase II transcription compartment encompasses gene expression before global genome activation von Hadzhiev, Yavor, Qureshi, Haseeb K., Wheatley, Lucy, Cooper, Ledean, Jasiulewicz, Aleksandra, Van Nguyen, Huy, Wragg, Joseph W., Poovathumkadavil, Divyasree, Conic, Sascha, Bajan, Sarah, Sik, Attila, Hutvàgner, György, Tora, Làszlò, Gambus, Agnieszka, Fossey, John S., Müller, Ferenc

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Transcriptional profiling reveals barcode-like toxicogenomic responses in the zebrafish embryo von Yang, Lixin, Kemadjou, Jules R, Zinsmeister, Christian, Bauer, Matthias, Legradi, Jessica, Müller, Ferenc, Pankratz, Michael, Jäkel, Jens, Strähle, Uwe

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Dynamic regulation of the transcription initiation landscape at single nucleotide resolution during vertebrate embryogenesis von Nepal, Chirag, Hadzhiev, Yavor, Previti, Christopher, Haberle, Vanja, Li, Nan, Takahashi, Hazuki, Suzuki, Ana Maria M, Sheng, Ying, Abdelhamid, Rehab F, Anand, Santosh, Gehrig, Jochen, Akalin, Altuna, Kockx, Christel E M, van der Sloot, Antoine A J, van Ijcken, Wilfred F J, Armant, Olivier, Rastegar, Sepand, Watson, Craig, Strähle, Uwe, Stupka, Elia, Carninci, Piero, Lenhard, Boris, Müller, Ferenc

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SLIC-CAGE: high-resolution transcription start site mapping using nanogram-levels of total RNA von Cvetesic, Nevena, Leitch, Harry G, Borkowska, Malgorzata, Müller, Ferenc, Carninci, Piero, Hajkova, Petra, Lenhard, Boris

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