| 2026 | Cardoso da Silva, Richard and ten Bulte, Douwe and Baubec, Tuncay: ChromID: A Protocol for Mapping Protein Chromatin Interactions in Living Cells. In: Bio-protocol, 16, 2026, e5807 |
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| 2026 | Ambrosi, Christina and Pfaendler, Ramon and Eleftheriou, Kristeli and Butz, Stefan and Recchia, Davide C. and Bao, Xue and Cardoso da Silva, Richard and Kupfer, Niklas and Lagerwaard, Ilse M. and Vlaming, Hanneke and Schmolka, Nina and Bhardwaj, Vivek and Baubec, Tuncay: The H3K36me3 methyltransferase SETD2 contributes to PAF1C interactions with RNA Pol II and is required for neuronal differentiation. In: The EMBO Journal, 45, 2026, 3430--3443 |
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| 2026 | Cardoso da Silva, Richard and Castilho, Beatriz A.: The protein kinase GCN2 senses the integrity of the multi-tRNA synthetase complex. In: Biochemical and Biophysical Research Communications, 831, 2026, 154273 |
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| 2025 | Recchia, Davide C. and Cardoso da Silva, Richard and Kupfer, Niklas and Topic, Angela and Giuliani, Sara and Villaseñor, Rodrigo and Baubec, Tuncay: A modular toolbox for in cellulo screening of small molecule inhibitors targeting chromatin reader domains. In: bioRxiv, 2025, |
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| 2025 | Cardoso da Silva, Richard and Eleftheriou, Kristeli and Recchia, Davide C. and Portegijs, Vincent and ten Bulte, Douwe and Kupfer, Niklas and Vroegindeweij-de Wagenaar, Nathalie P. and Vergara, Xabier and Ouchene, Ayoub and van den Heuvel, Sander and Baubec, Tuncay: Engineered chromatin readers track damaged chromatin dynamics in live cells and animals. In: Nature Communications, 16, 2025, 10127 |
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| 2025 | Vergara, Xabier and Manjón, Anna G. and Novais-Cruz, Marco and de Haas, Marcel and Ouchene, Ayoub and van Schaik, Tom and Manzo, Stefano G. and Cardoso da Silva, Richard and Baubec, Tuncay and van Steensel, Bas and Medema, René H.: Megabase-scale detachment of genome-nuclear lamina interactions is required for efficient repair of double stranded breaks. In: bioRxiv, 2025, |
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| 2024 | Gibbs, V. J. and Lin, Y. H. and Ghuge, A. A. and Anderson, R. A. and Schiemann, A. H. and Conaglen, L. and Sansom, B. J. M. and Cardoso da Silva, Richard and Sattlegger, Evelyn: GCN2 in viral defence and the subversive tactics employed by viruses. In: Journal of Molecular Biology, 2024, 168594 |
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| 2024 | Cardoso da Silva, Richard and Recchia, Davide C. and Trueba-Sanchez, Cristina M. and Stecker, Kelly E. and Baubec, Tuncay: Probing DNA damage sites reveals context-dependent and novel DNA damage response factors. In: bioRxiv, 2024, |
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| 2023 | Schmolka, Nina and Karemaker, Inês D. and Cardoso da Silva, Richard and Recchia, Davide C. and Spegg, Verena and Bhaskaran, Janani and Teske, Maria and de Wagenaar, Nathalie P. and Altmeyer, Matthias and Baubec, Tuncay: Dissecting the roles of MBD2 isoforms and domains in regulating NuRD complex function during cellular differentiation. In: Nature Communications, 14, 2023, 384 |
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| 2021 | Rondelet, Arnaud and Pozniakovsky, Andrei and Leuschner, Michael and Namboodiri, Dhanya and Cardoso da Silva, Richard and Singh, Dhirendra and Leuschner, Martina and Poser, Ina and Ssykor, Anna and Berlitz, Jennifer and Schmidt, N. and Rohder, L. and Hyman, Anthony A. and Vader, Gerben and Bird, Alexander W.: ESI mutagenesis: A one-step method for introducing point mutations into bacterial artificial chromosome transgenes. In: Life Science Alliance, 4, 2021, e202000836 |
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| 2021 | Cardoso da Silva, Richard and Vader, Gerben: Getting there: understanding the chromosomal recruitment of the AAA+ ATPase Pch2/TRIP13 during meiosis. In: Current Genetics, 67, 2021, 553--565 |
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| 2021 | Mueller, Felix and Friese, Andreas and Pathe, Christina and Cardoso da Silva, Richard and Rodriguez, K. B. and Musacchio, Andrea and Bange, Tanja: Overlap of NatA and IAP substrates implicates N-terminal acetylation in protein stabilization. In: Science Advances, 7, 2021, eabc8590 |
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| 2020 | Cardoso da Silva, Richard and Villar-Fernández, Maria A. and Vader, Gerben: Active transcription and Orc1 drive chromatin association of the AAA+ ATPase Pch2 during meiotic G2/prophase. In: PLoS Genetics, 16, 2020, e1008905 |
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| 2020 | Villar-Fernández, María Ascensión and Cardoso da Silva, Richard and Firlej, Magdalena and Pan, Dongqing and Weir, Elisabeth and Sarembe, Annika and Raina, Vivek B. and Bange, Tanja and Weir, John R. and Vader, Gerben: Biochemical and functional characterization of a meiosis-specific Pch2/ORC AAA+ assembly. In: Life Science Alliance, 3, 2020, e201900630 |
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| 2020 | Akram, Z. and Ahmed, I. and Mack, H. and Kaur, R. and Cardoso da Silva, Richard and Castilho, Beatriz A. and Friant, Sylvie and Sattlegger, Evelyn and Munn, Alan: Yeast as a model to understand actin-mediated cellular functions in mammals: illustrated with four actin cytoskeleton proteins. In: Cells, 9, 2020, 672 |
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| 2018 | Cardoso da Silva, Richard and Castilho, Beatriz A. and Sattlegger, Evelyn: A rapid extraction method for mammalian cell cultures, suitable for quantitative immunoblotting analysis of proteins, including phosphorylated GCN2 and eIF2alpha. In: MethodsX, 5, 2018, 75--82 |
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| 2017 | Lee, S. J. and Ramesh, R. and de Boor, V. and Gebler, J. M. and Cardoso da Silva, Richard and Sattlegger, Evelyn: Cost-effective and rapid lysis of Saccharomyces cerevisiae cells for quantitative western blot analysis of proteins, including phosphorylated eIF2alpha. In: Yeast, 34, 2017, 371--382 |
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| 2017 | Di Genova, Bruno M. and Cardoso da Silva, Richard and da Cunha, Júlia P. C. and Gargantini, Paula R. and Mortara, Renato A. and Tonelli, Renata R.: Protein SUMOylation is involved in cell-cycle progression and cell morphology in Giardia lamblia. In: Journal of Eukaryotic Microbiology, 64, 2017, 491--503 |
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| 2016 | Roffé, Marlon and Câmara, Henrique and De-Souza, Eduardo A. and Pinto, Simone and Pinca, Ana P. and Cardoso da Silva, Richard and Sato, Vanessa N. and Castilho, Beatriz A. and Mori, Marcelo A.: IMPACT is a GCN2 inhibitor that limits lifespan in Caenorhabditis elegans. In: BMC Biology, 14, 2016, 87 |
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| 2016 | Cardoso da Silva, Richard and Sattlegger, Evelyn and Castilho, Beatriz A.: Perturbations in actin dynamics reconfigure protein complexes that modulate GCN2 activity and promote an eIF2alpha response. In: Journal of Cell Science, 129, 2016, 4521--4533 |
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| 2015 | Cardoso da Silva, Richard and Dautel, Martina and Di Genova, Bruno M. and Amberg, David C. and Castilho, Beatriz A. and Sattlegger, Evelyn: The Gcn2 regulator Yih1 interacts with the cyclin-dependent kinase Cdc28 and promotes cell cycle progression through G2/M in budding yeast. In: PLoS ONE, 10, 2015, e0131070 |
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| 2014 | Cardoso da Silva, Richard and Padovan, Ana Carolina B. and Pimenta, Daniel C. and Ferreira, Renata C. and da Silva, Claudio V. and Briones, Marcelo R. S.: Extracellular enolase of Candida albicans is involved in the colonization of mammalian intestinal epithelium. In: Frontiers in Cellular and Infection Microbiology, 4, 2014, 66 |
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| 2014 | Castilho, Beatriz A. and Shanmugam, Ravindran and Cardoso da Silva, Richard and Ramesh, R. and Himme, B. M. and Sattlegger, Evelyn: Keeping the eIF2 alpha kinase Gcn2 in check. In: Biochimica et Biophysica Acta (BBA) - Molecular Cell Research, 1843, 2014, 1948--1968 |
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| 2013 | Silva, D. C. F. and Cardoso da Silva, Richard and Ferreira, R. C. and Briones, Marcelo R. S.: Examining marginal sequence similarities between bacterial type III secretion system components and Trypanosoma cruzi surface proteins. In: Frontiers in Genetics, 4, 2013, 143 |
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| 2013 | Wiedemann, M. and Lee, S. J. and Cardoso da Silva, Richard and Visweswaraiah, Jyothi and Soppert, J. and Sattlegger, Evelyn: Simultaneous semi-dry electrophoretic transfer of a wide range of differently sized proteins for immunoblotting. In: Protocol Exchange, 2013, |
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| 2012 | Cortez, Christiane and Martins, Renata M. and Alves, Renata M. and Cardoso da Silva, Richard and Bilches, L. C. and Macedo, S. and Atayde, Vanessa D. and Kawashita, Sandra Y. and Briones, Marcelo R. S. and Yoshida, Nobuko: Differential infectivity by the oral route of Trypanosoma cruzi lineages derived from Y strain. In: PLoS Neglected Tropical Diseases, 6, 2012, e1804 |
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