RNA Interactions Are Essential for CTCF-Mediated Genome Organization
Saldaña-Meyer, Ricardo, Rodriguez-Hernaez, Javier, Escobar, Thelma, Nishana, Mayilaadumveettil, Jácome-López, Karina, Nora, Elphege P., Bruneau, Benoit G., Tsirigos, Aristotelis, Furlan-Magaril, Mayra, Skok, Jane, Reinberg, Danny
Published in Molecular cell (07.11.2019)
Published in Molecular cell (07.11.2019)
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Journal Article
NSD2 overexpression drives clustered chromatin and transcriptional changes in a subset of insulated domains
Lhoumaud, Priscillia, Badri, Sana, Rodriguez-Hernaez, Javier, Sakellaropoulos, Theodore, Sethia, Gunjan, Kloetgen, Andreas, Cornwell, MacIntosh, Bhattacharyya, Sourya, Ay, Ferhat, Bonneau, Richard, Tsirigos, Aristotelis, Skok, Jane A.
Published in Nature communications (24.10.2019)
Published in Nature communications (24.10.2019)
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Journal Article
Stepwise activities of mSWI/SNF family chromatin remodeling complexes direct T cell activation and exhaustion
Battistello, Elena, Hixon, Kimberlee A., Comstock, Dawn E., Collings, Clayton K., Chen, Xufeng, Rodriguez Hernaez, Javier, Lee, Soobeom, Cervantes, Kasey S., Hinkley, Madeline M., Ntatsoulis, Konstantinos, Cesarano, Annamaria, Hockemeyer, Kathryn, Haining, W. Nicholas, Witkowski, Matthew T., Qi, Jun, Tsirigos, Aristotelis, Perna, Fabiana, Aifantis, Iannis, Kadoch, Cigall
Published in Molecular cell (20.04.2023)
Published in Molecular cell (20.04.2023)
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Journal Article
Defining the relative and combined contribution of CTCF and CTCFL to genomic regulation
Nishana, Mayilaadumveettil, Ha, Caryn, Rodriguez-Hernaez, Javier, Ranjbaran, Ali, Chio, Erica, Nora, Elphege P, Badri, Sana B, Kloetgen, Andreas, Bruneau, Benoit G, Tsirigos, Aristotelis, Skok, Jane A
Published in Genome Biology (11.05.2020)
Published in Genome Biology (11.05.2020)
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Journal Article
Somatic Focal Copy Number Gains of Noncoding Regions of Receptor Tyrosine Kinase Genes in Treatment-Resistant Epilepsy
Vasudevaraja, Varshini, Rodriguez, Javier Hernaez, Pelorosso, Cristiana, Zhu, Kaicen, Buccoliero, Anna Maria, Onozato, Maristela, Mohamed, Hussein, Serrano, Jonathan, Tredwin, Lily, Garonzi, Marianna, Forcato, Claudio, Zeck, Briana, Ramaswami, Sitharam, Stafford, James, Faustin, Arline, Friedman, Daniel, Hidalgo, Eveline Teresa, Zagzag, David, Skok, Jane, Heguy, Adriana, Chiriboga, Luis, Conti, Valerio, Guerrini, Renzo, Iafrate, A John, Devinsky, Orrin, Tsirigos, Aristotelis, Golfinos, John G, Snuderl, Matija
Published in Journal of neuropathology and experimental neurology (01.02.2021)
Published in Journal of neuropathology and experimental neurology (01.02.2021)
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Journal Article
Author Correction: Defining the relative and combined contribution of CTCF and CTCFL to genomic regulation
Nishana, Mayilaadumveettil, Ha, Caryn, Rodriguez-Hernaez, Javier, Ranjbaran, Ali, Chio, Erica, Nora, Elphege P., Badri, Sana B., Kloetgen, Andreas, Bruneau, Benoit G., Tsirigos, Aristotelis, Skok, Jane A.
Published in Genome Biology (02.06.2020)
Published in Genome Biology (02.06.2020)
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Journal Article
Cell-type-specific prediction of 3D chromatin organization enables high-throughput in silico genetic screening
Tan, Jimin, Shenker-Tauris, Nina, Rodriguez-Hernaez, Javier, Wang, Eric, Sakellaropoulos, Theodore, Boccalatte, Francesco, Thandapani, Palaniraja, Skok, Jane, Aifantis, Iannis, Fenyö, David, Xia, Bo, Tsirigos, Aristotelis
Published in Nature biotechnology (01.08.2023)
Published in Nature biotechnology (01.08.2023)
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Journal Article
Integrated Genomic Analysis Identifies a Downstream Regulatory Element Oncogenically Activating Hematopoietically Expressed Homeobox ( HHEX ) in ETP-ALL
Davé, Utpal P., Layer, Justin, Maier, Bernhard, Venters, Bryan, Copeland, Neal, Jenkins, Nancy, Tsirigos, Aristotelis, Rodriguez Hernaez, Javier, Ivan, Mircea
Published in Blood (02.11.2023)
Published in Blood (02.11.2023)
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Journal Article
3D Enhancer–promoter networks provide predictive features for gene expression and coregulation in early embryonic lineages
Murphy, Dylan, Salataj, Eralda, Di Giammartino, Dafne Campigli, Rodriguez-Hernaez, Javier, Kloetgen, Andreas, Garg, Vidur, Char, Erin, Uyehara, Christopher M., Ee, Ly-sha, Lee, UkJin, Stadtfeld, Matthias, Hadjantonakis, Anna-Katerina, Tsirigos, Aristotelis, Polyzos, Alexander, Apostolou, Effie
Published in Nature structural & molecular biology (01.01.2024)
Published in Nature structural & molecular biology (01.01.2024)
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Journal Article
The first complete genomic structure of Butyrivibrio fibrisolvens and its chromid
Rodríguez Hernáez, Javier, Cerón Cucchi, Maria Esperanza, Cravero, Silvio, Martinez, Maria Carolina, Gonzalez, Sergio, Puebla, Andrea, Dopazo, Joaquin, Farber, Marisa, Paniego, Norma, Rivarola, Máximo
Published in Microbial genomics (01.10.2018)
Published in Microbial genomics (01.10.2018)
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Journal Article
Selective STAT3 Degraders Dissect Peripheral T-Cell Lymphomas Vulnerabilities Empowering Personalized Regimens
Astone, Giuseppina, Cappelli, Luca Vincenzo, Chiu, William, Kayembe, Clarisse, Wang, Rui, Yang, Bin, Sharma, Kirti, Dey, Joyoti, Karnik, Rahul, Brambilla, Lara, Levy, David, Yoffe, Liron, Boccalatte, Francesco, Hernaez, Javier Rodriguez, Tsirigos, Aristotelis, Zumbo, Paul, Betel, Doron, Verma, Akanksha, Elemento, Olivier, Cumerlato, Michela, Piva, Roberto, Horwitz, Steven M., Epstein-Peterson, Zachary D., Gollob, Jared, DeSavi, Chris, Liu, Phillip CC, Inghirami, Giorgio
Published in Blood (23.11.2021)
Published in Blood (23.11.2021)
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Journal Article
Abstract 1794: Targeting mammalian SWI/SNF chromatin remodeling complexes to improve T cell-based cancer immunotherapies
Battistello, Elena, Hixon, Kimberlee, Comstock, Dawn E., Collings, Clayton K., Chen, Xufeng, Hernaez, Javier Rodriguez, Lee, Soobeom, Ntatsoulis, Konstantinos, Cesarano, Annamaria, Hockemeyer, Kathryn, Haining, W. Nicholas, Witkowski, Matthew T., Qi, Jun, Tsirigos, Aristotelis, Perna, Fabiana, Aifantis, Ioannis, Kadoch, Cigall
Published in Cancer research (Chicago, Ill.) (04.04.2023)
Published in Cancer research (Chicago, Ill.) (04.04.2023)
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Journal Article
Systematic mapping and modeling of 3D enhancer-promoter interactions in early mouse embryonic lineages reveal regulatory principles that determine the levels and cell-type specificity of gene expression
Murphy, Dylan, Salataj, Eralda, Di Giammartino, Dafne Campigli, Rodriguez-Hernaez, Javier, Kloetgen, Andreas, Garg, Vidur, Char, Erin, Uyehara, Christopher M, Ee, Ly-Sha, Lee, UkJin, Stadtfeld, Matthias, Hadjantonakis, Anna-Katerina, Tsirigos, Aristotelis, Polyzos, Alexander, Apostolou, Effie
Published in bioRxiv : the preprint server for biology (19.07.2023)
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Published in bioRxiv : the preprint server for biology (19.07.2023)
Journal Article
Defining the relative and combined contribution of CTCF and CTCFL to genomic regulation
Nishana, Mayilaadumveettil, Ha, Caryn, Rodriguez-Hernaez, Javier, Ranjbaran, Ali, Chio, Erica, Nora, Elphege P, Badri, Sana B, Kloetgen, Andreas, Bruneau, Benoit, Tsirigos, Aristotelis, Skok, Jane A
Published in bioRxiv (18.04.2020)
Published in bioRxiv (18.04.2020)
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Paper
NSD2 overexpression drives clustered chromatin and transcriptional changes in a subset of insulated domains
Lhoumaud, Priscillia, Badri, Sana, Rodriguez-Hernaez, Javier, Sakellaropoulos, Theodore, Sethia, Gunjan, Kloetgen, Andreas, Macintosh Cornwell, Bhattacharyya, Sourya, Ay, Ferhat, Bonneau, Richard, Tsirigos, Aristotelis, Skok, Jane A
Published in bioRxiv (18.05.2019)
Published in bioRxiv (18.05.2019)
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Paper
RNA interactions with CTCF are essential for its proper function
Saldana-Meyer, Ricardo, Rodriguez-Hernaez, Javier, Nishana, Mayilaadumveettil, Jacome-Lopez, Karina, Nora, Elphege P, Bruneau, Benoit G, Furlan-Magaril, Mayra, Skok, Jane, Reinberg, Danny
Published in bioRxiv (24.01.2019)
Published in bioRxiv (24.01.2019)
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Paper