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Functional identification of cis-regulatory long noncoding RNAs at controlled false discovery rates Dhaka, Bhavya; Zimmerli, Marc; Hanhart, Daniel; Moser, Mario B.; Guillen-Ramirez, Hugo; Mishra, Sanat; Esposito, Roberta; Polidori, Taisia; Widmer, Maro; Garcia-Perez, Raquel; Kruithof-de Julio, Marianna; Pervouchine, Dmitri; Mele, Marta; Chouvardas, Panagiotis; Johnson, Rory Share Save
Tumour mutations in long noncoding RNAs enhance cell fitness (vol 14, 3342, 2023) Esposito, Roberta; Lanzos, Andres; Uroda, Tina; Ramnarayanan, Sunandini; Buechi, Isabel; Polidori, Taisia; Guillen-Ramirez, Hugo; Mihaljevic, Ante; Merlin, Bernard Mefi; Mela, Lia; Zoni, Eugenio; Hovhannisyan, Lusine; Mccluggage, Finn; Medo, Matus; Basile, Giulia; Meise, Dominik F.; Zwyssig, Sandra; Wenger, Corina; Schwarz, Kyriakos; Vancura, Adrienne; Bosch-Guiteras, Nuria; Andrades, Alvaro; Tham, Ai Ming; Roemmele, Michaela; Medina, Pedro P.; Ochsenbein, Adrian F.; Riether, Carsten; Kruithof-de Julio, Marianna; Zimmer, Yitzhak; Medova, Michaela; Stroka, Deborah; Fox, Archa; Johnson, Rory Share Save
Assessment of the Cardiac Noncoding Transcriptome by Single-Cell RNA Sequencing Identifies FIXER, a Conserved Profibrogenic Long Noncoding RNA Aghagolzadeh, Parisa; Plaisance, Isabelle; Bernasconi, Riccardo; Treibel, Thomas A.; Quetglas, Carlos Pulido; Wyss, Tania; Wigger, Leonore; Nemir, Mohamed; Sarre, Alexandre; Chouvardas, Panagiotis; Johnson, Rory; Gonzalez, Arantxa; Pedrazzini, Thierry Share Save
Tumour mutations in long noncoding RNAs enhance cell fitness Esposito, Roberta; Lanzos, Andres; Uroda, Tina; Ramnarayanan, Sunandini; Buechi, Isabel; Polidori, Taisia; Guillen-Ramirez, Hugo; Mihaljevic, Ante; Merlin, Bernard Mefi; Mela, Lia; Zoni, Eugenio; Hovhannisyan, Lusine; McCluggage, Finn; Medo, Matus; Basile, Giulia; Meise, Dominik F.; Zwyssig, Sandra; Wenger, Corina; Schwarz, Kyriakos; Vancura, Adrienne; Bosch-Guiteras, Nuria; Andrades, Alvaro; Tham, Ai Ming; Roemmele, Michaela; Ochsenbein, Adrian F.; Riether, Carsten; Kruithof-de Julio, Marianna; Zimmer, Yitzhak; Medova, Michaela; Stroka, Deborah; Fox, Archa; Johnson, Rory Share Save
Long non-coding RNAs: definitions, functions, challenges and recommendations Mattick, John S. S.; Amaral, Paulo P. P.; Carninci, Piero; Carpenter, Susan; Chang, Howard Y. Y.; Chen, Ling-Ling; Chen, Runsheng; Dean, Caroline; Dinger, Marcel E. E.; Fitzgerald, Katherine A. A.; Gingeras, Thomas R. R.; Guttman, Mitchell; Hirose, Tetsuro; Huarte, Maite; Johnson, Rory; Kanduri, Chandrasekhar; Kapranov, Philipp; Lawrence, Jeanne B. B.; Lee, Jeannie T. T.; Mendell, Joshua T. T.; Mercer, Timothy R. R.; Moore, Kathryn J. J.; Nakagawa, Shinichi; Rinn, John L. L.; Spector, David L. L.; Ulitsky, Igor; Wan, Yue; Wilusz, Jeremy E. E.; Wu, Mian Share Save
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Single-cell analysis of the long noncoding RNA transcriptome in cardiac fibroblasts identifies FIXER, a novel therapeutic target for fibrosis in the damaged heart Aghagolzadeh, Parisa; Plaisance, Isabelle; Bernasconi, Riccardo; Sarre, Alexandre; Nemir, Mohamed; Quetglas, Carlos Pulido; Chouvardas, Panagiotis; Johnson, Rory; Miqueo, Arantxa Gonzalez; Pedrazzini, Thierry Share Save
Alternative splicing of a transposable element into the human long noncoding RNA CARMEN is a switch for cardiac precursor cell specification Plaisance, Isabelle; Chouvardas, Panagiotis; Sun, Yuliangzi; Nemir, Mohamed; Aghagolzadeh, Parisa; Aminfar, Farhang; Shen, Sophie; Shim, Woo Jun; Rochais, Francesca; Johnson, Rory; Pedrazzini, Thierry Share Save
GENCODE: reference annotation for the human and mouse genomes in 2023 Frankish, Adam; Carbonell-Sala, Silvia; Diekhans, Mark; Jungreis, Irwin; Loveland, Jane E.; Mudge, Jonathan M.; Sisu, Cristina; Wright, James C.; Arnan, Carme; Barnes, If; Banerjee, Abhimanyu; Bennett, Ruth; Berry, Andrew; Bignell, Alexandra; Boix, Carles; Calvet, Ferriol; Cerdan-Velez, Daniel; Cunningham, Fiona; Davidson, Claire; Donaldson, Sarah; Dursun, Cagatay; Fatima, Reham; Giorgetti, Stefano; Giron, Carlos Garcia; Gonzalez, Jose Manuel; Hardy, Matthew; Harrison, Peter W.; Hourlier, Thibaut; Hollis, Zoe; Hunt, Toby; James, Benjamin; Jiang, Yunzhe; Johnson, Rory; Kay, Mike; Lagarde, Julien; Martin, Fergal J.; Gomez, Laura Martinez; Nair, Surag; Ni, Pengyu; Pozo, Fernando; Ramalingam, Vivek; Ruffier, Magali; Schmitt, Bianca M.; Schreiber, Jacob M.; Steed, Emily; Suner, Marie-Marthe; Sumathipala, Dulika; Sycheva, Irina; Uszczynska-Ratajczak, Barbara; Wass, Elizabeth; Yang, Yucheng T.; Yates, Andrew; Zafrulla, Zahoor; Choudhary, Jyoti S.; Gerstein, Mark; Guigo, Roderic; Hubbard, Tim J. P.; Kellis, Manolis; Kundaje, Anshul; Paten, Benedict; Tress, Michael L.; Flicek, Paul Share Save
Multi-hallmark long noncoding RNA maps reveal non-small cell lung cancer vulnerabilities Esposito, Roberta; Polidori, Taisia; Meise, Dominik F.; Pulido-Quetglas, Carlos; Chouvardas, Panagiotis; Forster, Stefan; Schaerer, Paulina; Kobel, Andrea; Schlatter, Juliette; Kerkhof, Erik; Roemmele, Michaela; Rice, Emily S.; Zhu, Lina; Lanzos, Andrea; Guillen-Ramirez, Hugo A.; Basile, Giulia; Carrozzo, Irene; Vancura, Adrienne; Ullrich, Sebastian; Andrades, Alvaro; Harvey, Dylan; Medina, Pedro P.; Ma, Patrick C.; Haefliger, Simon; Wang, Xin; Martinez, Ivan; Ochsenbein, Adrian F.; Riether, Carsten; Johnson, Rory Share Save
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Paired guide RNA CRISPR-Cas9 screening for protein-coding genes and lncRNAs involved in transdifferentiation of human B-cells to macrophages Arnan, Carme; Ullrich, Sebastian; Pulido-Quetglas, Carlos; Nurtdinov, Ramil; Esteban, Alexandre; Blanco-Fernandez, Joan; Aparicio-Prat, Estel; Johnson, Rory; Perez-Lluch, Silvia; Guigo, Roderic Share Save
Noncoding RNAs: biology and applications-a Keystone Symposia report Cable, Jennifer; Heard, Edith; Hirose, Tetsuro; Prasanth, Kannanganattu, V; Chen, Ling-Ling; Henninger, Jonathan E.; Quinodoz, Sofia A.; Spector, David L.; Diermeier, Sarah D.; Porman, Allison M.; Kumar, Dhiraj; Feinberg, Mark W.; Shen, Xiaohua; Unfried, Juan Pablo; Johnson, Rory; Chen, Chun-Kan; Wilusz, Jeremy E.; Lempradl, Adelheid; McGeary, Sean E.; Wahba, Lamia; Pyle, Anna Marie; Hargrove, Amanda E.; Simon, Matthew D.; Marcia, Marco; Przanowska, Roza K.; Chang, Howard Y.; Jaffrey, Samie R.; Contreras, Lydia M.; Chen, Qi; Shi, Junchao; Mendell, Joshua T.; He, Lin; Song, Erwei; Rinn, John L.; Lalwani, Mukesh Kumar; Kalem, Murat Can; Chuong, Edward B.; Maquat, Lynne E.; Liu, Xuhang Share Save
MapToCleave: High-throughput profiling of microRNA biogenesis in living cells Kang, Wenjing; Fromm, Bastian; Houben, Anna J.; Hoye, Eirik; Bezdan, Daniela; Arnan, Carme; Thrane, Kim; Asp, Michaela; Johnson, Rory; Biryukova, Inna; Friedlander, Marc R. Share Save
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Enhancing CRISPR deletion via pharmacological delay of DNA-PKcs Bosch-Guiteras, Nuria; Uroda, Tina; Guillen-Ramirez, Hugo A.; Riedo, Rahel; Gazdhar, Amiq; Esposito, Roberta; Pulido-Quetglas, Carlos; Zimmer, Yitzhak; Medova, Michaela; Johnson, Rory Share Save
GENCODE 2021 Frankish, Adam; Diekhans, Mark; Jungreis, Irwin; Lagarde, Julien; Loveland, Jane E.; Mudge, Jonathan M.; Sisu, Cristina; Wright, James C.; Armstrong, Joel; Barnes, If; Berry, Andrew; Bignell, Alexandra; Boix, Carles; Carbonell Sala, Silvia; Cunningham, Fiona; Di Domenico, Tomas; Donaldson, Sarah; Fiddes, Ian T.; Giron, Carlos Garcia; Gonzalez, Jose Manuel; Grego, Tiago; Hardy, Matthew; Hourlier, Thibaut; Howe, Kevin L.; Hunt, Toby; Izuogu, Osagie G.; Johnson, Rory; Martin, Fergal J.; Martinez, Laura; Mohanan, Shamika; Muir, Paul; Navarro, Fabio C. P.; Parker, Anne; Pei, Baikang; Pozo, Fernando; Riera, Ferriol Calvet; Ruffier, Magali; Schmitt, Bianca M.; Stapleton, Eloise; Suner, Marie-Marthe; Sycheva, Irina; Uszczynska-Ratajczak, Barbara; Wolf, Maxim Y.; Xu, Jinuri; Yang, Yucheng T.; Yates, Andrew; Zerbino, Daniel; Zhang, Yan; Choudhary, Jyoti S.; Gerstein, Mark; Guigo, Roderic; Hubbard, Tim J. P.; Kellis, Manolis; Paten, Benedict; Tress, Michael L.; Flicek, Paul Share Save
The Origins and the Biological Consequences of the Pur/Pyr DNA•RNA Asymmetry Terrazas, Montserrat; Genna, Vito; Portella, Guillem; Villegas, Nuria; Sanchez, Dani; Arnan, Carme; Pulido-Quetglas, Carlos; Johnson, Rory; Guigo, Roderic; Brun-Heath, Isabelle; Avino, Anna; Eritja, Ramon; Orozco, Modesto Share Save
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