CACCHIARELLI, DAVIDE

CACCHIARELLI, DAVIDE  

Dipartimento di Scienze mediche traslazionali  

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Genome-wide tracking of dCas9-methyltransferase footprints 1.1 Articolo in rivista 2018 Galonska, Christina; Charlton, Jocelyn; Mattei, Alexandra L; Donaghey, Julie; Clement, Kendell; Gu, Hongcang; Mohammad, Arman W; Stamenova, Elena K; Cacchiarelli, Davide; Klages, Sven; Timmermann, Bernd; Cantz, Tobias; Schöler, Hans R; Gnirke, Andreas; Ziller, Michael J; Meissner, Alexander
Genetic determinants and epigenetic effects of pioneer-factor occupancy 1.1 Articolo in rivista 2018 Donaghey, Julie; Thakurela, Sudhir; Charlton, Jocelyn; Chen, Jennifer S.; Smith, Zachary D.; Gu, Hongcang; Pop, Ramona; Clement, Kendell; Stamenova, Elena K.; Karnik, Rahul; Kelley, David R.; Gifford, Casey A.; Cacchiarelli, Davide; Rinn, John L.; Gnirke, Andreas; Ziller, Michael J.; Meissner, Alexander
Epigenetic restriction of extraembryonic lineages mirrors the somatic transition to cancer 1.1 Articolo in rivista 2017 Smith, Zachary D; Shi, Jiantao; Gu, Hongcang; Donaghey, Julie; Clement, Kendell; Cacchiarelli, Davide; Gnirke, Andreas; Michor, Franziska; Meissner, Alexander
Triple Vectors Expand AAV Transfer Capacity in the Retina 1.1 Articolo in rivista 2017 Maddalena, Andrea; Tornabene, Patrizia; Tiberi, Paola; Minopoli, Renato; Manfredi, Anna; Mutarelli, Margherita; Rossi, Settimio; Simonelli, Francesca; Naggert, Jurgen K.; Cacchiarelli, Davide; Auricchio, Alberto
Phenotypic Characterization of a Comprehensive Set of MAPK1/ERK2 Missense Mutants 1.1 Articolo in rivista 2016 Brenan, Lisa; Andreev, Aleksandr; Cohen, Ofir; Pantel, Sasha; Kamburov, Atanas; Cacchiarelli, Davide; Persky, Nicole S.; Zhu, Cong; Bagul, Mukta; Goetz, Eva M.; Burgin, Alex B.; Garraway, Levi A.; Getz, Gad; Mikkelsen, Tarjei S.; Piccioni, Federica; Root, David E.; Johannessen, Cory M.
Transcriptional and Chromatin Dynamics of Muscle Regeneration after Severe Trauma 1.1 Articolo in rivista 2016 Aguilar, Carlos A.; Pop, Ramona; Shcherbina, Anna; Watts, Alain; Matheny, Ronald W.; Cacchiarelli, Davide; Han, Woojin M.; Shin, Eunjung; Nakhai, Shadi A.; Jang, Young C.; Carrigan, Christopher T.; Gifford, Casey A.; Kottke, Melissa A.; Cesana, Marcella; Lee, Jackson; Urso, Maria L.; Meissner, Alexander
LIN28 Regulates Stem Cell Metabolism and Conversion to Primed Pluripotency 1.1 Articolo in rivista 2016 Zhang, Jin; Ratanasirintrawoot, Sutheera; Chandrasekaran, Sriram; Wu, Zhaoting; Ficarro, Scott B.; Yu, Chunxiao; Ross, Christian A.; Cacchiarelli, Davide; Xia, Qing; Seligson, Marc; Shinoda, Gen; Xie, Wen; Cahan, Patrick; Wang, Longfei; Ng, Shyh-Chang; Tintara, Supisara; Trapnell, Cole; Onder, Tamer; Loh, Yuin-Han; Mikkelsen, Tarjei; Sliz, Piotr; Teitell, Michael A.; Asara, John M.; Marto, Jarrod A.; Li, Hu; Collins, James J.; Daley, George Q.
Dissecting neural differentiation regulatory networks through epigenetic footprinting 1.1 Articolo in rivista 2015 Ziller, Michael J.; Edri, Reuven; Yaffe, Yakey; Donaghey, Julie; Pop, Ramona; Mallard, William; Issner, Robbyn; Gifford, Casey A.; Goren, Alon; Xing, Jeffrey; Gu, Hongcang; Cacchiarelli, Davide; Tsankov, Alexander M.; Epstein, Charles; Rinn, John L.; Mikkelsen, Tarjei S.; Kohlbacher, Oliver; Gnirke, Andreas; Bernstein, Bradley E.; Elkabetz, Yechiel; Meissner, Alexander
Brief report: Importance of SOX8 for in vitro chondrogenic differentiation of human mesenchymal stromal cells 1.1 Articolo in rivista 2014 Herlofsen, Sarah R.; Høiby, Torill; Cacchiarelli, Davide; Zhang, Xiaolan; Mikkelsen, Tarjei S.; Brinchmann, Jan E.
Perturbation of m6A writers reveals two distinct classes of mRNA methylation at internal and 5' sites 1.1 Articolo in rivista 2014 Schwartz, Schraga; Mumbach, Maxwell R.; Jovanovic, Marko; Wang, Tim; Maciag, Karolina; Bushkin, G. Guy; Mertins, Philipp; Ter-Ovanesyan, Dmitry; Habib, Naomi; Cacchiarelli, Davide; Sanjana, Neville E.; Freinkman, Elizaveta; Pacold, Michael E.; Satija, Rahul; Mikkelsen, Tarjei S.; Hacohen, Nir; Zhang, Feng; Carr, Steven A.; Lander, Eric S.; Regev, Aviv
Biogenesis and function of non-coding RNAs in muscle differentiation and in Duchenne muscular dystrophy 1.1 Articolo in rivista 2013 Twayana, Shyam; Legnini, Ivano; Cesana, Marcella; Cacchiarelli, Davide; Morlando, Mariangela; Bozzoni, Irene
Coupled RNA processing and transcription of intergenic primary microRNAs 1.1 Articolo in rivista 2009 Ballarino, Monica; Pagano, Francesca; Girardi, Erika; Morlando, Mariangela; Cacchiarelli, Davide; Marchioni, Marcella; Proudfoot, Nicholas J.; Bozzoni, Irene
Duplication of the dystroglycan gene in most branches of teleost fish 1.1 Articolo in rivista 2007 Pavoni, Ernesto; Cacchiarelli, Davide; Tittarelli, Roberta; Orsini, Massimiliano; Galtieri, Antonio; Giardina, Bruno; Brancaccio, Andrea
Combining NGN2 Programming with Developmental Patterning Generates Human Excitatory Neurons with NMDAR-Mediated Synaptic Transmission 1.1 Articolo in rivista 2018 Nehme, Ralda; Zuccaro, Emanuela; Ghosh, Sulagna Dia; Li, Chenchen; Sherwood, John L.; Pietilainen, Olli; Barrett, Lindy E.; Limone, Francesco; Worringer, Kathleen A.; Kommineni, Sravya; Zang, Ying; Cacchiarelli, Davide; Meissner, Alex; Adolfsson, Rolf; Haggarty, Stephen; Madison, Jon; Muller, Matthias; Arlotta, Paola; Fu, Zhanyan; Feng, Guoping; Eggan, Kevin
Cross-Regulation between TDP-43 and Paraspeckles Promotes Pluripotency-Differentiation Transition 1.1 Articolo in rivista 2019 Modic, M.; Grosch, M.; Rot, G.; Schirge, S.; Lepko, T.; Yamazaki, T.; Lee, F. C. Y.; Rusha, E.; Shaposhnikov, D.; Palo, M.; Merl-Pham, J.; Cacchiarelli, D.; Rogelj, B.; Hauck, S. M.; von Mering, C.; Meissner, A.; Lickert, H.; Hirose, T.; Ule, J.; Drukker, M.
Extracellular matrix hydrogel derived from decellularized tissues enables endodermal organoid culture 1.1 Articolo in rivista 2019 Giobbe, G. G.; Crowley, C.; Luni, C.; Campinoti, S.; Khedr, M.; Kretzschmar, K.; De Santis, M. M.; Zambaiti, E.; Michielin, F.; Meran, L.; Hu, Q.; van Son, G.; Urbani, L.; Manfredi, A.; Giomo, M.; Eaton, S.; Cacchiarelli, D.; Li, V. S. W.; Clevers, H.; Bonfanti, P.; Elvassore, N.; De Coppi, P.
The Microfluidic Environment Reveals a Hidden Role of Self-Organizing Extracellular Matrix in Hepatic Commitment and Organoid Formation of hiPSCs 1.1 Articolo in rivista 2020 Michielin, F.; Giobbe, G. G.; Luni, C.; Hu, Q.; Maroni, I.; Orford, M. R.; Manfredi, A.; Di Filippo, L.; David, A. L.; Cacchiarelli, D.; De Coppi, P.; Eaton, S.; Elvassore, N.
A cell-of-origin epigenetic tracer reveals clinically distinct subtypes of high-grade serous ovarian cancer 1.1 Articolo in rivista 2020 Lo Riso, P.; Villa, C. E.; Gasparoni, G.; Vingiani, A.; Luongo, R.; Manfredi, A.; Jungmann, A.; Bertolotti, A.; Borgo, F.; Garbi, A.; Lupia, M.; Laise, P.; Das, V.; Pruneri, G.; Viale, G.; Colombo, N.; Manzo, T.; Nezi, L.; Cavallaro, U.; Cacchiarelli, D.; Walter, J.; Testa, G.
Computational Stem Cell Biology: Open Questions and Guiding Principles 1.1 Articolo in rivista 2021 Cahan, P.; Cacchiarelli, D.; Dunn, S. -J.; Hemberg, M.; de Sousa Lopes, S. M. C.; Morris, S. A.; Rackham, O. J. L.; del Sol, A.; Wells, C. A.
Single-Cell RNA Sequencing Analysis: A Step-by-Step Overview 2.1 Contributo in volume (Capitolo o Saggio) 2021 Slovin, S.; Carissimo, A.; Panariello, F.; Grimaldi, A.; Bouche, V.; Gambardella, G.; Cacchiarelli, D.