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Although it is generally accepted that cellular differentiation requires changes to transcriptional networks, dynamic regulation of promoters and enhancers at specific sets of genes has not been previously studied en masse. Exploiting the fact that active promoters and enhancers are transcribed, we simultaneously measured their activity in 19 human and 14 mouse time courses covering a wide range of cell types and biological stimuli. Enhancer RNAs, then messenger RNAs encoding transcription factors, dominated the earliest responses. Binding sites for key lineage transcription factors were simultaneously overrepresented in enhancers and promoters active in each cellular system. Our data support a highly generalizable model in which enhancer transcription is the earliest event in successive waves of transcriptional change during cellular differentiation or activation.
Transcribed enhancers lead waves of coordinated transcription in transitioning mammalian cells / E. Arner, C.O. Daub, K. Vitting-Seerup, R. Andersson, B. Lilje, F. Drablos, A. Lennartsson, M. Ronnerblad, O. Hrydziuszko, M. Vitezic, T.C. Freeman, A.M.N. Alhendi, P. Arner, R. Axton, J.K. Baillie, A. Beckhouse, B. Bodega, J. Briggs, F. Brombacher, M. Davis, M. Detmar, A. Ehrlund, M. Endoh, A. Eslami, M. Fagiolini, L. Fairbairn, G.J. Faulkner, C. Ferrai, M.E. Fisher, L. Forrester, D. Goldowitz, R. Guler, T. Ha, M. Hara, M. Herlyn, T. Ikawa, C. Kai, H. Kawamoto, L.M. Khachigian, S.P. Klinken, S. Kojima, H. Koseki, S. Klein, N. Mejhert, K. Miyaguchi, Y. Mizuno, M. Morimoto, K.J. Morris, C. Mummery, Y. Nakachi, S. Ogishima, M. Okada-Hatakeyama, Y. Okazaki, V. Orlando, D. Ovchinnikov, R. Passier, M. Patrikakis, A. Pombo, X.-. Qin, S. Roy, H. Sato, S. Savvi, A. Saxena, A. Schwegmann, D. Sugiyama, R. Swoboda, H. Tanaka, A. Tomoiu, L.N. Winteringham, E. Wolvetang, C. Yanagi-Mizuochi, M. Yoneda, S. Zabierowski, P. Zhang, I. Abugessaisa, N. Bertin, A.D. Diehl, S. Fukuda, M. Furuno, J. Harshbarger, A. Hasegawa, F. Hori, S. Ishikawa-Kato, Y. Ishizu, M. Itoh, T. Kawashima, M. Kojima, N. Kondo, M. Lizio, T.F. Meehan, C.J. Mungall, M. Murata, H. Nishiyori-Sueki, S. Sahin, S. Nagao-Sato, J. Severin, M.J.L. De Hoon, J. Kawai, T. Kasukawa, T. Lassmann, H. Suzuki, H. Kawaji, K.M. Summers, C. Wells, D.A. Hume, A.R.R. Forrest, A. Sandelin, P. Carninci, Y. Hayashizaki. - In: SCIENCE. - ISSN 0036-8075. - 347:6225(2015 Feb 27), pp. 1010-1014. [10.1126/science.1259418]
Transcribed enhancers lead waves of coordinated transcription in transitioning mammalian cells
Arner E.;Daub C. O.;Vitting-Seerup K.;Andersson R.;Lilje B.;Drablos F.;Lennartsson A.;Ronnerblad M.;Hrydziuszko O.;Vitezic M.;Freeman T. C.;Alhendi A. M. N.;Arner P.;Axton R.;Baillie J. K.;Beckhouse A.;B. Bodega;Briggs J.;Brombacher F.;Davis M.;Detmar M.;Ehrlund A.;Endoh M.;Eslami A.;Fagiolini M.;Fairbairn L.;Faulkner G. J.;Ferrai C.;Fisher M. E.;Forrester L.;Goldowitz D.;Guler R.;Ha T.;Hara M.;Herlyn M.;Ikawa T.;Kai C.;Kawamoto H.;Khachigian L. M.;Klinken S. P.;Kojima S.;Koseki H.;Klein S.;Mejhert N.;Miyaguchi K.;Mizuno Y.;Morimoto M.;Morris K. J.;Mummery C.;Nakachi Y.;Ogishima S.;Okada-Hatakeyama M.;Okazaki Y.;Orlando V.;Ovchinnikov D.;Passier R.;Patrikakis M.;Pombo A.;Qin X. -Y.;Roy S.;H. Sato;Savvi S.;Saxena A.;Schwegmann A.;Sugiyama D.;Swoboda R.;Tanaka H.;Tomoiu A.;Winteringham L. N.;Wolvetang E.;Yanagi-Mizuochi C.;Yoneda M.;Zabierowski S.;Zhang P.;Abugessaisa I.;Bertin N.;Diehl A. D.;Fukuda S.;Furuno M.;Harshbarger J.;Hasegawa A.;Hori F.;Ishikawa-Kato S.;Ishizu Y.;Itoh M.;Kawashima T.;Kojima M.;Kondo N.;Lizio M.;Meehan T. F.;Mungall C. J.;Murata M.;Nishiyori-Sueki H.;Sahin S.;Nagao-Sato S.;Severin J.;De Hoon M. J. L.;Kawai J.;Kasukawa T.;Lassmann T.;Suzuki H.;Kawaji H.;Summers K. M.;Wells C.;Hume D. A.;Forrest A. R. R.;Sandelin A.;Carninci P.;Hayashizaki Y.
2015
Abstract
Although it is generally accepted that cellular differentiation requires changes to transcriptional networks, dynamic regulation of promoters and enhancers at specific sets of genes has not been previously studied en masse. Exploiting the fact that active promoters and enhancers are transcribed, we simultaneously measured their activity in 19 human and 14 mouse time courses covering a wide range of cell types and biological stimuli. Enhancer RNAs, then messenger RNAs encoding transcription factors, dominated the earliest responses. Binding sites for key lineage transcription factors were simultaneously overrepresented in enhancers and promoters active in each cellular system. Our data support a highly generalizable model in which enhancer transcription is the earliest event in successive waves of transcriptional change during cellular differentiation or activation.
Transcribed enhancers lead waves of coordinated transcription in transitioning mammalian cells / E. Arner, C.O. Daub, K. Vitting-Seerup, R. Andersson, B. Lilje, F. Drablos, A. Lennartsson, M. Ronnerblad, O. Hrydziuszko, M. Vitezic, T.C. Freeman, A.M.N. Alhendi, P. Arner, R. Axton, J.K. Baillie, A. Beckhouse, B. Bodega, J. Briggs, F. Brombacher, M. Davis, M. Detmar, A. Ehrlund, M. Endoh, A. Eslami, M. Fagiolini, L. Fairbairn, G.J. Faulkner, C. Ferrai, M.E. Fisher, L. Forrester, D. Goldowitz, R. Guler, T. Ha, M. Hara, M. Herlyn, T. Ikawa, C. Kai, H. Kawamoto, L.M. Khachigian, S.P. Klinken, S. Kojima, H. Koseki, S. Klein, N. Mejhert, K. Miyaguchi, Y. Mizuno, M. Morimoto, K.J. Morris, C. Mummery, Y. Nakachi, S. Ogishima, M. Okada-Hatakeyama, Y. Okazaki, V. Orlando, D. Ovchinnikov, R. Passier, M. Patrikakis, A. Pombo, X.-. Qin, S. Roy, H. Sato, S. Savvi, A. Saxena, A. Schwegmann, D. Sugiyama, R. Swoboda, H. Tanaka, A. Tomoiu, L.N. Winteringham, E. Wolvetang, C. Yanagi-Mizuochi, M. Yoneda, S. Zabierowski, P. Zhang, I. Abugessaisa, N. Bertin, A.D. Diehl, S. Fukuda, M. Furuno, J. Harshbarger, A. Hasegawa, F. Hori, S. Ishikawa-Kato, Y. Ishizu, M. Itoh, T. Kawashima, M. Kojima, N. Kondo, M. Lizio, T.F. Meehan, C.J. Mungall, M. Murata, H. Nishiyori-Sueki, S. Sahin, S. Nagao-Sato, J. Severin, M.J.L. De Hoon, J. Kawai, T. Kasukawa, T. Lassmann, H. Suzuki, H. Kawaji, K.M. Summers, C. Wells, D.A. Hume, A.R.R. Forrest, A. Sandelin, P. Carninci, Y. Hayashizaki. - In: SCIENCE. - ISSN 0036-8075. - 347:6225(2015 Feb 27), pp. 1010-1014. [10.1126/science.1259418]
open
Prodotti della ricerca::01 - Articolo su periodico
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262
Article (author)
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E. Arner, C.O. Daub, K. Vitting-Seerup, R. Andersson, B. Lilje, F. Drablos, A. Lennartsson, M. Ronnerblad, O. Hrydziuszko, M. Vitezic, T.C. Freeman, A.M.N. Alhendi, P. Arner, R. Axton, J.K. Baillie, A. Beckhouse, B. Bodega, J. Briggs, F. Brombacher, M. Davis, M. Detmar, A. Ehrlund, M. Endoh, A. Eslami, M. Fagiolini, L. Fairbairn, G.J. Faulkner, C. Ferrai, M.E. Fisher, L. Forrester, D. Goldowitz, R. Guler, T. Ha, M. Hara, M. Herlyn, T. Ikawa, C. Kai, H. Kawamoto, L.M. Khachigian, S.P. Klinken, S. Kojima, H. Koseki, S. Klein, N. Mejhert, K. Miyaguchi, Y. Mizuno, M. Morimoto, K.J. Morris, C. Mummery, Y. Nakachi, S. Ogishima, M. Okada-Hatakeyama, Y. Okazaki, V. Orlando, D. Ovchinnikov, R. Passier, M. Patrikakis, A. Pombo, X.-. Qin, S. Roy, H. Sato, S. Savvi, A. Saxena, A. Schwegmann, D. Sugiyama, R. Swoboda, H. Tanaka, A. Tomoiu, L.N. Winteringham, E. Wolvetang, C. Yanagi-Mizuochi, M. Yoneda, S. Zabierowski, P. Zhang, I. Abugessaisa, N. Bertin, A.D. Diehl, S. Fukuda, M. Furuno, J. Harshbarger, A. Hasegawa, F. Hori, S. Ishikawa-Kato, Y. Ishizu, M. Itoh, T. Kawashima, M. Kojima, N. Kondo, M. Lizio, T.F. Meehan, C.J. Mungall, M. Murata, H. Nishiyori-Sueki, S. Sahin, S. Nagao-Sato, J. Severin, M.J.L. De Hoon, J. Kawai, T. Kasukawa, T. Lassmann, H. Suzuki, H. Kawaji, K.M. Summers, C. Wells, D.A. Hume, A.R.R. Forrest, A. Sandelin, P. Carninci, Y. Hayashizaki
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Il report seguente simula gli indicatori relativi alla propria produzione scientifica in relazione alle soglie ASN 2023-2025 del proprio SC/SSD. Si ricorda che il superamento dei valori soglia (almeno 2 su 3) è requisito necessario ma non sufficiente al conseguimento dell'abilitazione. La simulazione si basa sui dati IRIS e sugli indicatori bibliometrici alla data indicata e non tiene conto di eventuali periodi di congedo obbligatorio, che in sede di domanda ASN danno diritto a incrementi percentuali dei valori. La simulazione può differire dall'esito di un’eventuale domanda ASN sia per errori di catalogazione e/o dati mancanti in IRIS, sia per la variabilità dei dati bibliometrici nel tempo. Si consideri che Anvur calcola i valori degli indicatori all'ultima data utile per la presentazione delle domande.