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Grapotte M. Saraswat C. Bessière C. Menichelli J.A. Ramilowski J. Severin Y. Hayashizaki M. Itoh M. Tagami M. Murata M. Kojima-Ishiyama S. Noma S. Noguchi T. Kasukawa A. Hasegawa H. Suzuki H. Nishiyori-Sueki M.C. Frith C. Chatelain P. Carninci M.J.L. de Hoon W.W. Wasserman L. Bréhélin C.H. Lecellier August 01, 2021 / Biochem Soc Trans Polymer models are a versatile tool to study chromatin 3D organization A. Esposito S. Bianco L. Fiorillo M. Conte A. Abraham F. Musella M. Nicodemi A. Prisco A.M. Chiariello November 25, 2021 / Nature Cell-type specialization is encoded by specific chromatin topologies W. Winick-Ng A. Kukalev I. Harabula L. Zea-Redondo D. Szabó M. Meijer L. Serebreni Y. Zhang S. Bianco A.M. Chiariello I. Irastorza-Azcarate C.J. Thieme T.M. Sparks S. Carvalho L. Fiorillo F. Musella E. Irani E.T. Triglia A.A. Kolodziejczyk A. Abentung G. Apostolova E.J. Paul V. Franke R. Kempfer A. Akalin S.A. Teichmann G. Dechant M.A. Ungless M. Nicodemi L. Welch G. Castelo-Branco A. Pombo November 10, 2021 / Phy Rev E Dynamic and equilibrium properties of finite-size polymer models of chromosome folding M. Conte L. Fiorillo C. Annunziatella A. Esposito F. Musella A. Abraham S. Bianco A.M. Chiariello January 13, 2021 / Nat Commun Age-related and disease locus-specific mechanisms contribute to early remodelling of chromatin structure in Huntington's disease mice R. Alcalá-Vida J. Seguin C. Lotz A.M. Molitor I. Irastorza-Azcarate A. Awada N. Karasu A. Bombardier B. Cosquer J.L.G. Skarmeta J.C. Cassel A.L. Boutillier T. Sexton K. Merienne March 23, 2017 / Nature Complex multi-enhancer contacts captured by genome architecture mapping R.A. Beagrie A. Scialdone M. Schueler D.C.A. Kraemer M. Chotalia S.Q. Xie M. Barbieri I. de Santiago L.M. Lavitas M.R. Branco J. Fraser J. Dostie L. Game N. Dillon P.A.W. Edwards M. Nicodemi A. Pombo June 01, 2017 / Nat Struct Mol Biol Active and poised promoter states drive folding of the extended HoxB locus in mouse embryonic stem cells M. Barbieri S.Q. Xie E. Torlai Triglia A.M. Chiariello S. Bianco I. de Santiago M.R. Branco D. Rueda M. Nicodemi A. Pombo June 26, 2017 / Nat Commun Flipping between Polycomb repressed and active transcriptional states introduces noise in gene expression G. Kar J.K. Kim A.A. Kolodziejczyk K.N. Natarajan E. Torlai Triglia B. Mifsud S. Elderkin J.C. Marioni A. Pombo S.A. Teichmann August 29, 2017 / Sci Data FANTOM5 CAGE profiles of human and mouse samples S. Noguchi T. Arakawa S. Fukuda M. Furuno A. Hasegawa F. Hori S. Ishikawa-Kato K. Kaida A. Kaiho M. Kanamori-Katayama T. Kawashima M. Kojima A. Kubosaki R.I. Manabe M. Murata S. Nagao-Sato K. Nakazato N. Ninomiya H. Nishiyori-Sueki S. Noma E. Saijyo A. Saka M. Sakai C. Simon N. Suzuki M. Tagami S. Watanabe S. Yoshida P. Arner R.A. Axton M. Babina J.K. Baillie T.C. Barnett A.G. Beckhouse A. Blumenthal B. Bodega A. Bonetti J. Briggs F. Brombacher A.J. Carlisle H.C. Clevers C.A. Davis M. Detmar T. Dohi A.S.B. Edge M. Edinger A. Ehrlund K. Ekwall M. Endoh H. Enomoto A. Eslami M. Fagiolini L. Fairbairn M.C. Farach-Carson G.J. Faulkner C. Ferrai M.E. Fisher L.M. Forrester R. Fujita J.I. Furusawa T.B. Geijtenbeek T. Gingeras D. Goldowitz S. Guhl R. Guler S. Gustincich T.J. Ha M. Hamaguchi M. Hara Y. Hasegawa M. Herlyn P. Heutink K.J. Hitchens D.A. Hume T. Ikawa Y. Ishizu C. Kai H. Kawamoto Y.I. Kawamura J.S. Kempfle T.J. Kenna J. Kere L.M. Khachigian T. Kitamura S. Klein S.P. Klinken A.J. Knox S. Kojima H. Koseki S. Koyasu W. Lee A.s Lennartsson A. Mackay-Sim N. Mejhert Y. Mizuno H. Morikawa M. Morimoto K. Moro K.J. Morris H. Motohashi C.L. Mummery Y. Nakachi F. Nakahara T. Nakamura Y. Nakamura T. Nozaki S. Ogishima N. Ohkura H. Ohno M. Ohshima M. Okada-Hatakeyama Y. Okazaki V. Orlando D.A. Ovchinnikov R. Passier M. Patrikakis A. Pombo S. Pradhan-Bhatt X.Y. Qin M. Rehli P. Rizzu S. Roy A. Sajantila S. Sakaguchi H. Sato H. Satoh S. Savvi A. Saxena C. Schmidl C. Schneider G.G. Schulze-Tanzil A. Schwegmann G. Sheng J.W. Shin D. Sugiyama T. Sugiyama K.M. Summers N. Takahashi J. Takai H. Tanaka H. Tatsukawa A. Tomoiu H. Toyoda M. van de Wetering L.M. van den Berg R. Verardo D. Vijayan C.A. Wells L.N. Winteringham E. Wolvetang Y. Yamaguchi M. Yamamoto C. Yanagi-Mizuochi M. Yoneda Y. Yonekura P.G. Zhang S. Zucchelli I. Abugessaisa E. Arner J. Harshbarger A. Kondo T. Lassmann M. Lizio S. Sahin T. Sengstag J. Severin H. Shimoji M. Suzuki H. Suzuki J. Kawai N. Kondo M. Itoh C.O. Daub T. Kasukawa H. Kawaji P. Carninci A.R.R. Forrest Y. Hayashizaki May 01, 2021 / Nat Methods Comparison of the Hi-C, GAM and SPRITE methods using polymer models of chromatin L. Fiorillo F. Musella M. Conte R. Kempfer A.M. Chiariello S. Bianco A. Kukalev I. Irastorza-Azcarate A. Esposito A. Abraham A. Prisco A. Pombo M. Nicodemi Pagination Current page 1 Page 2 Page 3 Next page Next › Last page Last »
June 02, 2021 / Nat Commun Discovery of widespread transcription initiation at microsatellites predictable by sequence-based deep neural network M. Grapotte M. Saraswat C. Bessière C. Menichelli J.A. Ramilowski J. Severin Y. Hayashizaki M. Itoh M. Tagami M. Murata M. Kojima-Ishiyama S. Noma S. Noguchi T. Kasukawa A. Hasegawa H. Suzuki H. Nishiyori-Sueki M.C. Frith C. Chatelain P. Carninci M.J.L. de Hoon W.W. Wasserman L. Bréhélin C.H. Lecellier
August 01, 2021 / Biochem Soc Trans Polymer models are a versatile tool to study chromatin 3D organization A. Esposito S. Bianco L. Fiorillo M. Conte A. Abraham F. Musella M. Nicodemi A. Prisco A.M. Chiariello
November 25, 2021 / Nature Cell-type specialization is encoded by specific chromatin topologies W. Winick-Ng A. Kukalev I. Harabula L. Zea-Redondo D. Szabó M. Meijer L. Serebreni Y. Zhang S. Bianco A.M. Chiariello I. Irastorza-Azcarate C.J. Thieme T.M. Sparks S. Carvalho L. Fiorillo F. Musella E. Irani E.T. Triglia A.A. Kolodziejczyk A. Abentung G. Apostolova E.J. Paul V. Franke R. Kempfer A. Akalin S.A. Teichmann G. Dechant M.A. Ungless M. Nicodemi L. Welch G. Castelo-Branco A. Pombo
November 10, 2021 / Phy Rev E Dynamic and equilibrium properties of finite-size polymer models of chromosome folding M. Conte L. Fiorillo C. Annunziatella A. Esposito F. Musella A. Abraham S. Bianco A.M. Chiariello
January 13, 2021 / Nat Commun Age-related and disease locus-specific mechanisms contribute to early remodelling of chromatin structure in Huntington's disease mice R. Alcalá-Vida J. Seguin C. Lotz A.M. Molitor I. Irastorza-Azcarate A. Awada N. Karasu A. Bombardier B. Cosquer J.L.G. Skarmeta J.C. Cassel A.L. Boutillier T. Sexton K. Merienne
March 23, 2017 / Nature Complex multi-enhancer contacts captured by genome architecture mapping R.A. Beagrie A. Scialdone M. Schueler D.C.A. Kraemer M. Chotalia S.Q. Xie M. Barbieri I. de Santiago L.M. Lavitas M.R. Branco J. Fraser J. Dostie L. Game N. Dillon P.A.W. Edwards M. Nicodemi A. Pombo
June 01, 2017 / Nat Struct Mol Biol Active and poised promoter states drive folding of the extended HoxB locus in mouse embryonic stem cells M. Barbieri S.Q. Xie E. Torlai Triglia A.M. Chiariello S. Bianco I. de Santiago M.R. Branco D. Rueda M. Nicodemi A. Pombo
June 26, 2017 / Nat Commun Flipping between Polycomb repressed and active transcriptional states introduces noise in gene expression G. Kar J.K. Kim A.A. Kolodziejczyk K.N. Natarajan E. Torlai Triglia B. Mifsud S. Elderkin J.C. Marioni A. Pombo S.A. Teichmann
August 29, 2017 / Sci Data FANTOM5 CAGE profiles of human and mouse samples S. Noguchi T. Arakawa S. Fukuda M. Furuno A. Hasegawa F. Hori S. Ishikawa-Kato K. Kaida A. Kaiho M. Kanamori-Katayama T. Kawashima M. Kojima A. Kubosaki R.I. Manabe M. Murata S. Nagao-Sato K. Nakazato N. Ninomiya H. Nishiyori-Sueki S. Noma E. Saijyo A. Saka M. Sakai C. Simon N. Suzuki M. Tagami S. Watanabe S. Yoshida P. Arner R.A. Axton M. Babina J.K. Baillie T.C. Barnett A.G. Beckhouse A. Blumenthal B. Bodega A. Bonetti J. Briggs F. Brombacher A.J. Carlisle H.C. Clevers C.A. Davis M. Detmar T. Dohi A.S.B. Edge M. Edinger A. Ehrlund K. Ekwall M. Endoh H. Enomoto A. Eslami M. Fagiolini L. Fairbairn M.C. Farach-Carson G.J. Faulkner C. Ferrai M.E. Fisher L.M. Forrester R. Fujita J.I. Furusawa T.B. Geijtenbeek T. Gingeras D. Goldowitz S. Guhl R. Guler S. Gustincich T.J. Ha M. Hamaguchi M. Hara Y. Hasegawa M. Herlyn P. Heutink K.J. Hitchens D.A. Hume T. Ikawa Y. Ishizu C. Kai H. Kawamoto Y.I. Kawamura J.S. Kempfle T.J. Kenna J. Kere L.M. Khachigian T. Kitamura S. Klein S.P. Klinken A.J. Knox S. Kojima H. Koseki S. Koyasu W. Lee A.s Lennartsson A. Mackay-Sim N. Mejhert Y. Mizuno H. Morikawa M. Morimoto K. Moro K.J. Morris H. Motohashi C.L. Mummery Y. Nakachi F. Nakahara T. Nakamura Y. Nakamura T. Nozaki S. Ogishima N. Ohkura H. Ohno M. Ohshima M. Okada-Hatakeyama Y. Okazaki V. Orlando D.A. Ovchinnikov R. Passier M. Patrikakis A. Pombo S. Pradhan-Bhatt X.Y. Qin M. Rehli P. Rizzu S. Roy A. Sajantila S. Sakaguchi H. Sato H. Satoh S. Savvi A. Saxena C. Schmidl C. Schneider G.G. Schulze-Tanzil A. Schwegmann G. Sheng J.W. Shin D. Sugiyama T. Sugiyama K.M. Summers N. Takahashi J. Takai H. Tanaka H. Tatsukawa A. Tomoiu H. Toyoda M. van de Wetering L.M. van den Berg R. Verardo D. Vijayan C.A. Wells L.N. Winteringham E. Wolvetang Y. Yamaguchi M. Yamamoto C. Yanagi-Mizuochi M. Yoneda Y. Yonekura P.G. Zhang S. Zucchelli I. Abugessaisa E. Arner J. Harshbarger A. Kondo T. Lassmann M. Lizio S. Sahin T. Sengstag J. Severin H. Shimoji M. Suzuki H. Suzuki J. Kawai N. Kondo M. Itoh C.O. Daub T. Kasukawa H. Kawaji P. Carninci A.R.R. Forrest Y. Hayashizaki
May 01, 2021 / Nat Methods Comparison of the Hi-C, GAM and SPRITE methods using polymer models of chromatin L. Fiorillo F. Musella M. Conte R. Kempfer A.M. Chiariello S. Bianco A. Kukalev I. Irastorza-Azcarate A. Esposito A. Abraham A. Prisco A. Pombo M. Nicodemi