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2019

Journal Article

LINE-1 Evasion of epigenetic repression in humans

Sanchez-Luque, Francisco J., Kempen, Marie-Jeanne H.C., Gerdes, Patricia, Vargas-Landin, Dulce B., Richardson, Sandra R., Troskie, Robin-Lee, Jesuadian, J. Samuel, Cheetham, Seth W., Carreira, Patricia E., Salvador-Palomeque, Carmen, García-Cañadas, Marta, Muñoz-Lopez, Martin, Sanchez, Laura, Lundberg, Mischa, Macia, Angela, Heras, Sara R., Brennan, Paul M., Lister, Ryan, Garcia-Perez, Jose L., Ewing, Adam D. and Faulkner, Geoffrey J. (2019). LINE-1 Evasion of epigenetic repression in humans. Molecular Cell, 75 (3), 590-604.e12. doi: 10.1016/j.molcel.2019.05.024

LINE-1 Evasion of epigenetic repression in humans

2019

Journal Article

Dynamic methylation of an L1 transduction family during reprogramming and neurodifferentiation

Salvador-Palomeque, Carmen, Sanchez-Luque, Francisco J., Fortuna, Patrick R. J., Ewing, Adam D., Wolvetang, Ernst J., Richardson, Sandra R. and Faulkner, Geoffrey J. (2019). Dynamic methylation of an L1 transduction family during reprogramming and neurodifferentiation. Molecular and Cellular Biology, 39 (7) e00499-18, 1-19. doi: 10.1128/mcb.00499-18

Dynamic methylation of an L1 transduction family during reprogramming and neurodifferentiation

2019

Conference Publication

YY1: an enduring repressor of L1 retrotransposition during human neurodevelopment

Faulkner, G. J. (2019). YY1: an enduring repressor of L1 retrotransposition during human neurodevelopment. 52nd Conference of the European-Society-of-Human-Genetics (ESHG), Gothenburg, Sweden, 15-18 June 2019. LONDON: NATURE PUBLISHING GROUP.

YY1: an enduring repressor of L1 retrotransposition during human neurodevelopment

2018

Journal Article

Erratum to: Reprogramming triggers endogenous L1 and Alu retrotransposition in human induced pluripotent stem cells (Nature Communications, (2016), 7, 1, (10286), 10.1038/ncomms10286)

Klawitter, Sabine, Fuchs, Nina V., Upton, Kyle R., Muñoz-Lopez, Martin, Shukla, Ruchi, Wang, Jichang, Garcia-Cañadas, Marta, Lopez-Ruiz, Cesar, Gerhardt, Daniel J., Sebe, Attila, Grabundzija, Ivana, Merkert, Sylvia, Gerdes, Patricia, Pulgarin, J. Andres, Bock, Anja, Held, Ulrike, Witthuhn, Anett, Haase, Alexandra, Sarkadi, Balázs, Löwer, Johannes, Wolvetang, Ernst J., Martin, Ulrich, Ivics, Zoltán, Izsvák, Zsuzsanna, Garcia-Perez, Jose L., Faulkner, Geoffrey J. and Schumann, Gerald G. (2018). Erratum to: Reprogramming triggers endogenous L1 and Alu retrotransposition in human induced pluripotent stem cells (Nature Communications, (2016), 7, 1, (10286), 10.1038/ncomms10286). Nature Communications, 9 (1) 5398, 5398. doi: 10.1038/s41467-018-07917-0

Erratum to: Reprogramming triggers endogenous L1 and Alu retrotransposition in human induced pluripotent stem cells (Nature Communications, (2016), 7, 1, (10286), 10.1038/ncomms10286)

2018

Journal Article

Retrotransposon-induced mosaicism in the neural genome

Bodea, Gabriela O., McKelvey, Eleanor G. Z. and Faulkner, Geoffrey J. (2018). Retrotransposon-induced mosaicism in the neural genome. Open Biology, 8 (7) 180074, 180074. doi: 10.1098/rsob.180074

Retrotransposon-induced mosaicism in the neural genome

2018

Journal Article

L1 retrotransposition in the soma: a field jumping ahead

Faulkner, Geoffrey J. and Billon, Victor (2018). L1 retrotransposition in the soma: a field jumping ahead. Mobile DNA, 9 (1) 22, 22. doi: 10.1186/s13100-018-0128-1

L1 retrotransposition in the soma: a field jumping ahead

2018

Conference Publication

Meeting report: mobile genetic elements and genome plasticity 2018

Abrams, John M., Arkhipova, Irina R., Belfort, Marlene, Boeke, Jef D., Curcio, M. Joan, Faulkner, Geoffrey J., Goodier, John L., Lehmann, Ruth and Levin, Henry L. (2018). Meeting report: mobile genetic elements and genome plasticity 2018. London, United Kingdom: BioMed Central. doi: 10.1186/s13100-018-0126-3

Meeting report: mobile genetic elements and genome plasticity 2018

2018

Journal Article

Heritable L1 retrotransposition events during development: understanding their origins: examination of heritable, endogenous L1 retrotransposition in mice opens up exciting new questions and research directions

Richardson, Sandra R. and Faulkner, Geoffrey J. (2018). Heritable L1 retrotransposition events during development: understanding their origins: examination of heritable, endogenous L1 retrotransposition in mice opens up exciting new questions and research directions. BioEssays, 40 (6) 1700189, e1700189. doi: 10.1002/bies.201700189

Heritable L1 retrotransposition events during development: understanding their origins: examination of heritable, endogenous L1 retrotransposition in mice opens up exciting new questions and research directions

2018

Journal Article

L1 retrotransposition is a common feature of mammalian hepatocarcinogenesis

Schauer, Stephanie N., Carreira, Patricia E., Shukla, Ruchi, Gerhardt, Daniel J., Gerdes, Patricia, Sanchez-Luque, Francisco J., Nicoli, Paola, Kindlova, Michaela, Ghisletti, Serena, Santos, Alexandre Dos, Rapoud, Delphine, Samuel, Didier, Faivre, Jamila, Ewing, Adam D., Richardson, Sandra R. and Faulkner, Geoffrey J. (2018). L1 retrotransposition is a common feature of mammalian hepatocarcinogenesis. Genome Research, 28 (5), 639-653. doi: 10.1101/gr.226993.117

L1 retrotransposition is a common feature of mammalian hepatocarcinogenesis

2018

Journal Article

Shared activity patterns arising at genetic susceptibility loci reveal underlying genomic and cellular architecture of human disease

Baillie, J. Kenneth, Bretherick, Andrew, Haley, Christopher S., Clohisey, Sara, Gray, Alan, Neyton, Lucile P. A., Barrett, Jeffrey, Stahl, Eli A., Tenesa, Albert, Andersson, Robin, Brown, J. Ben, Faulkner, Geoffrey J., Lizio, Marina, Schaefer, Ulf, Daub, Carsten, Itoh, Masayoshi, Kondo, Naoto, Lassmann, Timo, Kawai, Jun, IIBDGC Consortium, Mole, Damian, Bajic, Vladimir B., Heutink, Peter, Rehli, Michael, Kawaji, Hideya, Sandelin, Albin, Suzuki, Harukazu, Satsangi, Jack, Wells, Christine A. ... Hume, David A. (2018). Shared activity patterns arising at genetic susceptibility loci reveal underlying genomic and cellular architecture of human disease. PL o S Computational Biology, 14 (3) e1005934, e1005934. doi: 10.1371/journal.pcbi.1005934

Shared activity patterns arising at genetic susceptibility loci reveal underlying genomic and cellular architecture of human disease

2018

Journal Article

L1 retrotransposon heterogeneity in ovarian tumor cell evolution

Nguyen, Thu H. M., Carreira, Patricia E., Sanchez-Luque, Francisco J., Schauer, Stephanie N., Fagg, Allister C., Richardson, Sandra R., Davies, Claire M., Jesuadian, J. Samuel, Kempen, Marie-Jeanne H. C., Troskie, Robin-Lee, James, Cini, Beaven, Elizabeth A., Wallis, Tristan P., Coward, Jermaine I. G., Chetty, Naven P., Crandon, Alexander J., Venter, Deon J., Armes, Jane E., Perrin, Lewis C., Hooper, John D., Ewing, Adam D., Upton, Kyle R. and Faulkner, Geoffrey J. (2018). L1 retrotransposon heterogeneity in ovarian tumor cell evolution. Cell Reports, 23 (13), 3730-3740. doi: 10.1016/j.celrep.2018.05.090

L1 retrotransposon heterogeneity in ovarian tumor cell evolution

2017

Conference Publication

Reprogramming triggers mobilisation of endogenous retrotransposons in human induced pluripotent stem cells with genotoxic effects on host gene expression

Jung-Klawitter, S., Fuchs, N. V., Upton, K. R., Froemmrich, A., Miskey, C., Munoz-Lopez, M., Shukla, R., Wang, J., Sebe, A., Merkert, S., Bock, A., Held, U., Menzel, M., Gogol-Doering, A., Haase, A., Izsvak, Z., Ivics, Z., Martin, U., Garcia-Perez, J., Faulkner, G. J. and Schumann, G. G. (2017). Reprogramming triggers mobilisation of endogenous retrotransposons in human induced pluripotent stem cells with genotoxic effects on host gene expression. European-Society-of-Gene-and-Cell-Therapy (ESCGT) Congress, Berlin, Germany, 2017. New Rochelle, NY, United States: Mary Ann Liebert.

Reprogramming triggers mobilisation of endogenous retrotransposons in human induced pluripotent stem cells with genotoxic effects on host gene expression

2017

Journal Article

On the role of H3.3 in retroviral silencing

Wolf, Gernot, Rebollo, Rita, Karimi, Mohammad M., Ewing, Adam D., Kamada, Rui, Wu, Warren, Wu, Brenda, Bachu, Mahesh, Ozato, Keiko, Faulkner, Geoffrey J., Mager, Dixie L., Lorincz, Matthew C. and Macfarlan, Todd S. (2017). On the role of H3.3 in retroviral silencing. Nature, 548 (7665), E1-E6. doi: 10.1038/nature23277

On the role of H3.3 in retroviral silencing

2017

Journal Article

FANTOM5 CAGE profiles of human and mouse samples

Noguchi, Shuhei, Arakawa, Takahiro, Fukuda, Shiro, Furuno, Masaaki, Hasegawa, Akira, Hori, Fumi, Ishikawa-Kato, Sachi, Kaida, Kaoru, Kaiho, Ai, Kanamori-Katayama, Mutsumi, Kawashima, Tsugumi, Kojima, Miki, Kubosaki, Atsutaka, Manabe, Ri-ichiroh, Murata, Mitsuyoshi, Nagao-Sato, Sayaka, Nakazato, Kenichi, Ninomiya, Noriko, Nishiyori-Sueki, Hiromi, Noma, Shohei, Saijyo, Eri, Saka, Akiko, Sakai, Mizuho, Simon, Christophe, Suzuki, Naoko, Tagami, Michihira, Watanabe, Shoko, Yoshida, Shigehiro, Arner, Peter ... Hayashizaki, Yoshihide (2017). FANTOM5 CAGE profiles of human and mouse samples. Scientific Data, 4 (1) 170112, 170112. doi: 10.1038/sdata.2017.112

FANTOM5 CAGE profiles of human and mouse samples

Featured

2017

Journal Article

Heritable L1 retrotransposition in the mouse primordial germline and early embryo

Richardson, Sandra R., Gerdes, Patricia, Gerhardt, Daniel J., Sanchez-Luque, Francisco J., Bodea, Gabriela-Oana, Muñoz-Lopez, Martin, Jesuadian, J. Samuel, Kempen, Marie-Jeanne H. C., Carreira, Patricia E., Jeddeloh, Jeffrey A., Garcia-Perez, Jose L., Kazazian Jr., Haig H., Ewing, Adam D. and Faulkner, Geoffrey J. (2017). Heritable L1 retrotransposition in the mouse primordial germline and early embryo. Genome Research, 27 (8), 1395-1405. doi: 10.1101/gr.219022.116

Heritable L1 retrotransposition in the mouse primordial germline and early embryo

2017

Journal Article

Mutual epithelium-macrophage dependency in liver carcinogenesis mediated by ST18

Rava, M., D'Andrea, A., Doni, M., Kress, T. R., Ostuni, R., Bianchi, V., Morelli, M. J., Collino, A., Ghisletti, S., Nicoli, P., Recordati, C., Iascone, M., Sonzogni, A., D'Antiga, L., Shukla, R., Faulkner, G. J., Natoli, G., Campaner, S. and Amati, B. (2017). Mutual epithelium-macrophage dependency in liver carcinogenesis mediated by ST18. Hepatology, 65 (5), 1708-1719. doi: 10.1002/hep.28942

Mutual epithelium-macrophage dependency in liver carcinogenesis mediated by ST18

2017

Journal Article

Analysis of the human monocyte-derived macrophage transcriptome and response to lipopolysaccharide provides new insights into genetic aetiology of inflammatory bowel disease

Baillie, J. Kenneth, Arner, Erik, Daub, Carsten, De Hoon, Michiel, Itoh, Masayoshi, Kawaji, Hideya, Lassmann, Timo, Carninci, Piero, Forrest, Alistair R. R., Hayashizaki, Yoshihide, Faulkner, Geoffrey J., Wells, Christine A., Rehli, Michael, Pavli, Paul, Summers, Kim M., Hume, David A. and FANTOM Consortium (2017). Analysis of the human monocyte-derived macrophage transcriptome and response to lipopolysaccharide provides new insights into genetic aetiology of inflammatory bowel disease. PLoS Genetics, 13 (3) e1006641, 1-36. doi: 10.1371/journal.pgen.1006641

Analysis of the human monocyte-derived macrophage transcriptome and response to lipopolysaccharide provides new insights into genetic aetiology of inflammatory bowel disease

2017

Book Chapter

Neuronal genome plasticity: retrotransposons, environment and disease

Kempen, Marie-Jeanne H. C., Bodea, Gabriela O. and Faulkner, Geoffrey J. (2017). Neuronal genome plasticity: retrotransposons, environment and disease. Human retrotransposons in health and disease. (pp. 107-125) edited by Gael Cristofari. Cham, Switzerland: Springer. doi: 10.1007/978-3-319-48344-3_5

Neuronal genome plasticity: retrotransposons, environment and disease

2017

Journal Article

L1 mosaicism in mammals: extent, effects, and evolution

Faulkner, Geoffrey J. and Garcia-Perez, Jose L. (2017). L1 mosaicism in mammals: extent, effects, and evolution. Trends in Genetics, 33 (11), 802-816. doi: 10.1016/j.tig.2017.07.004

L1 mosaicism in mammals: extent, effects, and evolution

2017

Book Chapter

Analysis of somatic LINE-1 insertions in neurons

Sanchez-Luque, Francisco J., Richardson, Sandra R. and Faulkner, Geoffrey J. (2017). Analysis of somatic LINE-1 insertions in neurons. Genomic mosaicism in neurons and other cell types. (pp. 219-251) edited by José María Frade and Fred H. Gage. New York, United States: Humana Press. doi: 10.1007/978-1-4939-7280-7_12

Analysis of somatic LINE-1 insertions in neurons