Deep transcriptome profiling of mammalian stem cells supports a regulatory role for retrotransposons in pluripotency maintenance

Research output: Contribution to journal › Journal article › Research › peer-review

Standard

Deep transcriptome profiling of mammalian stem cells supports a regulatory role for retrotransposons in pluripotency maintenance. / Fort, Alexandre; Hashimoto, Kosuke; Yamada, Daisuke; Salimullah, Md; Keya, Chaman A.; Saxena, Alka; Bonetti, Alessandro; Voineagu, Irina; Bertin, Nicolas; Kratz, Anton; Noro, Yukihiko; Wong, Chee-Hong; de Hoon, Michiel; Andersson, Robin; Sandelin, Albin Gustav; Suzuki, Harukazu; Wei, Chia-Lin; Koseki, Haruhiko; Hasegawa, Yuki; Forrest, Alistair R R; Carninci, Piero; FANTOM Consortium.

In: Nature Genetics, Vol. 46, No. 6, 2014, p. 558-566.

Research output: Contribution to journal › Journal article › Research › peer-review

Harvard

Fort, A, Hashimoto, K, Yamada, D, Salimullah, M, Keya, CA, Saxena, A, Bonetti, A, Voineagu, I, Bertin, N, Kratz, A, Noro, Y, Wong, C-H, de Hoon, M, Andersson, R, Sandelin, AG, Suzuki, H, Wei, C-L, Koseki, H, Hasegawa, Y, Forrest, ARR, Carninci, P & FANTOM Consortium 2014, 'Deep transcriptome profiling of mammalian stem cells supports a regulatory role for retrotransposons in pluripotency maintenance', Nature Genetics, vol. 46, no. 6, pp. 558-566. https://doi.org/10.1038/ng.2965

APA

Fort, A., Hashimoto, K., Yamada, D., Salimullah, M., Keya, C. A., Saxena, A., Bonetti, A., Voineagu, I., Bertin, N., Kratz, A., Noro, Y., Wong, C-H., de Hoon, M., Andersson, R., Sandelin, A. G., Suzuki, H., Wei, C-L., Koseki, H., Hasegawa, Y., ... FANTOM Consortium (2014). Deep transcriptome profiling of mammalian stem cells supports a regulatory role for retrotransposons in pluripotency maintenance. Nature Genetics, 46(6), 558-566. https://doi.org/10.1038/ng.2965

Vancouver

Fort A, Hashimoto K, Yamada D, Salimullah M, Keya CA, Saxena A et al. Deep transcriptome profiling of mammalian stem cells supports a regulatory role for retrotransposons in pluripotency maintenance. Nature Genetics. 2014;46(6):558-566. https://doi.org/10.1038/ng.2965

Author

Fort, Alexandre ; Hashimoto, Kosuke ; Yamada, Daisuke ; Salimullah, Md ; Keya, Chaman A. ; Saxena, Alka ; Bonetti, Alessandro ; Voineagu, Irina ; Bertin, Nicolas ; Kratz, Anton ; Noro, Yukihiko ; Wong, Chee-Hong ; de Hoon, Michiel ; Andersson, Robin ; Sandelin, Albin Gustav ; Suzuki, Harukazu ; Wei, Chia-Lin ; Koseki, Haruhiko ; Hasegawa, Yuki ; Forrest, Alistair R R ; Carninci, Piero ; FANTOM Consortium. / Deep transcriptome profiling of mammalian stem cells supports a regulatory role for retrotransposons in pluripotency maintenance. In: Nature Genetics. 2014 ; Vol. 46, No. 6. pp. 558-566.

Bibtex

@article{226c2f522ffb443e96fbc2371abea4c2,
title = "Deep transcriptome profiling of mammalian stem cells supports a regulatory role for retrotransposons in pluripotency maintenance",
abstract = "The importance of microRNAs and long noncoding RNAs in the regulation of pluripotency has been documented; however, the noncoding components of stem cell gene networks remain largely unknown. Here we investigate the role of noncoding RNAs in the pluripotent state, with particular emphasis on nuclear and retrotransposon-derived transcripts. We have performed deep profiling of the nuclear and cytoplasmic transcriptomes of human and mouse stem cells, identifying a class of previously undetected stem cell-specific transcripts. We show that long terminal repeat (LTR)-derived transcripts contribute extensively to the complexity of the stem cell nuclear transcriptome. Some LTR-derived transcripts are associated with enhancer regions and are likely to be involved in the maintenance of pluripotency.",
author = "Alexandre Fort and Kosuke Hashimoto and Daisuke Yamada and Md Salimullah and Keya, {Chaman A.} and Alka Saxena and Alessandro Bonetti and Irina Voineagu and Nicolas Bertin and Anton Kratz and Yukihiko Noro and Chee-Hong Wong and {de Hoon}, Michiel and Robin Andersson and Sandelin, {Albin Gustav} and Harukazu Suzuki and Chia-Lin Wei and Haruhiko Koseki and Yuki Hasegawa and Forrest, {Alistair R R} and Piero Carninci and {FANTOM Consortium}",
year = "2014",
doi = "10.1038/ng.2965",
language = "English",
volume = "46",
pages = "558--566",
journal = "Nature Genetics",
issn = "1061-4036",
publisher = "nature publishing group",
number = "6",

}

RIS

TY - JOUR

T1 - Deep transcriptome profiling of mammalian stem cells supports a regulatory role for retrotransposons in pluripotency maintenance

AU - Fort, Alexandre

AU - Hashimoto, Kosuke

AU - Yamada, Daisuke

AU - Salimullah, Md

AU - Keya, Chaman A.

AU - Saxena, Alka

AU - Bonetti, Alessandro

AU - Voineagu, Irina

AU - Bertin, Nicolas

AU - Kratz, Anton

AU - Noro, Yukihiko

AU - Wong, Chee-Hong

AU - de Hoon, Michiel

AU - Andersson, Robin

AU - Sandelin, Albin Gustav

AU - Suzuki, Harukazu

AU - Wei, Chia-Lin

AU - Koseki, Haruhiko

AU - Hasegawa, Yuki

AU - Forrest, Alistair R R

AU - Carninci, Piero

AU - FANTOM Consortium

PY - 2014

Y1 - 2014

N2 - The importance of microRNAs and long noncoding RNAs in the regulation of pluripotency has been documented; however, the noncoding components of stem cell gene networks remain largely unknown. Here we investigate the role of noncoding RNAs in the pluripotent state, with particular emphasis on nuclear and retrotransposon-derived transcripts. We have performed deep profiling of the nuclear and cytoplasmic transcriptomes of human and mouse stem cells, identifying a class of previously undetected stem cell-specific transcripts. We show that long terminal repeat (LTR)-derived transcripts contribute extensively to the complexity of the stem cell nuclear transcriptome. Some LTR-derived transcripts are associated with enhancer regions and are likely to be involved in the maintenance of pluripotency.

AB - The importance of microRNAs and long noncoding RNAs in the regulation of pluripotency has been documented; however, the noncoding components of stem cell gene networks remain largely unknown. Here we investigate the role of noncoding RNAs in the pluripotent state, with particular emphasis on nuclear and retrotransposon-derived transcripts. We have performed deep profiling of the nuclear and cytoplasmic transcriptomes of human and mouse stem cells, identifying a class of previously undetected stem cell-specific transcripts. We show that long terminal repeat (LTR)-derived transcripts contribute extensively to the complexity of the stem cell nuclear transcriptome. Some LTR-derived transcripts are associated with enhancer regions and are likely to be involved in the maintenance of pluripotency.

U2 - 10.1038/ng.2965

DO - 10.1038/ng.2965

M3 - Journal article

C2 - 24777452

VL - 46

SP - 558

EP - 566

JO - Nature Genetics

JF - Nature Genetics

SN - 1061-4036

IS - 6

ER -

ID: 113242201