Update of the FANTOM web resource: high resolution transcriptome of diverse cell types in mammals

Marina Lizio; Jayson Harshbarger; Imad Abugessaisa; Shuei Noguchi; Atsushi Kondo; Jessica Severin; Chris Mungall; David Arenillas; Anthony Mathelier; Yulia A. Medvedeva; Andreas Lennartsson; Finn Drabløs; Jordan A. Ramilowski; Owen Rackham; Julian Gough; Robin Andersson; Albin Gustav Sandelin; Hans-Ioan Ienasescu; Hiromasa Ono; Hidemasa Bono; Yoshihide Hayashizaki; Piero Carninci; Alistair R. R. Forrest; Takeya Kasukawa; Hideya Kawaji

doi:10.1093/nar/gkw995

Update of the FANTOM web resource: high resolution transcriptome of diverse cell types in mammals

Marina Lizio, Jayson Harshbarger, Imad Abugessaisa, Shuei Noguchi, Atsushi Kondo, Jessica Severin, Chris Mungall, David Arenillas, Anthony Mathelier, Yulia A. Medvedeva, Andreas Lennartsson, Finn Drabløs, Jordan A. Ramilowski, Owen Rackham, Julian Gough, Robin Andersson, Albin Gustav Sandelin, Hans-Ioan Ienasescu, Hiromasa Ono, Hidemasa BonoYoshihide Hayashizaki, Piero Carninci, Alistair R. R. Forrest, Takeya Kasukawa, Hideya Kawaji

Computational and RNA Biology

57 Citations (Scopus)

75 Downloads (Pure)

Abstract

Upon the first publication of the fifth iteration of the Functional Annotation of Mammalian Genomes collaborative project, FANTOM5, we gathered a series of primary data and database systems into the FANTOM web resource (http://fantom.gsc.riken.jp) to facilitate researchers to explore transcriptional regulation and cellular states. In the course of the collaboration, primary data and analysis results have been expanded, and functionalities of the database systems enhanced. We believe that our data and web systems are invaluable resources, and we think the scientific community will benefit for this recent update to deepen their understanding of mammalian cellular organization. We introduce the contents of FANTOM5 here, report recent updates in the web resource and provide future perspectives.

Original language	English
Journal	Nucleic Acids Research
Volume	45
Issue number	D1
Pages (from-to)	D737-D743
Number of pages	7
ISSN	0305-1048
DOIs	https://doi.org/10.1093/nar/gkw995
Publication status	Published - 1 Jan 2017

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Lizio, M., Harshbarger, J., Abugessaisa, I., Noguchi, S., Kondo, A., Severin, J., Mungall, C., Arenillas, D., Mathelier, A., Medvedeva, Y. A., Lennartsson, A., Drabløs, F., Ramilowski, J. A., Rackham, O., Gough, J., Andersson, R., Sandelin, A. G., Ienasescu, H.-I., Ono, H., ... Kawaji, H. (2017). Update of the FANTOM web resource: high resolution transcriptome of diverse cell types in mammals. Nucleic Acids Research, 45(D1), D737-D743. https://doi.org/10.1093/nar/gkw995

Lizio, M, Harshbarger, J, Abugessaisa, I, Noguchi, S, Kondo, A, Severin, J, Mungall, C, Arenillas, D, Mathelier, A, Medvedeva, YA, Lennartsson, A, Drabløs, F, Ramilowski, JA, Rackham, O, Gough, J, Andersson, R , Sandelin, AG, Ienasescu, H-I, Ono, H, Bono, H, Hayashizaki, Y, Carninci, P, Forrest, ARR, Kasukawa, T & Kawaji, H 2017, 'Update of the FANTOM web resource: high resolution transcriptome of diverse cell types in mammals', Nucleic Acids Research, vol. 45, no. D1, pp. D737-D743. https://doi.org/10.1093/nar/gkw995

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title = "Update of the FANTOM web resource: high resolution transcriptome of diverse cell types in mammals",

abstract = "Upon the first publication of the fifth iteration of the Functional Annotation of Mammalian Genomes collaborative project, FANTOM5, we gathered a series of primary data and database systems into the FANTOM web resource (http://fantom.gsc.riken.jp) to facilitate researchers to explore transcriptional regulation and cellular states. In the course of the collaboration, primary data and analysis results have been expanded, and functionalities of the database systems enhanced. We believe that our data and web systems are invaluable resources, and we think the scientific community will benefit for this recent update to deepen their understanding of mammalian cellular organization. We introduce the contents of FANTOM5 here, report recent updates in the web resource and provide future perspectives.",

author = "Marina Lizio and Jayson Harshbarger and Imad Abugessaisa and Shuei Noguchi and Atsushi Kondo and Jessica Severin and Chris Mungall and David Arenillas and Anthony Mathelier and Medvedeva, {Yulia A.} and Andreas Lennartsson and Finn Drabl{\o}s and Ramilowski, {Jordan A.} and Owen Rackham and Julian Gough and Robin Andersson and Sandelin, {Albin Gustav} and Hans-Ioan Ienasescu and Hiromasa Ono and Hidemasa Bono and Yoshihide Hayashizaki and Piero Carninci and Forrest, {Alistair R. R.} and Takeya Kasukawa and Hideya Kawaji",

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T2 - high resolution transcriptome of diverse cell types in mammals

AU - Lizio, Marina

AU - Harshbarger, Jayson

AU - Abugessaisa, Imad

AU - Noguchi, Shuei

AU - Kondo, Atsushi

AU - Severin, Jessica

AU - Mungall, Chris

AU - Arenillas, David

AU - Mathelier, Anthony

AU - Medvedeva, Yulia A.

AU - Lennartsson, Andreas

AU - Drabløs, Finn

AU - Ramilowski, Jordan A.

AU - Rackham, Owen

AU - Gough, Julian

AU - Andersson, Robin

AU - Sandelin, Albin Gustav

AU - Ienasescu, Hans-Ioan

AU - Ono, Hiromasa

AU - Bono, Hidemasa

AU - Hayashizaki, Yoshihide

AU - Carninci, Piero

AU - Forrest, Alistair R. R.

AU - Kasukawa, Takeya

AU - Kawaji, Hideya

PY - 2017/1/1

Y1 - 2017/1/1

N2 - Upon the first publication of the fifth iteration of the Functional Annotation of Mammalian Genomes collaborative project, FANTOM5, we gathered a series of primary data and database systems into the FANTOM web resource (http://fantom.gsc.riken.jp) to facilitate researchers to explore transcriptional regulation and cellular states. In the course of the collaboration, primary data and analysis results have been expanded, and functionalities of the database systems enhanced. We believe that our data and web systems are invaluable resources, and we think the scientific community will benefit for this recent update to deepen their understanding of mammalian cellular organization. We introduce the contents of FANTOM5 here, report recent updates in the web resource and provide future perspectives.

AB - Upon the first publication of the fifth iteration of the Functional Annotation of Mammalian Genomes collaborative project, FANTOM5, we gathered a series of primary data and database systems into the FANTOM web resource (http://fantom.gsc.riken.jp) to facilitate researchers to explore transcriptional regulation and cellular states. In the course of the collaboration, primary data and analysis results have been expanded, and functionalities of the database systems enhanced. We believe that our data and web systems are invaluable resources, and we think the scientific community will benefit for this recent update to deepen their understanding of mammalian cellular organization. We introduce the contents of FANTOM5 here, report recent updates in the web resource and provide future perspectives.

U2 - 10.1093/nar/gkw995

DO - 10.1093/nar/gkw995

M3 - Journal article

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SP - D737-D743

JO - Nucleic Acids Research

JF - Nucleic Acids Research

IS - D1

ER -

Update of the FANTOM web resource: high resolution transcriptome of diverse cell types in mammals

Abstract

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