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About the Authors:
J. Kenneth Baillie
Affiliation: The Roslin Institute and Royal (Dick) School of Veterinary Studies, University of Edinburgh, Easter Bush, Midlothian, United Kingdom
ORCID http://orcid.org/0000-0001-5258-793X
Erik Arner
Affiliation: RIKEN Omics Science Center (OSC), 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Japan
Carsten Daub
Affiliation: RIKEN Omics Science Center (OSC), 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Japan
ORCID http://orcid.org/0000-0002-3295-8729
Michiel De Hoon
Affiliation: RIKEN Omics Science Center (OSC), 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Japan
Masayoshi Itoh
Affiliation: RIKEN Omics Science Center (OSC), 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Japan
ORCID http://orcid.org/0000-0002-1772-318X
Hideya Kawaji
Affiliation: RIKEN Omics Science Center (OSC), 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Japan
ORCID http://orcid.org/0000-0002-0575-0308
Timo Lassmann
Affiliation: RIKEN Omics Science Center (OSC), 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Japan
ORCID http://orcid.org/0000-0002-0138-2691
Piero Carninci
Affiliation: RIKEN Omics Science Center (OSC), 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Japan
Alistair R. R. Forrest
Affiliation: RIKEN Omics Science Center (OSC), 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Japan
ORCID http://orcid.org/0000-0003-4543-1675
Yoshihide Hayashizaki
Affiliation: RIKEN Omics Science Center (OSC), 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Japan
FANTOM Consortium
¶Members of the FANTOM Consortium are listed inS7 Table
Geoffrey J. Faulkner
Affiliation: The Roslin Institute and Royal (Dick) School of Veterinary Studies, University of Edinburgh, Easter Bush, Midlothian, United Kingdom
Christine A. Wells
Affiliation: Australian Institute for Bioengineering and Nanotechnology (AIBN), University of Queensland, Brisbane St Lucia, Queensland, Australia
Michael Rehli
Affiliation: Department of Internal Medicine III, University Hospital Regensburg, F.-J.-Strauss Allee 11, Regensburg, Germany
ORCID http://orcid.org/0000-0003-3992-932X
Paul Pavli
Affiliation: Medical School, Australian National University, Canberra, ACT, Australia
Kim M. Summers
Affiliation: The Roslin Institute and Royal (Dick) School of Veterinary Studies, University of Edinburgh, Easter Bush, Midlothian, United Kingdom
David A. Hume
* E-mail: [email protected]
Affiliation: The Roslin Institute and Royal (Dick) School of Veterinary Studies, University of Edinburgh, Easter Bush, Midlothian, United KingdomAbstract
The FANTOM5 consortium utilised cap analysis of gene expression (CAGE) to provide an unprecedented insight into transcriptional regulation in human cells and tissues. In the current study, we have used CAGE-based transcriptional profiling on an extended dense time course of the response of human monocyte-derived macrophages grown in macrophage colony-stimulating factor (CSF1) to bacterial lipopolysaccharide (LPS). We propose that this system provides a model for the differentiation and adaptation of monocytes entering the intestinal lamina propria. The response to LPS is shown to be a cascade of successive waves of...