Time-courses main paper plan
This draft plan will be continuously updated based on ongoing the discussions.
Resources for the time-courses main paper and for the satellite papers
Page containing links to data, gene lists, etc. that can directly be used for main paper analysis as well as for the individual time-course satellites.
Time-courses_resources
Time-courses Satellite papers
Time-courses_Satellite_papers
Please list up the satellite papers you are working on or you are planning.
Time-courses Analysis Call
Time-courses_analysis_call
Time-courses Analysis overview and description
Overview and description of the analyses applied consistently to all (or certain classes of) time-courses.
Time-courses_analysis_overview
Gene lists for the time-course analysis
Lists of known genes related to certain functions, for example TF gene list, receptor gene list, etc.
Time-courses_gene_class_list
Time-courses Meeting October 2012
Time-courses_meeting_October_2012
Overview of the time courses in FANTOM5
This status will be updated periodically. For time course collaborators. Please follow the link to your time course and edit as necessary.
Please update all the sample pages below according to the template criteria given under Time-courses_sample_description_template.
| Timecourse
|
status
|
number of samples
|
number completed
|
species
|
collaborator
|
| IN_VITRO DIFFERENTIATION SERIES
|
|
|
|
|
|
|
Saos-2 calcification
|
COMPLETED
|
54
|
54
|
Human
|
Kim Summers
|
|
Primary macrophage response to LPS
|
COMPLETED (3 reps)
|
77
|
77
|
Human
|
David Hume, Kenneth Baillie, Geoff Faulkner
|
|
Primary lymphatic endothelial cells response to vascular endothelial growth factor C (VEGFC)
|
COMPLETED
|
48
|
48
|
Human
|
Michael Detmar, Sarah Krampitz
|
|
K562, hemin induced erythocytic differentiation
|
COMPLETED
|
54
|
54
|
Human
|
Peter Klinken, Louise Winteringham
|
|
Mesenchymal stem cell differentiation to adipocyte
|
COMPLETED
|
48
|
48
|
Mouse
|
Yasushi Okazaki, Yutaka Nakachi
|
|
Mesenchymal stem cell differentiation to osteocyte
|
COMPLETED
|
45
|
45
|
Mouse
|
Yasushi Okazaki, Yutaka Nakachi
|
|
MCF7 response to epidermal growth factor (EGF)
|
COMPLETED
|
48
|
48
|
Human
|
Mariko Okada(Hatakeyama)
|
|
MCF7 response to heregulin (HRG)
|
COMPLETED
|
45
|
45
|
Human
|
Mariko Okada(Hatakeyama)
|
|
J2E, eryrthopoietin induced erythrocytic differentiation
|
COMPLETED
|
48
|
48
|
Mouse
|
Peter Klinken, Louise Winteringham
|
|
EBF knockout model of T-cell differentiation
|
COMPLETED
|
48
|
48
|
Mouse
|
Hiroshi Kawamoto, Tomokatsu Ikawa
|
|
Embryonic stem cells differentiated to melanocytes
|
COMPLETED
|
48
|
48
|
Human
|
Meenhard Herlyn, Rolf Swoboda
|
|
Primary macrophage response to Udorn strain Influenza virus
|
IN PROGRESS
|
24
|
16
|
Human
|
David Hume, Kenneth Baillie, Geoff Faulkner
|
|
Primary preadipocyte to adipocyte differentiation
|
COMPLETED
|
12
|
12
|
Human
|
Peter Arner, Niklas Mejhert, Erik Arner
|
|
Trophoblast stem cell differentiation to trophoblasts
|
COMPLETED
|
21
|
21
|
Mouse
|
Haruhiko Koseki, Mitsuhiro Endoh
|
|
Embryonic stem cells differentiation to cardiomyocyte
|
COMPLETED
|
39
|
39
|
Human
|
Christine Mummery, Robert Passier
|
|
Primary lung epithelial progenitors differentiation towards ciliated epithelial cells
|
COMPLETED
|
54
|
54
|
Mouse
|
Mitsuru Morimoto
|
|
Mesenchymal stem cells differentiation to adipocytes
|
COMPLETED
|
54
|
54
|
Human
|
Peter Arner, Niklas Mejhert, Erik Arner
|
|
Primary aortic smooth muscle cells response to fibroblast growth factor 2 (FGF2)
|
COMPLETED
|
30
|
30
|
Human
|
Levon Khachigian
|
|
Primary aortic smooth muscle cells response to interleukin 1 beta (IL1b)
|
COMPLETED
|
30
|
30
|
Human
|
Levon Khachigian
|
|
iPS differentiation to neuron
|
COMPLETED
|
48
|
48
|
Human
|
Christine Wells
|
|
Primary myoblast differentiation to myotube
|
COMPLETED
|
54
|
54
|
Human
|
Valerio Orlando, Beatrice Bodega
|
|
Embryonic stem cell differentiation to CD34+ hematopoietic stem cells
|
COMPLETED
|
9
|
9
|
Human
|
Kim Summers
|
|
ARPE-19 retinal pigment epithelial cell line, epithelial to mesenchyme transition
|
COMPLETED
|
63
|
62
|
Human
|
Soichi Ogishima
|
|
Rinderpest series
|
COMPLETED
|
39
|
39
|
Human
|
Chieko Kai
|
|
Bone marrow derived macrophage TB infection
|
COMPLETED
|
219
|
219
|
Mouse
|
Harukazu Suzuki, Sugata Roy, Brombacher Frank, Reto Guler
|
|
ES series
|
COMPLETED
|
41
|
41
|
Mouse
|
Ana Pombo
|
| DEVELOPMENTAL TISSUE SERIES
|
|
|
|
|
|
|
Visual cortex development
|
COMPLETED
|
18
|
18
|
Mouse
|
Michela Fagiolini, Alka Saxena
|
|
Cerebellum development
|
COMPLETED
|
36
|
36
|
Mouse
|
Daniel Goldowitz, Thomas Ha, Peter Zhang
|
|
Chick embryonic development
|
COMPLETED
|
26
|
26
|
Chicken
|
Guojun Sheng
|
|
Early hematopoiesis
|
COMPLETED
|
12
|
12
|
Mouse
|
Daisuke Sugiyama
|
|
Liver Regeneration
|
COMPLETED
|
41
|
45
|
mouse
|
Soichi Kojima
|
Small RNA sequencing for time-courses [all finished]
| Time-course
|
Species
|
samples total
|
time points
|
collaborator
|
| J2E plus erythropoietin
|
mouse
|
15
|
0h ,6h, 12h, 24h, 48h
|
Peter Klinken
|
| Cerebellum development
|
mouse
|
12
|
E12, E15, E18 and P9
|
Dan Goldowitz
|
| Saos-2 calcification
|
human
|
15
|
0, 60m, 24h, 4d, 28d
|
Kim Summers
|
| Primary lymphatic endothelial cells response to vascular endothelial growth factor C (VEGFC)
|
human
|
15
|
0min, 1h, 2h, 4h and 8h
|
Michael Detmar
|
| Mesenchymal stem cells differentiation to adipocytes
|
human
|
21
|
0h, 3h, 12h, 2d, 4d, 8d, 12d
|
Peter Arner
|
| MCF7 breast cancer cell line response to HRG
|
human
|
27
|
0, 15m, 30m, 45m, 1h, 1h20m, 1h40m, 4h, 8h
|
Mariko Okada
|
