Ciliated epithelium timecourse: Difference between revisions

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* [https://fantom5-collaboration.gsc.riken.jp/zenbu/gLyphs/#config=MkstAlWtKxKvzJHw6y4lEC Ciliated epithelium differentiation]
* [https://fantom5-collaboration.gsc.riken.jp/zenbu/gLyphs/#config=MkstAlWtKxKvzJHw6y4lEC Ciliated epithelium differentiation]


'''Gene expression profiles'''
'''Expression profiles'''
*Known gene expression for the Ciliated epithelium differentiation series
*Gene and CAGE cluster expression for the Ciliated epithelium differentiation series
**[https://fantom5-collaboration.gsc.riken.jp/webdav/home/m.lizio/20111008_expression_table_by_timecourse/mouse_Tracheal-epithelial-cells.hCAGE.mm9.tpm.refgene.osc.txt.gz TPM]
**https://fantom5-collaboration.gsc.riken.jp/webdav/home/arner/timecourse/time_course_main_paper_freeze_feb2013/qc_release_130226/mouse_Tracheal_epithelial_cells/expression_tables/
**[https://fantom5-collaboration.gsc.riken.jp/webdav/home/m.lizio/20111008_expression_table_by_timecourse/mouse_Tracheal-epithelial-cells.hCAGE.mm9.count.refgene.osc.txt.gz tag count]
*Promoterome v1.0 expression for the Ciliated epithelium differentiation series
*Top dynamic TFs in the Ciliated epithelium differentiation series
*Freeze1 cluster based RLE normalized expression
⚫
** https://fantom5-collaboration.gsc.riken.jp/webdav/home/m.lizio/20120612_cluster_expression_table_by_timecourse/mouse_Tracheal_epithelial_cells.hCAGE.mm9.RLE.tpm.cluster.txt.gz
** Cluster to gene association https://fantom5-collaboration.gsc.riken.jp/webdav/home/m.lizio/20120612_cluster_expression_table_by_timecourse/mouse_robust_cluster2entrez.txt

'''Motifs'''
*Top dynamic motifs in the Ciliated epithelium differentiation series


'''MARA based network results'''
'''MARA based network results'''
⚫
*https://fantom5-collaboration.gsc.riken.jp/webdav/home/arner/timecourse/time_course_main_paper_freeze_feb2013/qc_release_130226/mouse_Tracheal_epithelial_cells/mara/
*Most recent version (July 23 2012):
⚫
**https://fantom5-collaboration.gsc.riken.jp/webdav/home/arner/timecourse/release_120723/mouse_Tracheal_epithelial_cells/mouse_Tracheal_epithelial_cells.mara
**https://fantom5-collaboration.gsc.riken.jp/webdav/home/arner/timecourse/release_120723/mouse_Tracheal_epithelial_cells/mouse_Tracheal_epithelial_cells.net.tf_gene.csv
**https://fantom5-collaboration.gsc.riken.jp/webdav/home/arner/timecourse/release_120723/mouse_Tracheal_epithelial_cells/mouse_Tracheal_epithelial_cells.net.tf_prom.csv

*Previous version(s):
**https://fantom5-collaboration.gsc.riken.jp/webdav/home/arner/timecourse/release_120409/mouse_Tracheal_epithelial_cells/mouse_Tracheal_epithelial_cells.mara


'''Related samples'''
'''Related samples'''
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'''Quality control'''
'''Quality control'''


⚫
https://fantom5-collaboration.gsc.riken.jp/webdav/home/arner/timecourse/time_course_main_paper_freeze_feb2013/qc_release_130226/mouse_Tracheal_epithelial_cells/
Most recent version (July 23 2012):

https://fantom5-collaboration.gsc.riken.jp/webdav/home/arner/timecourse/release_120723/mouse_Tracheal_epithelial_cells/

Previous version(s):

https://fantom5-collaboration.gsc.riken.jp/webdav/home/arner/timecourse/release_120409/mouse_Tracheal_epithelial_cells/

[[File:Tracheal_epithelial_cells.zip‎]]


*..
*..

Revision as of 14:28, 27 February 2013

Mouse primary lunge epithelial cell differentiation to ciliated epithelial cells

Mitsuru Morimoto ...

Zenbu configurations and status

Expression profiles

MARA based network results

Related samples

  • ..

References

  • ..


Quality control

https://fantom5-collaboration.gsc.riken.jp/webdav/home/arner/timecourse/time_course_main_paper_freeze_feb2013/qc_release_130226/mouse_Tracheal_epithelial_cells/

  • ..

ISMARA analysis results

All samples: http://ismara.unibas.ch/timecourses/Ciliatedepdiff/ismara_report/

Replicate averaged: http://ismara.unibas.ch/timecourses/ciliated-avgd/averaged_report/index.html

For more information, see ISMARA.

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