|
| Status |
Public on Jan 17, 2020 |
| Title |
Ascl2-dependent cell differentiation drives regeneration of abated intestinal stem cells |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
Functions of Ascl2 in colonic stem cell maintenance and regeneration. We used RNA-sequencing to profile gene expression in regenerating crypt cells and Ascl2-deficient colonic stem cells, and ASCL2 ChIP-seq to identify transcriptional target genes.
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| |
|
| Overall design |
RNA-seq and ASCL2 ChIP-seq analyses of isolated mouse colonic stem cells. RNA-seq analyses of Ascl2-deficient mouse colonic stem cells. Single Cell RNA-seq analysis of regenerating colonic crypt cells. Transcript dynamics of colonic epithelial development.
|
| |
|
| Contributor(s) |
Murata K, Jadhav U, Madha S, van Es J, Dean J, Cavazza A, Wucherpfennig K, Michor F, Clevers H, Shivdasani RA |
| Citation(s) |
32084390 |
| |
| Submission date |
May 07, 2019 |
| Last update date |
Feb 28, 2020 |
| Contact name |
Ramesh Shivdasani |
| E-mail(s) |
ramesh_shivdasani@dfci.harvard.edu
|
| Organization name |
Dana Farber Cancer Institute
|
| Department |
Medical Oncology
|
| Lab |
Shivdasani
|
| Street address |
450 Brookline Ave. Dana 720D
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02215 |
| Country |
USA |
| |
|
| Platforms (2) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
| GPL21103 |
Illumina HiSeq 4000 (Mus musculus) |
|
| Samples (19)
|
| GSM3754761 |
Regenerating Cell RNA-seq replicate1 |
| GSM3754762 |
Regenerating Cell RNA-seq replicate2 |
| GSM3754763 |
Ascl2 KO Colon Stem Cell RNA-seq replicate1 |
| GSM3754764 |
Ascl2 KO Colon Stem Cell RNA-seq replicate2 |
| GSM3754769 |
WT mCh+ Colon Stem Cell FLAG-Ascl2 ChIP-seq |
| GSM3754770 |
Regenerating Cell FLAG-Ascl2 ChIP-seq |
| GSM3754771 |
WT mCh- Colon Stem Cell FLAG-Ascl2 ChIP-seq |
| GSM4151061 |
E11 Hindgut RNA Biological Replicate 1 |
| GSM4151062 |
E11 Hindgut RNA Biological Replicate 2 |
| GSM4151063 |
E12 Hindgut RNA Biological Replicate 1 |
| GSM4151064 |
E12 Hindgut RNA Biological Replicate 2 |
| GSM4151065 |
E14 Hindgut RNA Biological Replicate 1 |
| GSM4151066 |
E14 Hindgut RNA Biological Replicate 2 |
| GSM4151067 |
E16 Hindgut RNA Biological Replicate 1 |
| GSM4151068 |
E16 Hindgut RNA Biological Replicate 2 |
| GSM4151069 |
Regenerating Colon Cells (Day 8) Single Cell RNA-seq |
|
| Relations |
| BioProject |
PRJNA541521 |
| SRA |
SRP195807 |
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