 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Jun 23, 2019 |
| Title |
Differential gene expression analysis of MYCN-amplified neuroblastoma cells after Doxycycline inducible shRNA knockdown of JMJD6 gene expression |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by array
|
| Summary |
JMJD6 oncoprotein induces neuroblastoma and exerts its biological effects through modulation of downstream target genes.
We identified that JMJD6 knockdown reduces neuroblastoma cell proliferation, so we investigated which downstream signaling pathways were regulated by JMJD6.
|
| |
|
| Overall design |
We performed Affymetrix Clariom S microarray experiments in stable Doxycycline inducible Control shRNA, and 2 independent JMJD6 shRNA CHP134 neuroblastoma cells after Doxycyline treatment for 40 hours. The Control shRNA, JMJD6 shRNA-1 (repeats A, B, C and D) and JMJD6 shRNA-2 samples (repeats A, B, E and F)were run four times. Differential expression analysis (DOXJ2 - NTJ2)-(DOXscr - NTscr) was done for each independent JMJD6 shRNA. The following are identical CEL file pairs: CHP_NT_shSCR_A_(Clariom_S_Human).CEL and CHP_NT_shSCR_A_dup(Clariom_S_Human).CEL, CHP_DOX_shSCR_A_(Clariom_S_Human).CEL and CHP_DOX_shSCR_A_dup(Clariom_S_Human).CEL, CHP_NT_shSCR_B_(Clariom_S_Human).CEL and CHP_NT_shSCR_B_dup(Clariom_S_Human).CEL, CHP_DOX_shSCR_B_(Clariom_S_Human).CEL and CHP_DOX_shSCR_B_dup(Clariom_S_Human).CEL. Affymetrix Clariom S microarray experiments were also performed in stable Doxycycline inducible Control shRNA, and JMJD6 shRNA-2 SKNAS neuroblastoma cells after Doxycyline treatment for 40 hours.
|
| |
|
| Contributor(s) |
Liu T, Wong M, Ho N, Mayoh C |
| Citation(s) |
31346162 |
| Submission date |
Apr 10, 2018 |
| Last update date |
Sep 23, 2019 |
| Contact name |
matthew kwok kei wong |
| E-mail(s) |
MWong@ccia.org.au
|
| Organization name |
Children's Cancer Institute
|
| Department |
histone modification group
|
| Street address |
Lowy cancer centre, University of New South Wales
|
| City |
Sydney |
| State/province |
New South Wales |
| ZIP/Postal code |
2031 |
| Country |
Australia |
| |
|
| Platforms (1) |
| GPL23159 |
[Clariom_S_Human] Affymetrix Clariom S Assay, Human (Includes Pico Assay) |
|
| Samples (44)
|
| GSM3717582 |
CHP134 SCR Control shRNA, vehicle control, repeat A |
| GSM3717583 |
CHP134 JMJD6 shRNA-2, vehicle control, repeat A |
| GSM3717584 |
CHP134 SCR Control shRNA, doxycycline, repeat A |
| GSM3717585 |
CHP134 JMJD6 shRNA-2 doxycycline, repeat A |
| GSM3717586 |
CHP134 SCR Control shRNA, vehicle control, repeat B |
| GSM3717587 |
CHP134 JMJD6 shRNA-2, vehicle control, repeat B |
| GSM3717588 |
CHP134 SCR Control shRNA, doxycycline, repeat B |
| GSM3717589 |
CHP134 JMJD6 shRNA-2 doxycycline, repeat B |
| GSM3717590 |
CHP134 SCR Control shRNA, vehicle control, repeat C |
| GSM3717591 |
CHP134 SCR Control shRNA, doxycycline, repeat C |
| GSM3717592 |
CHP134 JMJD6 shRNA-2, vehicle control, repeat C |
| GSM3717593 |
CHP134 JMJD6 shRNA-2 doxycycline, repeat C |
| GSM3717594 |
CHP134 SCR Control shRNA, vehicle control, repeat D |
| GSM3717595 |
CHP134 SCR Control shRNA, doxycycline, repeat D |
| GSM3717596 |
CHP134 JMJD6 shRNA-2, vehicle control, repeat D |
| GSM3717597 |
CHP134 JMJD6 shRNA-2 doxycycline, repeat D |
| GSM3717598 |
CHP134 SCR Control shRNA, vehicle control, repeat A duplicate |
| GSM3717599 |
CHP134 JMJD6 shRNA-1, vehicle control, repeat A |
| GSM3717600 |
CHP134 SCR Control shRNA, doxycycline, repeat A duplicate |
| GSM3717601 |
CHP134 JMJD6 shRNA-1, doxycycline, repeat A |
| GSM3717602 |
CHP134 SCR Control shRNA, vehicle control, repeat B duplicate |
| GSM3717603 |
CHP134 JMJD6 shRNA-1, vehicle control, repeat B |
| GSM3717604 |
CHP134 SCR Control shRNA, doxycycline, repeat B duplicate |
| GSM3717605 |
CHP134 JMJD6 shRNA-1, doxycycline, repeat B |
| GSM3717606 |
CHP134 SCR Control shRNA, vehicle control, repeat E |
| GSM3717607 |
CHP134 JMJD6 shRNA-1, vehicle control, repeat E |
| GSM3717608 |
CHP134 SCR Control shRNA, doxycycline, repeat E |
| GSM3717609 |
CHP134 JMJD6 shRNA-1, doxycycline, repeat E |
| GSM3717610 |
CHP134 SCR Control shRNA, vehicle control, repeat F |
| GSM3717611 |
CHP134 JMJD6 shRNA-1, vehicle control, repeat F |
| GSM3717612 |
CHP134 SCR Control shRNA, doxycycline, repeat F |
| GSM3717613 |
CHP134 JMJD6 shRNA-1, doxycycline, repeat F |
| GSM3717614 |
SKNAS SCR Control shRNA, vehicle control |
| GSM3717615 |
SKNAS SCR Control shRNA, doxycycline |
| GSM3717616 |
SKNAS JMJD6 shRNA-2, vehicle control |
| GSM3717617 |
SKNAS JMJD6 shRNA-2, doxycycline |
| GSM3717618 |
SKNAS SCR Control shRNA, vehicle control, repeat B |
| GSM3717619 |
SKNAS SCR Control shRNA, doxycycline, repeat B |
| GSM3717620 |
SKNAS JMJD6 shRNA-2, vehicle control, repeat B |
| GSM3717621 |
SKNAS JMJD6 shRNA-2, doxycycline, repeat B |
| GSM3717622 |
SKNAS SCR Control shRNA, vehicle control, repeat C |
| GSM3717623 |
SKNAS SCR Control shRNA, doxycycline, repeat C |
| GSM3717624 |
SKNAS JMJD6 shRNA-2, vehicle control, repeat C |
| GSM3717625 |
SKNAS JMJD6 shRNA-2, doxycycline, repeat C |
|
| Relations |
| BioProject |
PRJNA449495 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE112914_RAW.tar |
47.8 Mb |
(http)(custom) |
TAR (of CEL) |
| Processed data included within Sample table |
|
|
|
|
 |
Less...
More...