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| Status |
Public on Apr 01, 2020 |
| Title |
Gene expression and exon splicing of two Ewing sarcoma cell lines (TC-32, RDES), transiently transfected with shControl or two different shRNA against SOX6 |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by array
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| Summary |
In this dataset, we include the gene expression and exon splicing variants of two Ewing sarcoma cell lines (RDES and TC-32) after knockdown of the transcription factor SOX6 in order to obtain differentially expressed genes and different exon splicing variants.
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| Overall design |
12 samples were normalised (log2) with Affymetrix Expression Console Software (v1.4) using SST-RMA algorithm. They were annotated on gene and exon level with the library for Clariom D Array (human).
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| Contributor(s) |
Marchetto A, Gerke JS, Grünewald TG |
| Citation(s) |
32415069 |
| Submission date |
Sep 27, 2018 |
| Last update date |
Jun 08, 2020 |
| Contact name |
Thomas Georg Philipp Grunewald |
| E-mail(s) |
t.gruenewald@kitz-heidelberg.de
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| Phone |
0049-6221-423718
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| Organization name |
German Cancer Research Center (DKFZ)
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| Department |
Division of Translational Pediatric Sarcoma Research
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| Street address |
Im Neuenheimer Feld 280
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| City |
Heidelberg |
| ZIP/Postal code |
69120 |
| Country |
Germany |
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| Platforms (2) |
| GPL23126 |
[Clariom_D_Human] Affymetrix Human Clariom D Assay [transcript (gene) version] |
| GPL24539 |
[Clariom_D_Human] Affymetrix Human Clariom D Assay [probe set (exon) version] |
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| Samples (24)
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| GSM3403602 |
TC-32_shControl_dox-, 1 biological Rep, 96h [gene] |
| GSM3403603 |
TC-32_shControl_dox+, 1 biological Rep,96h [gene] |
| GSM3403604 |
TC-32_shSOX6(2),dox-, 1 biological Rep, 96h [gene] |
| GSM3403605 |
TC-32_shSOX6(2), dox+, 1 biological Rep, 96h [gene] |
| GSM3403606 |
TC-32_shSOX6(3), dox-, 1 biological Rep, 96h [gene] |
| GSM3403607 |
TC-32_shSOX6(3), dox+, 1 biological Rep, 96h [gene] |
| GSM3403608 |
RDES_shControl_dox-, 1 biological Rep, 96h [gene] |
| GSM3403609 |
RDES_shControl_dox+, 1 biological Rep, 96h [gene] |
| GSM3403610 |
RDES_shSOX6(2), dox-, 1 biological Rep, 96h [gene] |
| GSM3403611 |
RDES_shSOX6(2), dox+, 1 biological Rep, 96h [gene] |
| GSM3403612 |
RDES_shSOX6(3), dox-, 1 biological Rep, 96h [gene] |
| GSM3403613 |
RDES_shSOX6(3), dox+, 1 biological Rep, 96h [gene] |
| GSM3403614 |
TC-32_shControl_dox-, 1 biological Rep, 96h [exon] |
| GSM3403615 |
TC-32_shControl_dox+, 1 biological Rep,96h [exon] |
| GSM3403616 |
TC-32_shSOX6(2),dox-, 1 biological Rep, 96h [exon] |
| GSM3403617 |
TC-32_shSOX6(2), dox+, 1 biological Rep, 96h [exon] |
| GSM3403618 |
TC-32_shSOX6(3), dox-, 1 biological Rep, 96h [exon] |
| GSM3403619 |
TC-32_shSOX6(3), dox+, 1 biological Rep, 96h [exon] |
| GSM3403620 |
RDES_shControl_dox-, 1 biological Rep, 96h [exon] |
| GSM3403621 |
RDES_shControl_dox+, 1 biological Rep, 96h [exon] |
| GSM3403622 |
RDES_shSOX6(2), dox-, 1 biological Rep, 96h [exon] |
| GSM3403623 |
RDES_shSOX6(2), dox+, 1 biological Rep, 96h [exon] |
| GSM3403624 |
RDES_shSOX6(3), dox-, 1 biological Rep, 96h [exon] |
| GSM3403625 |
RDES_shSOX6(3), dox+, 1 biological Rep, 96h [exon] |
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| Relations |
| BioProject |
PRJNA493629 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE120576_EW-17011-Matrix_exon-level.txt.gz |
44.8 Mb |
(ftp)(http) |
TXT |
| GSE120576_EW-17011-Matrix_gene-level.txt.gz |
3.3 Mb |
(ftp)(http) |
TXT |
| GSE120576_RAW.tar |
665.1 Mb |
(http)(custom) |
TAR (of CEL) |
| Processed data included within Sample table |
| Processed data are available on Series record |
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