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Status |
Public on Jan 26, 2022 |
Title |
BM cells with RPMI, replicate 1 |
Sample type |
RNA |
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Source name |
BM cells cultured for 4h with RPMI
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Organism |
Mus musculus |
Characteristics |
strain background: Balb/c cell type: BM cells treatment: control in RPMI media
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Treatment protocol |
cultured cells were lysed with TRIZOL and stored at -80◦C till RNA extraction was performed.
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Growth protocol |
BM cells were harvested from the femur and tibia of Balb/c mice, ACK red cell lysis, and then were cultured for 4 hours in the presence of RPMI (10%FCS), RPMI supplemented with 30% of filtered supernatant from confluent 4T1 cultured with complete media, or RPMI supplemented with 30% of filtered supernatant from confluent 4T1 cultured with complete media and BX471 and Maraviroc.
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Extracted molecule |
total RNA |
Extraction protocol |
RNA was purified using the miRNA easy kit from Qiagen and following the manufacture instruction.
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Label |
biotin
|
Label protocol |
Affymetrix GeneChip WT Terminal Labeling Kit - sense-strand cDNA is fragmented with a combination of uracil DNA glycosylase and apurinic/apyrimidinic endonuclease 1 and its yield is further labeled by terminal deoxynucleotidyl transferase (TdT) with the Affymetrix® proprietary DNA Labeling Reagent that is covalently linked to biotin.
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Hybridization protocol |
GeneChip® Hybridization, Wash, and Stain Kit - Following labeling, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Gene 2.0 ST arrays. GeneChips were washed and stained (streptavidin,R-phycoerythrin conjugate and biotinylated anti-streptavidin) in the Affymetrix Fluidics Station 400.
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Scan protocol |
Standard Affymetrix scanning procedures on a GeneChip® Scanner 3000 7G . Affymetrix GeneChip® Command Console® Software (AGCC)- used to view CEL file images.
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Description |
Gene expression data of Balb/c BM cells cultured for 4h with RPMI
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Data processing |
RMA of .CEL files using affy Bioconductor library. In RMA, PM values have been background adjusted, normalized using quantile normalization, and expression measure calculated using median polish summarization
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Submission date |
Apr 14, 2020 |
Last update date |
Jan 26, 2022 |
Contact name |
Silvio Bicciato |
E-mail(s) |
silvio.bicciato@unipd.it
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Phone |
+39-049-827-6108
|
Organization name |
University of Padova
|
Department |
Molecular Medicine
|
Street address |
via U. Bassi 59/b
|
City |
Padova |
ZIP/Postal code |
35131 |
Country |
Italy |
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Platform ID |
GPL23092 |
Series (1) |
GSE148615 |
Molecular and cellular characterization of MDSC differentiated from the bone marrow of Balb/c mice with tumor conditioned media or tumor conditioned media and antagonists for CCR1 and CCR5 |
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