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Search results for the GEO ID: GSE6324

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Title

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Description

Characteristics

GSM146355

GPL96

MDA-MB-231 cells expressing vector control, P1

Human breast cancer cell line MDA-MB-231

Bone metastasis of MDA-MB-231 cells was compared with two different retroviral infections of control empty vector and Flag-SR-IkBa

For gene expression data, signal intensity was calculated using the one-step Turkey's Biweight Estimate.

Sample_geo_accession	GSM146355
Sample_status	Public on Nov 21 2006
Sample_submission_date	Nov 20 2006
Sample_last_update_date	Apr 24 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	MDA-MB-231 cells were transduced with retroviruses in the presence of 4 mg/ml (Sigma). 48 hour later, cells were selected with G-418 (800 mg/ml) for 10 days. The surviving cells were pooled, and cells expressing the proteins of interests were confirmed by Western blot analysis.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Trizol reagent extraction of total RNAs followed by the manufacturer's protocol. Total RNAs were cleaned with an RNeasy kit (Qiagen) to eliminate contaminated genomic DNA.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	cDNAs transcribed from RNAs were used in an in vitro transcription reaction in the presence of biotin-modified ribonucleotides to generate single stranded RNAs according to the Affymetrix (Santa Clara, CA) protocol.
Sample_hyb_protocol	After following of fragmentation, 10 mg of biotin labeled RNAs was hybridized with a human U133A gene chip at 45°C for 16 hour. Labeled bacterial RNAs were spiked into the hybridization mix for an internal standard and normalization. Chips were washed and stained with Streptavidin R-phycoerythrin (Molecular Probes).
Sample_scan_protocol	The arrayes were scanned with the GeneArray scanner (Affymetrix).
Sample_data_processing	Affymetrix Microarray Suite (MAS, version 5.0) was used for data analysis.
Sample_platform_id	GPL96
Sample_contact_name	Bae Keun,,Park
Sample_contact_email	parkbphd@umich.edu
Sample_contact_phone	734-615-4384
Sample_contact_fax	734-647-2110
Sample_contact_laboratory	Molecular Signaling
Sample_contact_department	BMS/Prosthodontics
Sample_contact_institute	University of Michigan
Sample_contact_address	1011 N University Ave
Sample_contact_city	Ann Arbor
Sample_contact_state	MI
Sample_contact_zip/postal_code	48109
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM146nnn/GSM146355/suppl/GSM146355.CEL.gz
Sample_series_id	GSE6324
Sample_data_row_count	22283

GSM146356

GPL96

MDA-MB-231 cells expressing SR-IkBa, P2

Human breast cancer cell line MDA-MB-231

Bone metastasis of MDA-MB-231 cells was compared with two different retroviral infections of control empty vector and Flag-SR-IkBa

For gene expression data, signal intensity was calculated using the one-step Turkey's Biweight Estimate.

Sample_geo_accession	GSM146356
Sample_status	Public on Nov 21 2006
Sample_submission_date	Nov 20 2006
Sample_last_update_date	Apr 24 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	MDA-MB-231 cells were transduced with retroviruses in the presence of 4 mg/ml (Sigma). 48 hour later, cells were selected with G-418 (800 mg/ml) for 10 days. The surviving cells were pooled, and cells expressing the proteins of interests were confirmed by Western blot analysis.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Trizol reagent extraction of total RNAs followed by the manufacturer's protocol. Total RNAs were cleaned with an RNeasy kit (Qiagen) to eliminate contaminated genomic DNA.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	cDNAs transcribed from RNAs were used in an in vitro transcription reaction in the presence of biotin-modified ribonucleotides to generate single stranded RNAs according to the Affymetrix (Santa Clara, CA) protocol.
Sample_hyb_protocol	After following of fragmentation, 10 mg of biotin labeled RNAs was hybridized with a human U133A gene chip at 45°C for 16 hour. Labeled bacterial RNAs were spiked into the hybridization mix for an internal standard and normalization. Chips were washed and stained with Streptavidin R-phycoerythrin (Molecular Probes).
Sample_scan_protocol	The arrayes were scanned with the GeneArray scanner (Affymetrix).
Sample_data_processing	Affymetrix Microarray Suite (MAS, version 5.0) was used for data analysis.
Sample_platform_id	GPL96
Sample_contact_name	Bae Keun,,Park
Sample_contact_email	parkbphd@umich.edu
Sample_contact_phone	734-615-4384
Sample_contact_fax	734-647-2110
Sample_contact_laboratory	Molecular Signaling
Sample_contact_department	BMS/Prosthodontics
Sample_contact_institute	University of Michigan
Sample_contact_address	1011 N University Ave
Sample_contact_city	Ann Arbor
Sample_contact_state	MI
Sample_contact_zip/postal_code	48109
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM146nnn/GSM146356/suppl/GSM146356.CEL.gz
Sample_series_id	GSE6324
Sample_data_row_count	22283

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