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Search results for the GEO ID: GSE17044

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GSM ID

GPL ID

Select for analysis

Title

Source name

Description

Characteristics

GSM426518

GPL570

Control, biological rep1

LNCaP cells treated with ethanol as vehicle

cell type: metastistic prostate cancer cell, androgen receptor positive cell line: LNCaP

Gene expression data from vehicle treated cells

Sample_geo_accession	GSM426518
Sample_status	Public on Dec 30 2009
Sample_submission_date	Jul 10 2009
Sample_last_update_date	Jul 10 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Cells were deprived of androgen in RPMI medium containing charcoal stripped serum, and treated with 1nM of R1881 for 48h
Sample_growth_protocol_ch1	LNCaP cells were grown in RPMI 1640 medium at 37C, under 5% CO2 and 90% humidity
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
Sample_data_processing	Probe intensity values were converted to expression values using the Robust Multi-Array Average (RMA) method following Irizarry et al (Irizarry, RA, Hobbs, B, Collin, F, Beazer-Barclay, YD, Antonellis, KJ, Scherf, U, Speed, TP (2003) Exploration, Normalization, and Summaries of High Density Oligonucleotide Array Probe Level Data. Biostatistics. Vol. 4, Number 2: 249-264). Log2 transformed expression values were obtained. This was implemented in the R statistical language using the affy package of Bioconductor.
Sample_platform_id	GPL570
Sample_contact_name	Adaikkalam,,Vellaichamy
Sample_contact_institute	University of Michigan
Sample_contact_address	1400 E. Med. Center Dr.
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/GSM426nnn/GSM426518/suppl/GSM426518.CEL.gz
Sample_series_id	GSE17044
Sample_data_row_count	54675

GSM426519

GPL570

Control, biological rep2

LNCaP cells treated with ethanol as vehicle

cell type: metastistic prostate cancer cell, androgen receptor positive cell line: LNCaP

Gene expression data from vehicle treated cells

Sample_geo_accession	GSM426519
Sample_status	Public on Dec 30 2009
Sample_submission_date	Jul 10 2009
Sample_last_update_date	Jul 10 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Cells were deprived of androgen in RPMI medium containing charcoal stripped serum, and treated with 1nM of R1881 for 48h
Sample_growth_protocol_ch1	LNCaP cells were grown in RPMI 1640 medium at 37C, under 5% CO2 and 90% humidity
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
Sample_data_processing	Probe intensity values were converted to expression values using the Robust Multi-Array Average (RMA) method following Irizarry et al (Irizarry, RA, Hobbs, B, Collin, F, Beazer-Barclay, YD, Antonellis, KJ, Scherf, U, Speed, TP (2003) Exploration, Normalization, and Summaries of High Density Oligonucleotide Array Probe Level Data. Biostatistics. Vol. 4, Number 2: 249-264). Log2 transformed expression values were obtained. This was implemented in the R statistical language using the affy package of Bioconductor.
Sample_platform_id	GPL570
Sample_contact_name	Adaikkalam,,Vellaichamy
Sample_contact_institute	University of Michigan
Sample_contact_address	1400 E. Med. Center Dr.
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/GSM426nnn/GSM426519/suppl/GSM426519.CEL.gz
Sample_series_id	GSE17044
Sample_data_row_count	54675

GSM426520

GPL570

Control, biological rep3

LNCaP cells treated with ethanol as vehicle

cell type: metastistic prostate cancer cell, androgen receptor positive cell line: LNCaP

Gene expression data from vehicle treated cells

Sample_geo_accession	GSM426520
Sample_status	Public on Dec 30 2009
Sample_submission_date	Jul 10 2009
Sample_last_update_date	Jul 10 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Cells were deprived of androgen in RPMI medium containing charcoal stripped serum, and treated with 1nM of R1881 for 48h
Sample_growth_protocol_ch1	LNCaP cells were grown in RPMI 1640 medium at 37C, under 5% CO2 and 90% humidity
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
Sample_data_processing	Probe intensity values were converted to expression values using the Robust Multi-Array Average (RMA) method following Irizarry et al (Irizarry, RA, Hobbs, B, Collin, F, Beazer-Barclay, YD, Antonellis, KJ, Scherf, U, Speed, TP (2003) Exploration, Normalization, and Summaries of High Density Oligonucleotide Array Probe Level Data. Biostatistics. Vol. 4, Number 2: 249-264). Log2 transformed expression values were obtained. This was implemented in the R statistical language using the affy package of Bioconductor.
Sample_platform_id	GPL570
Sample_contact_name	Adaikkalam,,Vellaichamy
Sample_contact_institute	University of Michigan
Sample_contact_address	1400 E. Med. Center Dr.
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/GSM426nnn/GSM426520/suppl/GSM426520.CEL.gz
Sample_series_id	GSE17044
Sample_data_row_count	54675

GSM426521

GPL570

R1881, biological rep1

LNCaP cells treated with R1881

cell type: metastistic prostate cancer cell, androgen receptor positive cell line: LNCaP

Gene expression data from R1881 treated cells

Sample_geo_accession	GSM426521
Sample_status	Public on Dec 30 2009
Sample_submission_date	Jul 10 2009
Sample_last_update_date	Jul 10 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Cells were deprived of androgen in RPMI medium containing charcoal stripped serum, and treated with 1nM of R1881 for 48h
Sample_growth_protocol_ch1	LNCaP cells were grown in RPMI 1640 medium at 37C, under 5% CO2 and 90% humidity
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
Sample_data_processing	Probe intensity values were converted to expression values using the Robust Multi-Array Average (RMA) method following Irizarry et al (Irizarry, RA, Hobbs, B, Collin, F, Beazer-Barclay, YD, Antonellis, KJ, Scherf, U, Speed, TP (2003) Exploration, Normalization, and Summaries of High Density Oligonucleotide Array Probe Level Data. Biostatistics. Vol. 4, Number 2: 249-264). Log2 transformed expression values were obtained. This was implemented in the R statistical language using the affy package of Bioconductor.
Sample_platform_id	GPL570
Sample_contact_name	Adaikkalam,,Vellaichamy
Sample_contact_institute	University of Michigan
Sample_contact_address	1400 E. Med. Center Dr.
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/GSM426nnn/GSM426521/suppl/GSM426521.CEL.gz
Sample_series_id	GSE17044
Sample_data_row_count	54675

GSM426522

GPL570

R1881, biological rep2

LNCaP cells treated with R1881

cell type: metastistic prostate cancer cell, androgen receptor positive cell line: LNCaP

Gene expression data from R1881 treated cells

Sample_geo_accession	GSM426522
Sample_status	Public on Dec 30 2009
Sample_submission_date	Jul 10 2009
Sample_last_update_date	Jul 10 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Cells were deprived of androgen in RPMI medium containing charcoal stripped serum, and treated with 1nM of R1881 for 48h
Sample_growth_protocol_ch1	LNCaP cells were grown in RPMI 1640 medium at 37C, under 5% CO2 and 90% humidity
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
Sample_data_processing	Probe intensity values were converted to expression values using the Robust Multi-Array Average (RMA) method following Irizarry et al (Irizarry, RA, Hobbs, B, Collin, F, Beazer-Barclay, YD, Antonellis, KJ, Scherf, U, Speed, TP (2003) Exploration, Normalization, and Summaries of High Density Oligonucleotide Array Probe Level Data. Biostatistics. Vol. 4, Number 2: 249-264). Log2 transformed expression values were obtained. This was implemented in the R statistical language using the affy package of Bioconductor.
Sample_platform_id	GPL570
Sample_contact_name	Adaikkalam,,Vellaichamy
Sample_contact_institute	University of Michigan
Sample_contact_address	1400 E. Med. Center Dr.
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/GSM426nnn/GSM426522/suppl/GSM426522.CEL.gz
Sample_series_id	GSE17044
Sample_data_row_count	54675

GSM426523

GPL570

R1881, biological rep3

LNCaP cells treated with R1881

cell type: metastistic prostate cancer cell, androgen receptor positive cell line: LNCaP

Gene expression data from R1881 treated cells

Sample_geo_accession	GSM426523
Sample_status	Public on Dec 30 2009
Sample_submission_date	Jul 10 2009
Sample_last_update_date	Jul 10 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Cells were deprived of androgen in RPMI medium containing charcoal stripped serum, and treated with 1nM of R1881 for 48h
Sample_growth_protocol_ch1	LNCaP cells were grown in RPMI 1640 medium at 37C, under 5% CO2 and 90% humidity
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
Sample_data_processing	Probe intensity values were converted to expression values using the Robust Multi-Array Average (RMA) method following Irizarry et al (Irizarry, RA, Hobbs, B, Collin, F, Beazer-Barclay, YD, Antonellis, KJ, Scherf, U, Speed, TP (2003) Exploration, Normalization, and Summaries of High Density Oligonucleotide Array Probe Level Data. Biostatistics. Vol. 4, Number 2: 249-264). Log2 transformed expression values were obtained. This was implemented in the R statistical language using the affy package of Bioconductor.
Sample_platform_id	GPL570
Sample_contact_name	Adaikkalam,,Vellaichamy
Sample_contact_institute	University of Michigan
Sample_contact_address	1400 E. Med. Center Dr.
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/GSM426nnn/GSM426523/suppl/GSM426523.CEL.gz
Sample_series_id	GSE17044
Sample_data_row_count	54675

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