Result

Search results for the GEO ID: GSE17385

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GSM ID

GPL ID

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Title

Source name

Description

Characteristics

GSM434408

GPL570

pKLO GFP control, biological rep1

Cultured MM1S cell line, treated (maternal transcripts)

cell line: Multiple myeloma line MM1.S protocol: control

Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.

Sample_geo_accession	GSM434408
Sample_status	Public on Aug 24 2009
Sample_submission_date	Jul 28 2009
Sample_last_update_date	Mar 24 2010
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	5x10^6 MM1.S cells lentivirally infected with control shRNA or beta-catenin shRNA vectors and sorted for GFP positive populations were cultured in triplicate, washed in PBS and then resuspended in Trizol reagent (invitrogen).
Sample_growth_protocol_ch1	Cell were grown and maintained in a 37oC incubator with 5% CO2.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	RNA was extracted according to the manufacturer's protocol, purified using RNeasy kit (Qiagen)
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Drosophila Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Sample_scan_protocol	GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Sample_data_processing	The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100. Data were further process by the PLIER method.
Sample_platform_id	GPL570
Sample_contact_name	Daniel,Ruben,Carrasco
Sample_contact_email	ruben_carrasco@dfci.harvard.edu
Sample_contact_laboratory	Carrasco
Sample_contact_department	Medical Oncology
Sample_contact_institute	Dana-Farber Cancer Institute
Sample_contact_address	44 Binney St
Sample_contact_city	Boston
Sample_contact_state	MA
Sample_contact_zip/postal_code	MA 02115
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434408/suppl/GSM434408.CEL.gz
Sample_series_id	GSE17385
Sample_data_row_count	54675

GSM434409

GPL570

pKLO GFP control, biological rep2

Cultured MM1S cell line, treated (maternal transcripts)

cell line: Multiple myeloma line MM1.S protocol: control

Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.

Sample_geo_accession	GSM434409
Sample_status	Public on Aug 24 2009
Sample_submission_date	Jul 28 2009
Sample_last_update_date	Mar 24 2010
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	5x10^6 MM1.S cells lentivirally infected with control shRNA or beta-catenin shRNA vectors and sorted for GFP positive populations were cultured in triplicate, washed in PBS and then resuspended in Trizol reagent (invitrogen).
Sample_growth_protocol_ch1	Cell were grown and maintained in a 37oC incubator with 5% CO2.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	RNA was extracted according to the manufacturer's protocol, purified using RNeasy kit (Qiagen)
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Drosophila Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Sample_scan_protocol	GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Sample_data_processing	The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100. Data were further process by the PLIER method.
Sample_platform_id	GPL570
Sample_contact_name	Daniel,Ruben,Carrasco
Sample_contact_email	ruben_carrasco@dfci.harvard.edu
Sample_contact_laboratory	Carrasco
Sample_contact_department	Medical Oncology
Sample_contact_institute	Dana-Farber Cancer Institute
Sample_contact_address	44 Binney St
Sample_contact_city	Boston
Sample_contact_state	MA
Sample_contact_zip/postal_code	MA 02115
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434409/suppl/GSM434409.CEL.gz
Sample_series_id	GSE17385
Sample_data_row_count	54675

GSM434410

GPL570

pKLO GFP control, biological rep3

Cultured MM1S cell line, treated (maternal transcripts)

cell line: Multiple myeloma line MM1.S protocol: control

Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.

Sample_geo_accession	GSM434410
Sample_status	Public on Aug 24 2009
Sample_submission_date	Jul 28 2009
Sample_last_update_date	Mar 24 2010
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	5x10^6 MM1.S cells lentivirally infected with control shRNA or beta-catenin shRNA vectors and sorted for GFP positive populations were cultured in triplicate, washed in PBS and then resuspended in Trizol reagent (invitrogen).
Sample_growth_protocol_ch1	Cell were grown and maintained in a 37oC incubator with 5% CO2.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	RNA was extracted according to the manufacturer's protocol, purified using RNeasy kit (Qiagen)
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Drosophila Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Sample_scan_protocol	GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Sample_data_processing	The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100. Data were further process by the PLIER method.
Sample_platform_id	GPL570
Sample_contact_name	Daniel,Ruben,Carrasco
Sample_contact_email	ruben_carrasco@dfci.harvard.edu
Sample_contact_laboratory	Carrasco
Sample_contact_department	Medical Oncology
Sample_contact_institute	Dana-Farber Cancer Institute
Sample_contact_address	44 Binney St
Sample_contact_city	Boston
Sample_contact_state	MA
Sample_contact_zip/postal_code	MA 02115
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434410/suppl/GSM434410.CEL.gz
Sample_series_id	GSE17385
Sample_data_row_count	54675

GSM434411

GPL570

pKLO beta-catenin shRNA,, biological rep1

Cultured MM1S cell line, treated (maternal transcripts)

cell line: Multiple myeloma line MM1.S protocol: beta-catenin knockdown

Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.

Sample_geo_accession	GSM434411
Sample_status	Public on Aug 24 2009
Sample_submission_date	Jul 28 2009
Sample_last_update_date	Mar 24 2010
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	5x10^6 MM1.S cells lentivirally infected with control shRNA or beta-catenin shRNA vectors and sorted for GFP positive populations were cultured in triplicate, washed in PBS and then resuspended in Trizol reagent (invitrogen).
Sample_growth_protocol_ch1	Cell were grown and maintained in a 37oC incubator with 5% CO2.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	RNA was extracted according to the manufacturer's protocol, purified using RNeasy kit (Qiagen)
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Drosophila Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Sample_scan_protocol	GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Sample_data_processing	The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100. Data were further process by the PLIER method.
Sample_platform_id	GPL570
Sample_contact_name	Daniel,Ruben,Carrasco
Sample_contact_email	ruben_carrasco@dfci.harvard.edu
Sample_contact_laboratory	Carrasco
Sample_contact_department	Medical Oncology
Sample_contact_institute	Dana-Farber Cancer Institute
Sample_contact_address	44 Binney St
Sample_contact_city	Boston
Sample_contact_state	MA
Sample_contact_zip/postal_code	MA 02115
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434411/suppl/GSM434411.CEL.gz
Sample_series_id	GSE17385
Sample_data_row_count	54675

GSM434412

GPL570

pKLO beta-catenin shRNA,, biological rep2

Cultured MM1S cell line, treated (maternal transcripts)

cell line: Multiple myeloma line MM1.S protocol: beta-catenin knockdown

Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.

Sample_geo_accession	GSM434412
Sample_status	Public on Aug 24 2009
Sample_submission_date	Jul 28 2009
Sample_last_update_date	Mar 24 2010
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	5x10^6 MM1.S cells lentivirally infected with control shRNA or beta-catenin shRNA vectors and sorted for GFP positive populations were cultured in triplicate, washed in PBS and then resuspended in Trizol reagent (invitrogen).
Sample_growth_protocol_ch1	Cell were grown and maintained in a 37oC incubator with 5% CO2.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	RNA was extracted according to the manufacturer's protocol, purified using RNeasy kit (Qiagen)
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Drosophila Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Sample_scan_protocol	GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Sample_data_processing	The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100. Data were further process by the PLIER method.
Sample_platform_id	GPL570
Sample_contact_name	Daniel,Ruben,Carrasco
Sample_contact_email	ruben_carrasco@dfci.harvard.edu
Sample_contact_laboratory	Carrasco
Sample_contact_department	Medical Oncology
Sample_contact_institute	Dana-Farber Cancer Institute
Sample_contact_address	44 Binney St
Sample_contact_city	Boston
Sample_contact_state	MA
Sample_contact_zip/postal_code	MA 02115
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434412/suppl/GSM434412.CEL.gz
Sample_series_id	GSE17385
Sample_data_row_count	54675

GSM434413

GPL570

pKLO beta-catenin shRNA,, biological rep3

Cultured MM1S cell line, treated (maternal transcripts)

cell line: Multiple myeloma line MM1.S protocol: beta-catenin knockdown

Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.

Sample_geo_accession	GSM434413
Sample_status	Public on Aug 24 2009
Sample_submission_date	Jul 28 2009
Sample_last_update_date	Mar 24 2010
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	5x10^6 MM1.S cells lentivirally infected with control shRNA or beta-catenin shRNA vectors and sorted for GFP positive populations were cultured in triplicate, washed in PBS and then resuspended in Trizol reagent (invitrogen).
Sample_growth_protocol_ch1	Cell were grown and maintained in a 37oC incubator with 5% CO2.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	RNA was extracted according to the manufacturer's protocol, purified using RNeasy kit (Qiagen)
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Drosophila Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Sample_scan_protocol	GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Sample_data_processing	The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100. Data were further process by the PLIER method.
Sample_platform_id	GPL570
Sample_contact_name	Daniel,Ruben,Carrasco
Sample_contact_email	ruben_carrasco@dfci.harvard.edu
Sample_contact_laboratory	Carrasco
Sample_contact_department	Medical Oncology
Sample_contact_institute	Dana-Farber Cancer Institute
Sample_contact_address	44 Binney St
Sample_contact_city	Boston
Sample_contact_state	MA
Sample_contact_zip/postal_code	MA 02115
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434413/suppl/GSM434413.CEL.gz
Sample_series_id	GSE17385
Sample_data_row_count	54675

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