Result

Search results for the GEO ID: GSE19110

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GSM ID

GPL ID

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Title

Source name

Description

Characteristics

GSM473675

GPL1261

clone of control vector transfected J558 cells, pair 1

silence control vector transfected clone pair 1 (J558 cells)

strain: BALB/c, H-2Ld tissue: plasmacytoma cell line

none

Sample_geo_accession	GSM473675
Sample_status	Public on Nov 20 2009
Sample_submission_date	Nov 19 2009
Sample_last_update_date	Nov 19 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	AID targeting sequence was inserted into pSilencerTM1.0 vector and co-transfected with a selection vector containing the Neo gene into J558 tumor cells. As control, an empty targeting vector and Neo vector were co-transfected J558 cells. The transfected J558 cells were then selected by G418, and Neo-resistant J558 clones were obtained.
Sample_growth_protocol_ch1	The plasmacytoma J558 (BALB/c, H-2Ld) cell line was cultured in RPMI 1640 medium containing 5% FCS and 100 μg/ml of penicillin and streptomycin.
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 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 mouse Genechip 430-2.0 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.
Sample_platform_id	GPL1261
Sample_contact_name	Yi,,Xiao
Sample_contact_email	yi.xiao@osumc.edu
Sample_contact_phone	6142922921
Sample_contact_department	Pathology
Sample_contact_institute	Ohio State University
Sample_contact_address	1640 Neil Ave
Sample_contact_city	Columbus
Sample_contact_state	OH
Sample_contact_zip/postal_code	43210
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM473nnn/GSM473675/suppl/GSM473675.CEL.gz
Sample_series_id	GSE19110
Sample_data_row_count	45101

GSM473676

GPL1261

AID-slienced clone of J558 cells, pair 1

AID-silenced clone pair 1 (J558 cells)

strain: BALB/c, H-2Ld tissue: plasmacytoma cell line

none

Sample_geo_accession	GSM473676
Sample_status	Public on Nov 20 2009
Sample_submission_date	Nov 19 2009
Sample_last_update_date	Nov 19 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	AID targeting sequence was inserted into pSilencerTM1.0 vector and co-transfected with a selection vector containing the Neo gene into J558 tumor cells. As control, an empty targeting vector and Neo vector were co-transfected J558 cells. The transfected J558 cells were then selected by G418, and Neo-resistant J558 clones were obtained.
Sample_growth_protocol_ch1	The plasmacytoma J558 (BALB/c, H-2Ld) cell line was cultured in RPMI 1640 medium containing 5% FCS and 100 μg/ml of penicillin and streptomycin.
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 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 mouse Genechip 430-2.0 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.
Sample_platform_id	GPL1261
Sample_contact_name	Yi,,Xiao
Sample_contact_email	yi.xiao@osumc.edu
Sample_contact_phone	6142922921
Sample_contact_department	Pathology
Sample_contact_institute	Ohio State University
Sample_contact_address	1640 Neil Ave
Sample_contact_city	Columbus
Sample_contact_state	OH
Sample_contact_zip/postal_code	43210
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM473nnn/GSM473676/suppl/GSM473676.CEL.gz
Sample_series_id	GSE19110
Sample_data_row_count	45101

GSM473677

GPL1261

AID-slienced clone of J558 cells, pair 2

AID-silenced clone pair 2 (J558 cells)

strain: BALB/c, H-2Ld tissue: plasmacytoma cell line

none

Sample_geo_accession	GSM473677
Sample_status	Public on Nov 20 2009
Sample_submission_date	Nov 19 2009
Sample_last_update_date	Nov 19 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	AID targeting sequence was inserted into pSilencerTM1.0 vector and co-transfected with a selection vector containing the Neo gene into J558 tumor cells. As control, an empty targeting vector and Neo vector were co-transfected J558 cells. The transfected J558 cells were then selected by G418, and Neo-resistant J558 clones were obtained.
Sample_growth_protocol_ch1	The plasmacytoma J558 (BALB/c, H-2Ld) cell line was cultured in RPMI 1640 medium containing 5% FCS and 100 μg/ml of penicillin and streptomycin.
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 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 mouse Genechip 430-2.0 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.
Sample_platform_id	GPL1261
Sample_contact_name	Yi,,Xiao
Sample_contact_email	yi.xiao@osumc.edu
Sample_contact_phone	6142922921
Sample_contact_department	Pathology
Sample_contact_institute	Ohio State University
Sample_contact_address	1640 Neil Ave
Sample_contact_city	Columbus
Sample_contact_state	OH
Sample_contact_zip/postal_code	43210
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM473nnn/GSM473677/suppl/GSM473677.CEL.gz
Sample_series_id	GSE19110
Sample_data_row_count	45101

GSM473678

GPL1261

clone of control vector transfected J558 cells, pair 2

silence control vector transfected clone pair 2 (J558 cells)

strain: BALB/c, H-2Ld tissue: plasmacytoma cell line

none

Sample_geo_accession	GSM473678
Sample_status	Public on Nov 20 2009
Sample_submission_date	Nov 19 2009
Sample_last_update_date	Nov 19 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	AID targeting sequence was inserted into pSilencerTM1.0 vector and co-transfected with a selection vector containing the Neo gene into J558 tumor cells. As control, an empty targeting vector and Neo vector were co-transfected J558 cells. The transfected J558 cells were then selected by G418, and Neo-resistant J558 clones were obtained.
Sample_growth_protocol_ch1	The plasmacytoma J558 (BALB/c, H-2Ld) cell line was cultured in RPMI 1640 medium containing 5% FCS and 100 μg/ml of penicillin and streptomycin.
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 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 mouse Genechip 430-2.0 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.
Sample_platform_id	GPL1261
Sample_contact_name	Yi,,Xiao
Sample_contact_email	yi.xiao@osumc.edu
Sample_contact_phone	6142922921
Sample_contact_department	Pathology
Sample_contact_institute	Ohio State University
Sample_contact_address	1640 Neil Ave
Sample_contact_city	Columbus
Sample_contact_state	OH
Sample_contact_zip/postal_code	43210
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM473nnn/GSM473678/suppl/GSM473678.CEL.gz
Sample_series_id	GSE19110
Sample_data_row_count	45101

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