Result

Search results for the GEO ID: GSE38304

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Title

Source name

Description

Characteristics

GSM938417

GPL1261

GFPMYC negative GC B cells, Biological replicate 1

Spleen, SRBC immunized mouse, 12 days post-immunization

tissue: Spleen cell type: B lymphocytes gfpmyc status: negative

Sample name: GFPMYCneg_8G Gene expression data from MYC negative GC B cell subpopulation, paired to 7G

Sample_geo_accession	GSM938417
Sample_status	Public on Sep 24 2012
Sample_submission_date	May 29 2012
Sample_last_update_date	Sep 24 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	B cell fraction was isolated using magnetic beads (B cell isolation kit, Miltenyi). GC B cells (PNAhi/CD95hi) were sorted based on their relative GFP(=MYC) expression in two pools (MYC+, MYC-) for each mouse
Sample_growth_protocol_ch1	8 week old GFPMYC/C57BL6 mouse, Sheep Red Blood Cell (SRBC) immunization, 12 days
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Sorted GC B cells. Total RNA isolated using Nucleospin RNA XS kit (Macherey Nagel). cDNA was amplified from 5-20 ng of total RNA using the Ovation RNA amplification kit (NuGEN), following manufacturer's instructions.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Encore Biotin Labeling Kit (NuGEN). Biotin labeled and fragmented amplified cDNA was prepared following manufacturer's instructions.
Sample_hyb_protocol	3.75 micrograms of fragmented, Biotin-labeled amplified cDNA was hybridized using the Affymetrix HWS kit, Standard Array (49 Format), using NuGEN's Encore Biotin kit instructions. Samples were hybridized for 16 hours. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Sample_scan_protocol	Affymetrix GeneChip Scanner 3000 7G, connected to Command Console software.
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 500
Sample_platform_id	GPL1261
Sample_contact_name	David,,Dominguez-Sola
Sample_contact_email	dd2115@columbia.edu
Sample_contact_laboratory	Laboratory of Dr Riccardo Dalla-Favera
Sample_contact_department	Institute for Cancer Genetics
Sample_contact_institute	Columbia University
Sample_contact_address	1130 Saint Nicholas Ave, ICRC Room 507
Sample_contact_city	New York
Sample_contact_state	NY
Sample_contact_zip/postal_code	10032
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM938nnn/GSM938417/suppl/GSM938417_8G.CEL.gz
Sample_series_id	GSE38304
Sample_data_row_count	45056

GSM938418

GPL1261

GFPMYC negative GC B cells, Biological replicate 2

Spleen, SRBC immunized mouse, 12 days post-immunization

tissue: Spleen cell type: B lymphocytes gfpmyc status: negative

Sample name: GFPMYCneg_12G Gene expression data from MYC negative GC B cell subpopulation, paired to 11G

Sample_geo_accession	GSM938418
Sample_status	Public on Sep 24 2012
Sample_submission_date	May 29 2012
Sample_last_update_date	Sep 24 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	B cell fraction was isolated using magnetic beads (B cell isolation kit, Miltenyi). GC B cells (PNAhi/CD95hi) were sorted based on their relative GFP(=MYC) expression in two pools (MYC+, MYC-) for each mouse
Sample_growth_protocol_ch1	8 week old GFPMYC/C57BL6 mouse, Sheep Red Blood Cell (SRBC) immunization, 12 days
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Sorted GC B cells. Total RNA isolated using Nucleospin RNA XS kit (Macherey Nagel). cDNA was amplified from 5-20 ng of total RNA using the Ovation RNA amplification kit (NuGEN), following manufacturer's instructions.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Encore Biotin Labeling Kit (NuGEN). Biotin labeled and fragmented amplified cDNA was prepared following manufacturer's instructions.
Sample_hyb_protocol	3.75 micrograms of fragmented, Biotin-labeled amplified cDNA was hybridized using the Affymetrix HWS kit, Standard Array (49 Format), using NuGEN's Encore Biotin kit instructions. Samples were hybridized for 16 hours. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Sample_scan_protocol	Affymetrix GeneChip Scanner 3000 7G, connected to Command Console software.
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 500
Sample_platform_id	GPL1261
Sample_contact_name	David,,Dominguez-Sola
Sample_contact_email	dd2115@columbia.edu
Sample_contact_laboratory	Laboratory of Dr Riccardo Dalla-Favera
Sample_contact_department	Institute for Cancer Genetics
Sample_contact_institute	Columbia University
Sample_contact_address	1130 Saint Nicholas Ave, ICRC Room 507
Sample_contact_city	New York
Sample_contact_state	NY
Sample_contact_zip/postal_code	10032
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM938nnn/GSM938418/suppl/GSM938418_12G.CEL.gz
Sample_series_id	GSE38304
Sample_data_row_count	45056

GSM938419

GPL1261

GFPMYC negative GC B cells, Biological replicate 3

Spleen, SRBC immunized mouse, 12 days post-immunization

tissue: Spleen cell type: B lymphocytes gfpmyc status: negative

Sample name: GFPMYCneg_10G Gene expression data from MYC negative GC B cell subpopulation, paired to 9G

Sample_geo_accession	GSM938419
Sample_status	Public on Sep 24 2012
Sample_submission_date	May 29 2012
Sample_last_update_date	Sep 24 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	B cell fraction was isolated using magnetic beads (B cell isolation kit, Miltenyi). GC B cells (PNAhi/CD95hi) were sorted based on their relative GFP(=MYC) expression in two pools (MYC+, MYC-) for each mouse
Sample_growth_protocol_ch1	8 week old GFPMYC/C57BL6 mouse, Sheep Red Blood Cell (SRBC) immunization, 12 days
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Sorted GC B cells. Total RNA isolated using Nucleospin RNA XS kit (Macherey Nagel). cDNA was amplified from 5-20 ng of total RNA using the Ovation RNA amplification kit (NuGEN), following manufacturer's instructions.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Encore Biotin Labeling Kit (NuGEN). Biotin labeled and fragmented amplified cDNA was prepared following manufacturer's instructions.
Sample_hyb_protocol	3.75 micrograms of fragmented, Biotin-labeled amplified cDNA was hybridized using the Affymetrix HWS kit, Standard Array (49 Format), using NuGEN's Encore Biotin kit instructions. Samples were hybridized for 16 hours. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Sample_scan_protocol	Affymetrix GeneChip Scanner 3000 7G, connected to Command Console software.
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 500
Sample_platform_id	GPL1261
Sample_contact_name	David,,Dominguez-Sola
Sample_contact_email	dd2115@columbia.edu
Sample_contact_laboratory	Laboratory of Dr Riccardo Dalla-Favera
Sample_contact_department	Institute for Cancer Genetics
Sample_contact_institute	Columbia University
Sample_contact_address	1130 Saint Nicholas Ave, ICRC Room 507
Sample_contact_city	New York
Sample_contact_state	NY
Sample_contact_zip/postal_code	10032
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM938nnn/GSM938419/suppl/GSM938419_10G.CEL.gz
Sample_series_id	GSE38304
Sample_data_row_count	45056

GSM938420

GPL1261

GFPMYC negative GC B cells, Biological replicate 4

Spleen, SRBC immunized mouse, 12 days post-immunization

tissue: Spleen cell type: B lymphocytes gfpmyc status: negative

Sample name: GFPMYCneg_2G Gene expression data from MYC negative GC B cell subpopulation, paired to 1G

Sample_geo_accession	GSM938420
Sample_status	Public on Sep 24 2012
Sample_submission_date	May 29 2012
Sample_last_update_date	Sep 24 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	B cell fraction was isolated using magnetic beads (B cell isolation kit, Miltenyi). GC B cells (PNAhi/CD95hi) were sorted based on their relative GFP(=MYC) expression in two pools (MYC+, MYC-) for each mouse
Sample_growth_protocol_ch1	8 week old GFPMYC/C57BL6 mouse, Sheep Red Blood Cell (SRBC) immunization, 12 days
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Sorted GC B cells. Total RNA isolated using Nucleospin RNA XS kit (Macherey Nagel). cDNA was amplified from 5-20 ng of total RNA using the Ovation RNA amplification kit (NuGEN), following manufacturer's instructions.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Encore Biotin Labeling Kit (NuGEN). Biotin labeled and fragmented amplified cDNA was prepared following manufacturer's instructions.
Sample_hyb_protocol	3.75 micrograms of fragmented, Biotin-labeled amplified cDNA was hybridized using the Affymetrix HWS kit, Standard Array (49 Format), using NuGEN's Encore Biotin kit instructions. Samples were hybridized for 16 hours. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Sample_scan_protocol	Affymetrix GeneChip Scanner 3000 7G, connected to Command Console software.
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 500
Sample_platform_id	GPL1261
Sample_contact_name	David,,Dominguez-Sola
Sample_contact_email	dd2115@columbia.edu
Sample_contact_laboratory	Laboratory of Dr Riccardo Dalla-Favera
Sample_contact_department	Institute for Cancer Genetics
Sample_contact_institute	Columbia University
Sample_contact_address	1130 Saint Nicholas Ave, ICRC Room 507
Sample_contact_city	New York
Sample_contact_state	NY
Sample_contact_zip/postal_code	10032
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM938nnn/GSM938420/suppl/GSM938420_2G.CEL.gz
Sample_series_id	GSE38304
Sample_data_row_count	45056

GSM938421

GPL1261

GFPMYC positive GC B cells, Biological replicate 4

Spleen, SRBC immunized mouse, 12 days post-immunization

tissue: Spleen cell type: B lymphocytes gfpmyc status: positive

Sample name: GFPMYCpos_7G Gene expression data from MYC positive GC B cell subpopulation, paired to 8G

Sample_geo_accession	GSM938421
Sample_status	Public on Sep 24 2012
Sample_submission_date	May 29 2012
Sample_last_update_date	Sep 24 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	B cell fraction was isolated using magnetic beads (B cell isolation kit, Miltenyi). GC B cells (PNAhi/CD95hi) were sorted based on their relative GFP(=MYC) expression in two pools (MYC+, MYC-) for each mouse
Sample_growth_protocol_ch1	8 week old GFPMYC/C57BL6 mouse, Sheep Red Blood Cell (SRBC) immunization, 12 days
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Sorted GC B cells. Total RNA isolated using Nucleospin RNA XS kit (Macherey Nagel). cDNA was amplified from 5-20 ng of total RNA using the Ovation RNA amplification kit (NuGEN), following manufacturer's instructions.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Encore Biotin Labeling Kit (NuGEN). Biotin labeled and fragmented amplified cDNA was prepared following manufacturer's instructions.
Sample_hyb_protocol	3.75 micrograms of fragmented, Biotin-labeled amplified cDNA was hybridized using the Affymetrix HWS kit, Standard Array (49 Format), using NuGEN's Encore Biotin kit instructions. Samples were hybridized for 16 hours. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Sample_scan_protocol	Affymetrix GeneChip Scanner 3000 7G, connected to Command Console software.
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 500
Sample_platform_id	GPL1261
Sample_contact_name	David,,Dominguez-Sola
Sample_contact_email	dd2115@columbia.edu
Sample_contact_laboratory	Laboratory of Dr Riccardo Dalla-Favera
Sample_contact_department	Institute for Cancer Genetics
Sample_contact_institute	Columbia University
Sample_contact_address	1130 Saint Nicholas Ave, ICRC Room 507
Sample_contact_city	New York
Sample_contact_state	NY
Sample_contact_zip/postal_code	10032
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM938nnn/GSM938421/suppl/GSM938421_7G.CEL.gz
Sample_series_id	GSE38304
Sample_data_row_count	45056

GSM938422

GPL1261

GFPMYC positive GC B cells, Biological replicate 5

Spleen, SRBC immunized mouse, 12 days post-immunization

tissue: Spleen cell type: B lymphocytes gfpmyc status: positive

Sample name: GFPMYCpos_11G Gene expression data from MYC positive GC B cell subpopulation, paired to 12G

Sample_geo_accession	GSM938422
Sample_status	Public on Sep 24 2012
Sample_submission_date	May 29 2012
Sample_last_update_date	Sep 24 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	B cell fraction was isolated using magnetic beads (B cell isolation kit, Miltenyi). GC B cells (PNAhi/CD95hi) were sorted based on their relative GFP(=MYC) expression in two pools (MYC+, MYC-) for each mouse
Sample_growth_protocol_ch1	8 week old GFPMYC/C57BL6 mouse, Sheep Red Blood Cell (SRBC) immunization, 12 days
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Sorted GC B cells. Total RNA isolated using Nucleospin RNA XS kit (Macherey Nagel). cDNA was amplified from 5-20 ng of total RNA using the Ovation RNA amplification kit (NuGEN), following manufacturer's instructions.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Encore Biotin Labeling Kit (NuGEN). Biotin labeled and fragmented amplified cDNA was prepared following manufacturer's instructions.
Sample_hyb_protocol	3.75 micrograms of fragmented, Biotin-labeled amplified cDNA was hybridized using the Affymetrix HWS kit, Standard Array (49 Format), using NuGEN's Encore Biotin kit instructions. Samples were hybridized for 16 hours. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Sample_scan_protocol	Affymetrix GeneChip Scanner 3000 7G, connected to Command Console software.
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 500
Sample_platform_id	GPL1261
Sample_contact_name	David,,Dominguez-Sola
Sample_contact_email	dd2115@columbia.edu
Sample_contact_laboratory	Laboratory of Dr Riccardo Dalla-Favera
Sample_contact_department	Institute for Cancer Genetics
Sample_contact_institute	Columbia University
Sample_contact_address	1130 Saint Nicholas Ave, ICRC Room 507
Sample_contact_city	New York
Sample_contact_state	NY
Sample_contact_zip/postal_code	10032
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM938nnn/GSM938422/suppl/GSM938422_11G.CEL.gz
Sample_series_id	GSE38304
Sample_data_row_count	45056

GSM938423

GPL1261

GFPMYC positive GC B cells, Biological replicate 6

Spleen, SRBC immunized mouse, 12 days post-immunization

tissue: Spleen cell type: B lymphocytes gfpmyc status: positive

Sample name: GFPMYCpos_9G Gene expression data from MYC positive GC B cell subpopulation, paired to 10G

Sample_geo_accession	GSM938423
Sample_status	Public on Sep 24 2012
Sample_submission_date	May 29 2012
Sample_last_update_date	Sep 24 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	B cell fraction was isolated using magnetic beads (B cell isolation kit, Miltenyi). GC B cells (PNAhi/CD95hi) were sorted based on their relative GFP(=MYC) expression in two pools (MYC+, MYC-) for each mouse
Sample_growth_protocol_ch1	8 week old GFPMYC/C57BL6 mouse, Sheep Red Blood Cell (SRBC) immunization, 12 days
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Sorted GC B cells. Total RNA isolated using Nucleospin RNA XS kit (Macherey Nagel). cDNA was amplified from 5-20 ng of total RNA using the Ovation RNA amplification kit (NuGEN), following manufacturer's instructions.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Encore Biotin Labeling Kit (NuGEN). Biotin labeled and fragmented amplified cDNA was prepared following manufacturer's instructions.
Sample_hyb_protocol	3.75 micrograms of fragmented, Biotin-labeled amplified cDNA was hybridized using the Affymetrix HWS kit, Standard Array (49 Format), using NuGEN's Encore Biotin kit instructions. Samples were hybridized for 16 hours. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Sample_scan_protocol	Affymetrix GeneChip Scanner 3000 7G, connected to Command Console software.
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 500
Sample_platform_id	GPL1261
Sample_contact_name	David,,Dominguez-Sola
Sample_contact_email	dd2115@columbia.edu
Sample_contact_laboratory	Laboratory of Dr Riccardo Dalla-Favera
Sample_contact_department	Institute for Cancer Genetics
Sample_contact_institute	Columbia University
Sample_contact_address	1130 Saint Nicholas Ave, ICRC Room 507
Sample_contact_city	New York
Sample_contact_state	NY
Sample_contact_zip/postal_code	10032
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM938nnn/GSM938423/suppl/GSM938423_9G.CEL.gz
Sample_series_id	GSE38304
Sample_data_row_count	45056

GSM938424

GPL1261

GFPMYC positive GC B cells, Biological replicate 7

Spleen, SRBC immunized mouse, 12 days post-immunization

tissue: Spleen cell type: B lymphocytes gfpmyc status: positive

Sample name: GFPMYCpos_1G Gene expression data from MYC positive GC B cell subpopulation, paired to 2G

Sample_geo_accession	GSM938424
Sample_status	Public on Sep 24 2012
Sample_submission_date	May 29 2012
Sample_last_update_date	Sep 24 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	B cell fraction was isolated using magnetic beads (B cell isolation kit, Miltenyi). GC B cells (PNAhi/CD95hi) were sorted based on their relative GFP(=MYC) expression in two pools (MYC+, MYC-) for each mouse
Sample_growth_protocol_ch1	8 week old GFPMYC/C57BL6 mouse, Sheep Red Blood Cell (SRBC) immunization, 12 days
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Sorted GC B cells. Total RNA isolated using Nucleospin RNA XS kit (Macherey Nagel). cDNA was amplified from 5-20 ng of total RNA using the Ovation RNA amplification kit (NuGEN), following manufacturer's instructions.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Encore Biotin Labeling Kit (NuGEN). Biotin labeled and fragmented amplified cDNA was prepared following manufacturer's instructions.
Sample_hyb_protocol	3.75 micrograms of fragmented, Biotin-labeled amplified cDNA was hybridized using the Affymetrix HWS kit, Standard Array (49 Format), using NuGEN's Encore Biotin kit instructions. Samples were hybridized for 16 hours. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Sample_scan_protocol	Affymetrix GeneChip Scanner 3000 7G, connected to Command Console software.
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 500
Sample_platform_id	GPL1261
Sample_contact_name	David,,Dominguez-Sola
Sample_contact_email	dd2115@columbia.edu
Sample_contact_laboratory	Laboratory of Dr Riccardo Dalla-Favera
Sample_contact_department	Institute for Cancer Genetics
Sample_contact_institute	Columbia University
Sample_contact_address	1130 Saint Nicholas Ave, ICRC Room 507
Sample_contact_city	New York
Sample_contact_state	NY
Sample_contact_zip/postal_code	10032
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM938nnn/GSM938424/suppl/GSM938424_1G.CEL.gz
Sample_series_id	GSE38304
Sample_data_row_count	45056

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