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Search results for the GEO ID: GSE30855

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GSM ID

GPL ID

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Title

Source name

Description

Characteristics

GSM765549

GPL1261

Uninduced Id2-HPC, biological replicate 1

Uninduced Id2-HPC cells

strain: C57BL/6 genotype: human Id2 transgenic cell type: hematopoietic progenitor cells (HPCs)

Id2_HPC_1 Gene expression of uninduced Id2_HPC, biological replicate #1.

Sample_geo_accession	GSM765549
Sample_status	Public on Sep 01 2011
Sample_submission_date	Jul 21 2011
Sample_last_update_date	Sep 01 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	None.
Sample_growth_protocol_ch1	Id2-HPC cells were cultured in IMDM medium supplemented with 10% FCS/2% PSG/β-me and IL7, Flt3-ligand, and SCF cytokines on S17 feeder cells in a humidified incubator at 37 degrees C with 5% CO2. Id2-HPC expanded cells were depleted of small (<1-5%) numbers of CD19-, CD25- and CD11b-positive cells by auto-MACS.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted from 5 Mio cells on RNeasy columns (Qiagen) with on-column DNase digestion following the manufacturer's instructions. RNA quality was assessed on an Agilent 2100 BioAnalyzer.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA was prepared according to the standard Affymetrix Small Sample Labelling Protocol v.2, with the exception that the second round of in vitro transcription (IVT) was performed using the Affymetrix GeneChip Expression 3' amplification kit.
Sample_hyb_protocol	Following fragmentation, 10 microg of cRNA was hybridized for 16 hr at 45C on the microarray. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Sample_scan_protocol	Chips were scanned using an Affymetrix GeneChip Scanner 3000.
Sample_data_processing	Expression values were calculated by RMAExpress (http://rmaexpress.bmbolstad.com/) using background adjustment and quantile normalization.
Sample_platform_id	GPL1261
Sample_contact_name	Yin,Chun,Lin
Sample_contact_email	yclin@ucsd.edu
Sample_contact_laboratory	Cornelis Murre
Sample_contact_department	Division of Biological Sciences
Sample_contact_institute	UCSD
Sample_contact_address	9500 Gilman Drive
Sample_contact_city	La Jolla
Sample_contact_state	CA
Sample_contact_zip/postal_code	92093-0377
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM765nnn/GSM765549/suppl/GSM765549.CEL.gz
Sample_series_id	GSE30855
Sample_series_id	GSE30859
Sample_data_row_count	45101

GSM765550

GPL1261

Uninduced Id2-HPC, biological replicate 2

Uninduced Id2-HPC cells

strain: C57BL/6 genotype: human Id2 transgenic cell type: hematopoietic progenitor cells (HPCs)

Id2_HPC_2 Gene expression of uninduced Id2_HPC, biological replicate #2.

Sample_geo_accession	GSM765550
Sample_status	Public on Sep 01 2011
Sample_submission_date	Jul 21 2011
Sample_last_update_date	Sep 01 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	None.
Sample_growth_protocol_ch1	Id2-HPC cells were cultured in IMDM medium supplemented with 10% FCS/2% PSG/β-me and IL7, Flt3-ligand, and SCF cytokines on S17 feeder cells in a humidified incubator at 37 degrees C with 5% CO2. Id2-HPC expanded cells were depleted of small (<1-5%) numbers of CD19-, CD25- and CD11b-positive cells by auto-MACS.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted from 5 Mio cells on RNeasy columns (Qiagen) with on-column DNase digestion following the manufacturer's instructions. RNA quality was assessed on an Agilent 2100 BioAnalyzer.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA was prepared according to the standard Affymetrix Small Sample Labelling Protocol v.2, with the exception that the second round of in vitro transcription (IVT) was performed using the Affymetrix GeneChip Expression 3' amplification kit.
Sample_hyb_protocol	Following fragmentation, 10 microg of cRNA was hybridized for 16 hr at 45C on the microarray. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Sample_scan_protocol	Chips were scanned using an Affymetrix GeneChip Scanner 3000.
Sample_data_processing	Expression values were calculated by RMAExpress (http://rmaexpress.bmbolstad.com/) using background adjustment and quantile normalization.
Sample_platform_id	GPL1261
Sample_contact_name	Yin,Chun,Lin
Sample_contact_email	yclin@ucsd.edu
Sample_contact_laboratory	Cornelis Murre
Sample_contact_department	Division of Biological Sciences
Sample_contact_institute	UCSD
Sample_contact_address	9500 Gilman Drive
Sample_contact_city	La Jolla
Sample_contact_state	CA
Sample_contact_zip/postal_code	92093-0377
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM765nnn/GSM765550/suppl/GSM765550.CEL.gz
Sample_series_id	GSE30855
Sample_series_id	GSE30859
Sample_data_row_count	45101

GSM765551

GPL1261

Cultured E2A-deficient, biological replicate 1

E2A-/- pre-pro-B cells

strain: C57BL/6 genotype: E2A -/- cell type: pre-pro-B cells

E2AKO_1 Gene expression of cultured E2A-deficient, biological replicate #1.

Sample_geo_accession	GSM765551
Sample_status	Public on Sep 01 2011
Sample_submission_date	Jul 21 2011
Sample_last_update_date	Sep 01 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	None.
Sample_growth_protocol_ch1	E2A -/- and EBF -/- cells were cultured in IMDM supplemented with 10% FCS/2% PSG/β-me on S17 feeder cells in the presence of IL-7, Flt3-ligand, and SCF cytokines in a humidified incubator at 37 degree C with 5% CO2.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted from 5 Mio cells on RNeasy columns (Qiagen) with on-column DNase digestion following the manufacturer's instructions. RNA quality was assessed on an Agilent 2100 BioAnalyzer.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA was prepared according to the standard Affymetrix Small Sample Labelling Protocol v.2, with the exception that the second round of in vitro transcription (IVT) was performed using the Affymetrix GeneChip Expression 3' amplification kit.
Sample_hyb_protocol	Following fragmentation, 10 microg of cRNA was hybridized for 16 hr at 45C on the microarray. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Sample_scan_protocol	Chips were scanned using an Affymetrix GeneChip Scanner 3000.
Sample_data_processing	Expression values were calculated by RMAExpress (http://rmaexpress.bmbolstad.com/) using background adjustment and quantile normalization.
Sample_platform_id	GPL1261
Sample_contact_name	Yin,Chun,Lin
Sample_contact_email	yclin@ucsd.edu
Sample_contact_laboratory	Cornelis Murre
Sample_contact_department	Division of Biological Sciences
Sample_contact_institute	UCSD
Sample_contact_address	9500 Gilman Drive
Sample_contact_city	La Jolla
Sample_contact_state	CA
Sample_contact_zip/postal_code	92093-0377
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM765nnn/GSM765551/suppl/GSM765551.CEL.gz
Sample_series_id	GSE30855
Sample_series_id	GSE30859
Sample_data_row_count	45101

GSM765552

GPL1261

Cultured E2A-deficient, biological replicate 2

E2A-/- pre-pro-B cells

strain: C57BL/6 genotype: E2A -/- cell type: pre-pro-B cells

E2AKO_2 Gene expression of cultured E2A-deficient, biological replicate #2.

Sample_geo_accession	GSM765552
Sample_status	Public on Sep 01 2011
Sample_submission_date	Jul 21 2011
Sample_last_update_date	Sep 01 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	None.
Sample_growth_protocol_ch1	E2A -/- and EBF -/- cells were cultured in IMDM supplemented with 10% FCS/2% PSG/β-me on S17 feeder cells in the presence of IL-7, Flt3-ligand, and SCF cytokines in a humidified incubator at 37 degree C with 5% CO2.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted from 5 Mio cells on RNeasy columns (Qiagen) with on-column DNase digestion following the manufacturer's instructions. RNA quality was assessed on an Agilent 2100 BioAnalyzer.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA was prepared according to the standard Affymetrix Small Sample Labelling Protocol v.2, with the exception that the second round of in vitro transcription (IVT) was performed using the Affymetrix GeneChip Expression 3' amplification kit.
Sample_hyb_protocol	Following fragmentation, 10 microg of cRNA was hybridized for 16 hr at 45C on the microarray. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Sample_scan_protocol	Chips were scanned using an Affymetrix GeneChip Scanner 3000.
Sample_data_processing	Expression values were calculated by RMAExpress (http://rmaexpress.bmbolstad.com/) using background adjustment and quantile normalization.
Sample_platform_id	GPL1261
Sample_contact_name	Yin,Chun,Lin
Sample_contact_email	yclin@ucsd.edu
Sample_contact_laboratory	Cornelis Murre
Sample_contact_department	Division of Biological Sciences
Sample_contact_institute	UCSD
Sample_contact_address	9500 Gilman Drive
Sample_contact_city	La Jolla
Sample_contact_state	CA
Sample_contact_zip/postal_code	92093-0377
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM765nnn/GSM765552/suppl/GSM765552.CEL.gz
Sample_series_id	GSE30855
Sample_series_id	GSE30859
Sample_data_row_count	45101

GSM765553

GPL1261

Cultured EBF-deficient, biological replicate 1

EBF-/- pre-pro-B cells

strain: C57BL/6 genotype: EBF -/- cell type: pre-pro-B cells

EBFKO_1 Gene expression of cultured EBF-deficient, biological replicate #1.

Sample_geo_accession	GSM765553
Sample_status	Public on Sep 01 2011
Sample_submission_date	Jul 21 2011
Sample_last_update_date	Sep 01 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	None.
Sample_growth_protocol_ch1	E2A -/- and EBF -/- cells were cultured in IMDM supplemented with 10% FCS/2% PSG/β-me on S17 feeder cells in the presence of IL-7, Flt3-ligand, and SCF cytokines in a humidified incubator at 37 degree C with 5% CO2.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted from 5 Mio cells on RNeasy columns (Qiagen) with on-column DNase digestion following the manufacturer's instructions. RNA quality was assessed on an Agilent 2100 BioAnalyzer.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA was prepared according to the standard Affymetrix Small Sample Labelling Protocol v.2, with the exception that the second round of in vitro transcription (IVT) was performed using the Affymetrix GeneChip Expression 3' amplification kit.
Sample_hyb_protocol	Following fragmentation, 10 microg of cRNA was hybridized for 16 hr at 45C on the microarray. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Sample_scan_protocol	Chips were scanned using an Affymetrix GeneChip Scanner 3000.
Sample_data_processing	Expression values were calculated by RMAExpress (http://rmaexpress.bmbolstad.com/) using background adjustment and quantile normalization.
Sample_platform_id	GPL1261
Sample_contact_name	Yin,Chun,Lin
Sample_contact_email	yclin@ucsd.edu
Sample_contact_laboratory	Cornelis Murre
Sample_contact_department	Division of Biological Sciences
Sample_contact_institute	UCSD
Sample_contact_address	9500 Gilman Drive
Sample_contact_city	La Jolla
Sample_contact_state	CA
Sample_contact_zip/postal_code	92093-0377
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM765nnn/GSM765553/suppl/GSM765553.CEL.gz
Sample_series_id	GSE30855
Sample_series_id	GSE30859
Sample_data_row_count	45101

GSM765554

GPL1261

Cultured EBF-deficient, biological replicate 2

EBF-/- pre-pro-B cells

strain: C57BL/6 genotype: EBF -/- cell type: pre-pro-B cells

EBFKO_2 Gene expression of cultured EBF-deficient, biological replicate #2.

Sample_geo_accession	GSM765554
Sample_status	Public on Sep 01 2011
Sample_submission_date	Jul 21 2011
Sample_last_update_date	Sep 01 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	None.
Sample_growth_protocol_ch1	E2A -/- and EBF -/- cells were cultured in IMDM supplemented with 10% FCS/2% PSG/β-me on S17 feeder cells in the presence of IL-7, Flt3-ligand, and SCF cytokines in a humidified incubator at 37 degree C with 5% CO2.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted from 5 Mio cells on RNeasy columns (Qiagen) with on-column DNase digestion following the manufacturer's instructions. RNA quality was assessed on an Agilent 2100 BioAnalyzer.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA was prepared according to the standard Affymetrix Small Sample Labelling Protocol v.2, with the exception that the second round of in vitro transcription (IVT) was performed using the Affymetrix GeneChip Expression 3' amplification kit.
Sample_hyb_protocol	Following fragmentation, 10 microg of cRNA was hybridized for 16 hr at 45C on the microarray. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Sample_scan_protocol	Chips were scanned using an Affymetrix GeneChip Scanner 3000.
Sample_data_processing	Expression values were calculated by RMAExpress (http://rmaexpress.bmbolstad.com/) using background adjustment and quantile normalization.
Sample_platform_id	GPL1261
Sample_contact_name	Yin,Chun,Lin
Sample_contact_email	yclin@ucsd.edu
Sample_contact_laboratory	Cornelis Murre
Sample_contact_department	Division of Biological Sciences
Sample_contact_institute	UCSD
Sample_contact_address	9500 Gilman Drive
Sample_contact_city	La Jolla
Sample_contact_state	CA
Sample_contact_zip/postal_code	92093-0377
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM765nnn/GSM765554/suppl/GSM765554.CEL.gz
Sample_series_id	GSE30855
Sample_series_id	GSE30859
Sample_data_row_count	45101

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