Result

Search results for the GEO ID: GSE30293

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Title

Source name

Description

Characteristics

GSM750871

GPL1261

7null

Zfp281 deficient ESC line #7

cell type: embryonic stem cells (ESC) genotype/variation: Zfp281 deficient

Sample_geo_accession	GSM750871
Sample_status	Public on Dec 01 2011
Sample_submission_date	Jun 29 2011
Sample_last_update_date	Dec 01 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	No additional treatment is involved.
Sample_growth_protocol_ch1	All ESCs were maintained on primary mouse embryonic fibroblasts with DMEM media supplemented with 15% FBS, 100 mM MEM non-essential amino acids, 0.1 mM 2-mercaptoethanol, 1 mM l-glutamine and 1000 U ml-1 of LIF (Chemicon)
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 GeneChip Mouse Expression Array 430 2.0. 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	Differential gene expressions upon knockout of Zfp281 was analyzed by comparing Null versus Wildtype samples on Affymetrix gene expression microarrays. All arrays were RMA normalized using R.2.9.0. Differentially expressed genes: Log2 fold change > 1 for up-regulated, < -1 for down-regulated were identified, using Limma.
Sample_platform_id	GPL1261
Sample_contact_name	Jianlong,,Wang
Sample_contact_email	jianlong.wang@mssm.edu
Sample_contact_phone	2122417425
Sample_contact_fax	2122413518
Sample_contact_department	Developmental and Regenerative Biology
Sample_contact_institute	Mount Sinai School of Medicine
Sample_contact_address	1428 MADISON AVE
Sample_contact_city	NEW YORK
Sample_contact_state	NEW YORK
Sample_contact_zip/postal_code	10029-6508
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM750nnn/GSM750871/suppl/GSM750871_SO2008091033.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM750nnn/GSM750871/suppl/GSM750871_SO2008091033_dcp.txt.gz
Sample_series_id	GSE30293
Sample_data_row_count	45101

GSM750872

GPL1261

3.34null

Zfp281 deficient ESC line #3.34

cell type: embryonic stem cells (ESC) genotype/variation: Zfp281 deficient

Sample_geo_accession	GSM750872
Sample_status	Public on Dec 01 2011
Sample_submission_date	Jun 29 2011
Sample_last_update_date	Dec 01 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	No additional treatment is involved.
Sample_growth_protocol_ch1	All ESCs were maintained on primary mouse embryonic fibroblasts with DMEM media supplemented with 15% FBS, 100 mM MEM non-essential amino acids, 0.1 mM 2-mercaptoethanol, 1 mM l-glutamine and 1000 U ml-1 of LIF (Chemicon)
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 GeneChip Mouse Expression Array 430 2.0. 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	Differential gene expressions upon knockout of Zfp281 was analyzed by comparing Null versus Wildtype samples on Affymetrix gene expression microarrays. All arrays were RMA normalized using R.2.9.0. Differentially expressed genes: Log2 fold change > 1 for up-regulated, < -1 for down-regulated were identified, using Limma.
Sample_platform_id	GPL1261
Sample_contact_name	Jianlong,,Wang
Sample_contact_email	jianlong.wang@mssm.edu
Sample_contact_phone	2122417425
Sample_contact_fax	2122413518
Sample_contact_department	Developmental and Regenerative Biology
Sample_contact_institute	Mount Sinai School of Medicine
Sample_contact_address	1428 MADISON AVE
Sample_contact_city	NEW YORK
Sample_contact_state	NEW YORK
Sample_contact_zip/postal_code	10029-6508
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM750nnn/GSM750872/suppl/GSM750872_SO2008091034.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM750nnn/GSM750872/suppl/GSM750872_SO2008091034_dcp.txt.gz
Sample_series_id	GSE30293
Sample_data_row_count	45101

GSM750873

GPL1261

3.38null

Zfp281 deficient ESC line #3.38

cell type: embryonic stem cells (ESC) genotype/variation: Zfp281 deficient

Sample_geo_accession	GSM750873
Sample_status	Public on Dec 01 2011
Sample_submission_date	Jun 29 2011
Sample_last_update_date	Dec 01 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	No additional treatment is involved.
Sample_growth_protocol_ch1	All ESCs were maintained on primary mouse embryonic fibroblasts with DMEM media supplemented with 15% FBS, 100 mM MEM non-essential amino acids, 0.1 mM 2-mercaptoethanol, 1 mM l-glutamine and 1000 U ml-1 of LIF (Chemicon)
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 GeneChip Mouse Expression Array 430 2.0. 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	Differential gene expressions upon knockout of Zfp281 was analyzed by comparing Null versus Wildtype samples on Affymetrix gene expression microarrays. All arrays were RMA normalized using R.2.9.0. Differentially expressed genes: Log2 fold change > 1 for up-regulated, < -1 for down-regulated were identified, using Limma.
Sample_platform_id	GPL1261
Sample_contact_name	Jianlong,,Wang
Sample_contact_email	jianlong.wang@mssm.edu
Sample_contact_phone	2122417425
Sample_contact_fax	2122413518
Sample_contact_department	Developmental and Regenerative Biology
Sample_contact_institute	Mount Sinai School of Medicine
Sample_contact_address	1428 MADISON AVE
Sample_contact_city	NEW YORK
Sample_contact_state	NEW YORK
Sample_contact_zip/postal_code	10029-6508
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM750nnn/GSM750873/suppl/GSM750873_SO2008091035.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM750nnn/GSM750873/suppl/GSM750873_SO2008091035_dcp.txt.gz
Sample_series_id	GSE30293
Sample_data_row_count	45101

GSM750874

GPL1261

3wt

Zfp281 wild-type ESC line #3

cell type: embryonic stem cells (ESC) genotype/variation: Zfp281 wild-type

Sample_geo_accession	GSM750874
Sample_status	Public on Dec 01 2011
Sample_submission_date	Jun 29 2011
Sample_last_update_date	Dec 01 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	No additional treatment is involved.
Sample_growth_protocol_ch1	All ESCs were maintained on primary mouse embryonic fibroblasts with DMEM media supplemented with 15% FBS, 100 mM MEM non-essential amino acids, 0.1 mM 2-mercaptoethanol, 1 mM l-glutamine and 1000 U ml-1 of LIF (Chemicon)
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 GeneChip Mouse Expression Array 430 2.0. 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	Differential gene expressions upon knockout of Zfp281 was analyzed by comparing Null versus Wildtype samples on Affymetrix gene expression microarrays. All arrays were RMA normalized using R.2.9.0. Differentially expressed genes: Log2 fold change > 1 for up-regulated, < -1 for down-regulated were identified, using Limma.
Sample_platform_id	GPL1261
Sample_contact_name	Jianlong,,Wang
Sample_contact_email	jianlong.wang@mssm.edu
Sample_contact_phone	2122417425
Sample_contact_fax	2122413518
Sample_contact_department	Developmental and Regenerative Biology
Sample_contact_institute	Mount Sinai School of Medicine
Sample_contact_address	1428 MADISON AVE
Sample_contact_city	NEW YORK
Sample_contact_state	NEW YORK
Sample_contact_zip/postal_code	10029-6508
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM750nnn/GSM750874/suppl/GSM750874_SO2008091037.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM750nnn/GSM750874/suppl/GSM750874_SO2008091037_dcp.txt.gz
Sample_series_id	GSE30293
Sample_data_row_count	45101

GSM750875

GPL1261

3.2wt

Zfp281 wild-type ESC line #3.2

cell type: embryonic stem cells (ESC) genotype/variation: Zfp281 wild-type

Sample_geo_accession	GSM750875
Sample_status	Public on Dec 01 2011
Sample_submission_date	Jun 29 2011
Sample_last_update_date	Dec 01 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	No additional treatment is involved.
Sample_growth_protocol_ch1	All ESCs were maintained on primary mouse embryonic fibroblasts with DMEM media supplemented with 15% FBS, 100 mM MEM non-essential amino acids, 0.1 mM 2-mercaptoethanol, 1 mM l-glutamine and 1000 U ml-1 of LIF (Chemicon)
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 GeneChip Mouse Expression Array 430 2.0. 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	Differential gene expressions upon knockout of Zfp281 was analyzed by comparing Null versus Wildtype samples on Affymetrix gene expression microarrays. All arrays were RMA normalized using R.2.9.0. Differentially expressed genes: Log2 fold change > 1 for up-regulated, < -1 for down-regulated were identified, using Limma.
Sample_platform_id	GPL1261
Sample_contact_name	Jianlong,,Wang
Sample_contact_email	jianlong.wang@mssm.edu
Sample_contact_phone	2122417425
Sample_contact_fax	2122413518
Sample_contact_department	Developmental and Regenerative Biology
Sample_contact_institute	Mount Sinai School of Medicine
Sample_contact_address	1428 MADISON AVE
Sample_contact_city	NEW YORK
Sample_contact_state	NEW YORK
Sample_contact_zip/postal_code	10029-6508
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM750nnn/GSM750875/suppl/GSM750875_SO2008091038.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM750nnn/GSM750875/suppl/GSM750875_SO2008091038_dcp.txt.gz
Sample_series_id	GSE30293
Sample_data_row_count	45101

GSM750876

GPL1261

3.3wt

Zfp281 wild-type ESC line #3.3

cell type: embryonic stem cells (ESC) genotype/variation: Zfp281 wild-type

Sample_geo_accession	GSM750876
Sample_status	Public on Dec 01 2011
Sample_submission_date	Jun 29 2011
Sample_last_update_date	Dec 01 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	No additional treatment is involved.
Sample_growth_protocol_ch1	All ESCs were maintained on primary mouse embryonic fibroblasts with DMEM media supplemented with 15% FBS, 100 mM MEM non-essential amino acids, 0.1 mM 2-mercaptoethanol, 1 mM l-glutamine and 1000 U ml-1 of LIF (Chemicon)
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 GeneChip Mouse Expression Array 430 2.0. 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	Differential gene expressions upon knockout of Zfp281 was analyzed by comparing Null versus Wildtype samples on Affymetrix gene expression microarrays. All arrays were RMA normalized using R.2.9.0. Differentially expressed genes: Log2 fold change > 1 for up-regulated, < -1 for down-regulated were identified, using Limma.
Sample_platform_id	GPL1261
Sample_contact_name	Jianlong,,Wang
Sample_contact_email	jianlong.wang@mssm.edu
Sample_contact_phone	2122417425
Sample_contact_fax	2122413518
Sample_contact_department	Developmental and Regenerative Biology
Sample_contact_institute	Mount Sinai School of Medicine
Sample_contact_address	1428 MADISON AVE
Sample_contact_city	NEW YORK
Sample_contact_state	NEW YORK
Sample_contact_zip/postal_code	10029-6508
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM750nnn/GSM750876/suppl/GSM750876_SO2008091039.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM750nnn/GSM750876/suppl/GSM750876_SO2008091039_dcp.txt.gz
Sample_series_id	GSE30293
Sample_data_row_count	45101

GSM750877

GPL1261

5het

Zfp281 heterozygous ESC line #5

cell type: embryonic stem cells (ESC) genotype/variation: Zfp281 heterozygous

Sample_geo_accession	GSM750877
Sample_status	Public on Dec 01 2011
Sample_submission_date	Jun 29 2011
Sample_last_update_date	Dec 01 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	No additional treatment is involved.
Sample_growth_protocol_ch1	All ESCs were maintained on primary mouse embryonic fibroblasts with DMEM media supplemented with 15% FBS, 100 mM MEM non-essential amino acids, 0.1 mM 2-mercaptoethanol, 1 mM l-glutamine and 1000 U ml-1 of LIF (Chemicon)
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 GeneChip Mouse Expression Array 430 2.0. 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	Differential gene expressions upon knockout of Zfp281 was analyzed by comparing Null versus Wildtype samples on Affymetrix gene expression microarrays. All arrays were RMA normalized using R.2.9.0. Differentially expressed genes: Log2 fold change > 1 for up-regulated, < -1 for down-regulated were identified, using Limma.
Sample_platform_id	GPL1261
Sample_contact_name	Jianlong,,Wang
Sample_contact_email	jianlong.wang@mssm.edu
Sample_contact_phone	2122417425
Sample_contact_fax	2122413518
Sample_contact_department	Developmental and Regenerative Biology
Sample_contact_institute	Mount Sinai School of Medicine
Sample_contact_address	1428 MADISON AVE
Sample_contact_city	NEW YORK
Sample_contact_state	NEW YORK
Sample_contact_zip/postal_code	10029-6508
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM750nnn/GSM750877/suppl/GSM750877_SO2008091040.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM750nnn/GSM750877/suppl/GSM750877_SO2008091040_dcp.txt.gz
Sample_series_id	GSE30293
Sample_data_row_count	45101

GSM750878

GPL1261

3.1het

Zfp281 heterozygous ESC line #3.1

cell type: embryonic stem cells (ESC) genotype/variation: Zfp281 heterozygous

Sample_geo_accession	GSM750878
Sample_status	Public on Dec 01 2011
Sample_submission_date	Jun 29 2011
Sample_last_update_date	Dec 01 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	No additional treatment is involved.
Sample_growth_protocol_ch1	All ESCs were maintained on primary mouse embryonic fibroblasts with DMEM media supplemented with 15% FBS, 100 mM MEM non-essential amino acids, 0.1 mM 2-mercaptoethanol, 1 mM l-glutamine and 1000 U ml-1 of LIF (Chemicon)
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 GeneChip Mouse Expression Array 430 2.0. 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	Differential gene expressions upon knockout of Zfp281 was analyzed by comparing Null versus Wildtype samples on Affymetrix gene expression microarrays. All arrays were RMA normalized using R.2.9.0. Differentially expressed genes: Log2 fold change > 1 for up-regulated, < -1 for down-regulated were identified, using Limma.
Sample_platform_id	GPL1261
Sample_contact_name	Jianlong,,Wang
Sample_contact_email	jianlong.wang@mssm.edu
Sample_contact_phone	2122417425
Sample_contact_fax	2122413518
Sample_contact_department	Developmental and Regenerative Biology
Sample_contact_institute	Mount Sinai School of Medicine
Sample_contact_address	1428 MADISON AVE
Sample_contact_city	NEW YORK
Sample_contact_state	NEW YORK
Sample_contact_zip/postal_code	10029-6508
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM750nnn/GSM750878/suppl/GSM750878_SO2008091042.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM750nnn/GSM750878/suppl/GSM750878_SO2008091042_dcp.txt.gz
Sample_series_id	GSE30293
Sample_data_row_count	45101

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