Result

Search results for the GEO ID: GSE34863

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GSM ID

GPL ID

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Title

Source name

Description

Characteristics

GSM856487

GPL1261

Control_Untreated_replicate1

Untreated Atg5 flox/flox control macrophages

genotype/variation: Atg5 flox/flox treatment: none

Bone marrow derived macrophages

Sample_geo_accession	GSM856487
Sample_status	Public on Jan 05 2012
Sample_submission_date	Jan 04 2012
Sample_last_update_date	Jan 05 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Macrophages were incubated with media alone or 100U/ml IFNγ for 14 hrs before RNA was extracted
Sample_growth_protocol_ch1	Bone marrow derived macrophages were generated by isolating and culturing mouse marrows in media containing DMEM, FBS, horse serum, CMG14-12 (Takeshita et al., 2000), MEM nonessential amino acids, sodium pyruvate, L-glutamine.
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 100ng total RNA (Expression Analysis Technical Manual, 2008, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 12.5μg of cRNA were hybridized for 16 hr at 45°C on Mouse 430 2.0 Genome Array. Genechips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Affymetrix GeneArray Scanner 7G06.
Sample_data_processing	Probe set summarization (CHP) files were derived from feature intensity (CEL) files using Affymetrix® Expression Console™ software (v.1.1). Default analysis settings were used for background adjustment and quantile normalization.
Sample_platform_id	GPL1261
Sample_contact_name	Nicole,,Maloney
Sample_contact_department	Pathology/Immunology
Sample_contact_institute	Washington University in St Louis School of Medicine
Sample_contact_address	660 South Euclid
Sample_contact_city	Saint Louis
Sample_contact_state	MO
Sample_contact_zip/postal_code	63110
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM856nnn/GSM856487/suppl/GSM856487.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM856nnn/GSM856487/suppl/GSM856487.CHP.gz
Sample_series_id	GSE34863
Sample_data_row_count	45101

GSM856488

GPL1261

Control_Untreated_replicate2

Untreated Atg5 flox/flox control macrophages

genotype/variation: Atg5 flox/flox treatment: none

Bone marrow derived macrophages

Sample_geo_accession	GSM856488
Sample_status	Public on Jan 05 2012
Sample_submission_date	Jan 04 2012
Sample_last_update_date	Jan 05 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Macrophages were incubated with media alone or 100U/ml IFNγ for 14 hrs before RNA was extracted
Sample_growth_protocol_ch1	Bone marrow derived macrophages were generated by isolating and culturing mouse marrows in media containing DMEM, FBS, horse serum, CMG14-12 (Takeshita et al., 2000), MEM nonessential amino acids, sodium pyruvate, L-glutamine.
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 100ng total RNA (Expression Analysis Technical Manual, 2008, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 12.5μg of cRNA were hybridized for 16 hr at 45°C on Mouse 430 2.0 Genome Array. Genechips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Affymetrix GeneArray Scanner 7G06.
Sample_data_processing	Probe set summarization (CHP) files were derived from feature intensity (CEL) files using Affymetrix® Expression Console™ software (v.1.1). Default analysis settings were used for background adjustment and quantile normalization.
Sample_platform_id	GPL1261
Sample_contact_name	Nicole,,Maloney
Sample_contact_department	Pathology/Immunology
Sample_contact_institute	Washington University in St Louis School of Medicine
Sample_contact_address	660 South Euclid
Sample_contact_city	Saint Louis
Sample_contact_state	MO
Sample_contact_zip/postal_code	63110
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM856nnn/GSM856488/suppl/GSM856488.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM856nnn/GSM856488/suppl/GSM856488.CHP.gz
Sample_series_id	GSE34863
Sample_data_row_count	45101

GSM856489

GPL1261

Atg5 deficient_Untreated_replicate1

Untreated Atg5 flox/flox + LysM cre macrophages

genotype/variation: Atg5 flox/flox + LysM cre treatment: none

Bone marrow derived macrophages

Sample_geo_accession	GSM856489
Sample_status	Public on Jan 05 2012
Sample_submission_date	Jan 04 2012
Sample_last_update_date	Jan 05 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Macrophages were incubated with media alone or 100U/ml IFNγ for 14 hrs before RNA was extracted
Sample_growth_protocol_ch1	Bone marrow derived macrophages were generated by isolating and culturing mouse marrows in media containing DMEM, FBS, horse serum, CMG14-12 (Takeshita et al., 2000), MEM nonessential amino acids, sodium pyruvate, L-glutamine.
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 100ng total RNA (Expression Analysis Technical Manual, 2008, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 12.5μg of cRNA were hybridized for 16 hr at 45°C on Mouse 430 2.0 Genome Array. Genechips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Affymetrix GeneArray Scanner 7G06.
Sample_data_processing	Probe set summarization (CHP) files were derived from feature intensity (CEL) files using Affymetrix® Expression Console™ software (v.1.1). Default analysis settings were used for background adjustment and quantile normalization.
Sample_platform_id	GPL1261
Sample_contact_name	Nicole,,Maloney
Sample_contact_department	Pathology/Immunology
Sample_contact_institute	Washington University in St Louis School of Medicine
Sample_contact_address	660 South Euclid
Sample_contact_city	Saint Louis
Sample_contact_state	MO
Sample_contact_zip/postal_code	63110
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM856nnn/GSM856489/suppl/GSM856489.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM856nnn/GSM856489/suppl/GSM856489.CHP.gz
Sample_series_id	GSE34863
Sample_data_row_count	45101

GSM856490

GPL1261

Atg5 deficient_Untreated_replicate2

Untreated Atg5 flox/flox + LysM cre macrophages

genotype/variation: Atg5 flox/flox + LysM cre treatment: none

Bone marrow derived macrophages

Sample_geo_accession	GSM856490
Sample_status	Public on Jan 05 2012
Sample_submission_date	Jan 04 2012
Sample_last_update_date	Jan 05 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Macrophages were incubated with media alone or 100U/ml IFNγ for 14 hrs before RNA was extracted
Sample_growth_protocol_ch1	Bone marrow derived macrophages were generated by isolating and culturing mouse marrows in media containing DMEM, FBS, horse serum, CMG14-12 (Takeshita et al., 2000), MEM nonessential amino acids, sodium pyruvate, L-glutamine.
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 100ng total RNA (Expression Analysis Technical Manual, 2008, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 12.5μg of cRNA were hybridized for 16 hr at 45°C on Mouse 430 2.0 Genome Array. Genechips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Affymetrix GeneArray Scanner 7G06.
Sample_data_processing	Probe set summarization (CHP) files were derived from feature intensity (CEL) files using Affymetrix® Expression Console™ software (v.1.1). Default analysis settings were used for background adjustment and quantile normalization.
Sample_platform_id	GPL1261
Sample_contact_name	Nicole,,Maloney
Sample_contact_department	Pathology/Immunology
Sample_contact_institute	Washington University in St Louis School of Medicine
Sample_contact_address	660 South Euclid
Sample_contact_city	Saint Louis
Sample_contact_state	MO
Sample_contact_zip/postal_code	63110
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM856nnn/GSM856490/suppl/GSM856490.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM856nnn/GSM856490/suppl/GSM856490.CHP.gz
Sample_series_id	GSE34863
Sample_data_row_count	45101

GSM856491

GPL1261

Control_IFNγ_replicate1

IFNγ treated Atg5 flox/flox macrophages

genotype/variation: Atg5 flox/flox treatment: 100U/ml of IFN-gamma for 14 hrs

Bone marrow derived macrophages

Sample_geo_accession	GSM856491
Sample_status	Public on Jan 05 2012
Sample_submission_date	Jan 04 2012
Sample_last_update_date	Jan 05 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Macrophages were incubated with media alone or 100U/ml IFNγ for 14 hrs before RNA was extracted
Sample_growth_protocol_ch1	Bone marrow derived macrophages were generated by isolating and culturing mouse marrows in media containing DMEM, FBS, horse serum, CMG14-12 (Takeshita et al., 2000), MEM nonessential amino acids, sodium pyruvate, L-glutamine.
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 100ng total RNA (Expression Analysis Technical Manual, 2008, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 12.5μg of cRNA were hybridized for 16 hr at 45°C on Mouse 430 2.0 Genome Array. Genechips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Affymetrix GeneArray Scanner 7G06.
Sample_data_processing	Probe set summarization (CHP) files were derived from feature intensity (CEL) files using Affymetrix® Expression Console™ software (v.1.1). Default analysis settings were used for background adjustment and quantile normalization.
Sample_platform_id	GPL1261
Sample_contact_name	Nicole,,Maloney
Sample_contact_department	Pathology/Immunology
Sample_contact_institute	Washington University in St Louis School of Medicine
Sample_contact_address	660 South Euclid
Sample_contact_city	Saint Louis
Sample_contact_state	MO
Sample_contact_zip/postal_code	63110
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM856nnn/GSM856491/suppl/GSM856491.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM856nnn/GSM856491/suppl/GSM856491.CHP.gz
Sample_series_id	GSE34863
Sample_data_row_count	45101

GSM856492

GPL1261

Control_IFNγ_replicate2

IFNγ treated Atg5 flox/flox macrophages

genotype/variation: Atg5 flox/flox treatment: 100U/ml of IFN-gamma for 14 hrs

Bone marrow derived macrophages

Sample_geo_accession	GSM856492
Sample_status	Public on Jan 05 2012
Sample_submission_date	Jan 04 2012
Sample_last_update_date	Jan 05 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Macrophages were incubated with media alone or 100U/ml IFNγ for 14 hrs before RNA was extracted
Sample_growth_protocol_ch1	Bone marrow derived macrophages were generated by isolating and culturing mouse marrows in media containing DMEM, FBS, horse serum, CMG14-12 (Takeshita et al., 2000), MEM nonessential amino acids, sodium pyruvate, L-glutamine.
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 100ng total RNA (Expression Analysis Technical Manual, 2008, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 12.5μg of cRNA were hybridized for 16 hr at 45°C on Mouse 430 2.0 Genome Array. Genechips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Affymetrix GeneArray Scanner 7G06.
Sample_data_processing	Probe set summarization (CHP) files were derived from feature intensity (CEL) files using Affymetrix® Expression Console™ software (v.1.1). Default analysis settings were used for background adjustment and quantile normalization.
Sample_platform_id	GPL1261
Sample_contact_name	Nicole,,Maloney
Sample_contact_department	Pathology/Immunology
Sample_contact_institute	Washington University in St Louis School of Medicine
Sample_contact_address	660 South Euclid
Sample_contact_city	Saint Louis
Sample_contact_state	MO
Sample_contact_zip/postal_code	63110
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM856nnn/GSM856492/suppl/GSM856492.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM856nnn/GSM856492/suppl/GSM856492.CHP.gz
Sample_series_id	GSE34863
Sample_data_row_count	45101

GSM856493

GPL1261

Atg5 deficient_IFNγ_replicate1

IFNγ treated Atg5 flox/flox + LysM cre macrophages

genotype/variation: Atg5 flox/flox + LysM cre treatment: 100U/ml of IFN-gamma for 14 hrs

Bone marrow derived macrophages

Sample_geo_accession	GSM856493
Sample_status	Public on Jan 05 2012
Sample_submission_date	Jan 04 2012
Sample_last_update_date	Jan 05 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Macrophages were incubated with media alone or 100U/ml IFNγ for 14 hrs before RNA was extracted
Sample_growth_protocol_ch1	Bone marrow derived macrophages were generated by isolating and culturing mouse marrows in media containing DMEM, FBS, horse serum, CMG14-12 (Takeshita et al., 2000), MEM nonessential amino acids, sodium pyruvate, L-glutamine.
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 100ng total RNA (Expression Analysis Technical Manual, 2008, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 12.5μg of cRNA were hybridized for 16 hr at 45°C on Mouse 430 2.0 Genome Array. Genechips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Affymetrix GeneArray Scanner 7G06.
Sample_data_processing	Probe set summarization (CHP) files were derived from feature intensity (CEL) files using Affymetrix® Expression Console™ software (v.1.1). Default analysis settings were used for background adjustment and quantile normalization.
Sample_platform_id	GPL1261
Sample_contact_name	Nicole,,Maloney
Sample_contact_department	Pathology/Immunology
Sample_contact_institute	Washington University in St Louis School of Medicine
Sample_contact_address	660 South Euclid
Sample_contact_city	Saint Louis
Sample_contact_state	MO
Sample_contact_zip/postal_code	63110
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM856nnn/GSM856493/suppl/GSM856493.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM856nnn/GSM856493/suppl/GSM856493.CHP.gz
Sample_series_id	GSE34863
Sample_data_row_count	45101

GSM856494

GPL1261

Atg5 deficient_IFNγ_replicate2

IFNγ treated Atg5 flox/flox + LysM cre macrophages

genotype/variation: Atg5 flox/flox + LysM cre treatment: 100U/ml of IFN-gamma for 14 hrs

Bone marrow derived macrophages

Sample_geo_accession	GSM856494
Sample_status	Public on Jan 05 2012
Sample_submission_date	Jan 04 2012
Sample_last_update_date	Jan 05 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Macrophages were incubated with media alone or 100U/ml IFNγ for 14 hrs before RNA was extracted
Sample_growth_protocol_ch1	Bone marrow derived macrophages were generated by isolating and culturing mouse marrows in media containing DMEM, FBS, horse serum, CMG14-12 (Takeshita et al., 2000), MEM nonessential amino acids, sodium pyruvate, L-glutamine.
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 100ng total RNA (Expression Analysis Technical Manual, 2008, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 12.5μg of cRNA were hybridized for 16 hr at 45°C on Mouse 430 2.0 Genome Array. Genechips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Affymetrix GeneArray Scanner 7G06.
Sample_data_processing	Probe set summarization (CHP) files were derived from feature intensity (CEL) files using Affymetrix® Expression Console™ software (v.1.1). Default analysis settings were used for background adjustment and quantile normalization.
Sample_platform_id	GPL1261
Sample_contact_name	Nicole,,Maloney
Sample_contact_department	Pathology/Immunology
Sample_contact_institute	Washington University in St Louis School of Medicine
Sample_contact_address	660 South Euclid
Sample_contact_city	Saint Louis
Sample_contact_state	MO
Sample_contact_zip/postal_code	63110
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM856nnn/GSM856494/suppl/GSM856494.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM856nnn/GSM856494/suppl/GSM856494.CHP.gz
Sample_series_id	GSE34863
Sample_data_row_count	45101

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