Result

Search results for the GEO ID: GSE40284

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GSM ID

GPL ID

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Title

Source name

Description

Characteristics

GSM990651

GPL1261

Lsd1fl/fl biological replicate #1 [LT-HSC]

CD150+ CD48- lin- c-Kit+ Sca-1+ LT-HSCs

strain: C57BL/6/SV129 tissue: adult bone marrow gender: male genotype/variation: Lsd1fl/fl

FACS-purified primary CD150+ CD48- lin- c-Kit+ Sca-1+ LT-HSCs

Sample_geo_accession	GSM990651
Sample_status	Public on Jun 25 2013
Sample_submission_date	Aug 22 2012
Sample_last_update_date	Jun 25 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Both, Lsd1fl/fl and Lsd1fl/fl Mx1Cre mice were injected with three doses of high molecular weight p(I:C) (Invivogen, San Diego, USA) at a concentration of 12.5µg/g body weight.
Sample_growth_protocol_ch1	Freshly isolated primary bone marrow cells, the cells have NOT been cultured in vitro.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted with the RNeasy Micro Kit (QIAGEN), treated with DNaseI, reverse transcribed. RNA extracted from CD150+ CD48- lin- c-Kit+ Sca-1+ cells was amplified with the Ovation Pico WTA RNA Amplification System 2 (NuGEN Technologies). Single-stranded cDNA amplification products were purified using QIAquick PCR Purification Kit (QIAGEN) and labeled with the FL-Ovation cDNA Biotin Module V2 (NuGEN).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
Sample_hyb_protocol	Standard Affymetrix protocol.
Sample_scan_protocol	Standard Affymetrix protocol.
Sample_data_processing	We RMA-normalized the arrays using the expression file creator package from GenePattern (Broad Institute, Boston, USA). The RMA-normalized *.gct files were then analyzed by the comparative marker selection package from GenePattern (Broad Institute, Boston, USA).
Sample_platform_id	GPL1261
Sample_contact_name	Marc,A.,Kerenyi
Sample_contact_laboratory	Stuart Orkin Laboratory
Sample_contact_department	Hematology / Oncology
Sample_contact_institute	Boston Children's Hospital and Dana Farber Cancer Institute
Sample_contact_address	1 Blackfan Street - Karp Research Building
Sample_contact_city	Boston
Sample_contact_state	Massachusetts
Sample_contact_zip/postal_code	02115
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM990nnn/GSM990651/suppl/GSM990651_SO2012012501.CEL.gz
Sample_series_id	GSE40284
Sample_series_id	GSE40605
Sample_data_row_count	45101

GSM990652

GPL1261

Lsd1fl/fl biological replicate #2 [LT-HSC]

CD150+ CD48- lin- c-Kit+ Sca-1+ LT-HSCs

strain: C57BL/6/SV129 tissue: adult bone marrow gender: male genotype/variation: Lsd1fl/fl

FACS-purified primary CD150+ CD48- lin- c-Kit+ Sca-1+ LT-HSCs

Sample_geo_accession	GSM990652
Sample_status	Public on Jun 25 2013
Sample_submission_date	Aug 22 2012
Sample_last_update_date	Jun 25 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Both, Lsd1fl/fl and Lsd1fl/fl Mx1Cre mice were injected with three doses of high molecular weight p(I:C) (Invivogen, San Diego, USA) at a concentration of 12.5µg/g body weight.
Sample_growth_protocol_ch1	Freshly isolated primary bone marrow cells, the cells have NOT been cultured in vitro.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted with the RNeasy Micro Kit (QIAGEN), treated with DNaseI, reverse transcribed. RNA extracted from CD150+ CD48- lin- c-Kit+ Sca-1+ cells was amplified with the Ovation Pico WTA RNA Amplification System 2 (NuGEN Technologies). Single-stranded cDNA amplification products were purified using QIAquick PCR Purification Kit (QIAGEN) and labeled with the FL-Ovation cDNA Biotin Module V2 (NuGEN).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
Sample_hyb_protocol	Standard Affymetrix protocol.
Sample_scan_protocol	Standard Affymetrix protocol.
Sample_data_processing	We RMA-normalized the arrays using the expression file creator package from GenePattern (Broad Institute, Boston, USA). The RMA-normalized *.gct files were then analyzed by the comparative marker selection package from GenePattern (Broad Institute, Boston, USA).
Sample_platform_id	GPL1261
Sample_contact_name	Marc,A.,Kerenyi
Sample_contact_laboratory	Stuart Orkin Laboratory
Sample_contact_department	Hematology / Oncology
Sample_contact_institute	Boston Children's Hospital and Dana Farber Cancer Institute
Sample_contact_address	1 Blackfan Street - Karp Research Building
Sample_contact_city	Boston
Sample_contact_state	Massachusetts
Sample_contact_zip/postal_code	02115
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM990nnn/GSM990652/suppl/GSM990652_SO2012012502.CEL.gz
Sample_series_id	GSE40284
Sample_series_id	GSE40605
Sample_data_row_count	45101

GSM990653

GPL1261

Lsd1fl/fl biological replicate #3 [LT-HSC]

CD150+ CD48- lin- c-Kit+ Sca-1+ LT-HSCs

strain: C57BL/6/SV129 tissue: adult bone marrow gender: male genotype/variation: Lsd1fl/fl

FACS-purified primary CD150+ CD48- lin- c-Kit+ Sca-1+ LT-HSCs

Sample_geo_accession	GSM990653
Sample_status	Public on Jun 25 2013
Sample_submission_date	Aug 22 2012
Sample_last_update_date	Jun 25 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Both, Lsd1fl/fl and Lsd1fl/fl Mx1Cre mice were injected with three doses of high molecular weight p(I:C) (Invivogen, San Diego, USA) at a concentration of 12.5µg/g body weight.
Sample_growth_protocol_ch1	Freshly isolated primary bone marrow cells, the cells have NOT been cultured in vitro.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted with the RNeasy Micro Kit (QIAGEN), treated with DNaseI, reverse transcribed. RNA extracted from CD150+ CD48- lin- c-Kit+ Sca-1+ cells was amplified with the Ovation Pico WTA RNA Amplification System 2 (NuGEN Technologies). Single-stranded cDNA amplification products were purified using QIAquick PCR Purification Kit (QIAGEN) and labeled with the FL-Ovation cDNA Biotin Module V2 (NuGEN).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
Sample_hyb_protocol	Standard Affymetrix protocol.
Sample_scan_protocol	Standard Affymetrix protocol.
Sample_data_processing	We RMA-normalized the arrays using the expression file creator package from GenePattern (Broad Institute, Boston, USA). The RMA-normalized *.gct files were then analyzed by the comparative marker selection package from GenePattern (Broad Institute, Boston, USA).
Sample_platform_id	GPL1261
Sample_contact_name	Marc,A.,Kerenyi
Sample_contact_laboratory	Stuart Orkin Laboratory
Sample_contact_department	Hematology / Oncology
Sample_contact_institute	Boston Children's Hospital and Dana Farber Cancer Institute
Sample_contact_address	1 Blackfan Street - Karp Research Building
Sample_contact_city	Boston
Sample_contact_state	Massachusetts
Sample_contact_zip/postal_code	02115
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM990nnn/GSM990653/suppl/GSM990653_SO2012012503.CEL.gz
Sample_series_id	GSE40284
Sample_series_id	GSE40605
Sample_data_row_count	45101

GSM990654

GPL1261

Lsd1fl/fl Mx1Cre biological replicate #1 [LT-HSC]

CD150+ CD48- lin- c-Kit+ Sca-1+ LT-HSCs

strain: C57BL/6/SV129 tissue: adult bone marrow gender: male genotype/variation: Lsd1fl/fl Mx1Cre

FACS-purified primary CD150+ CD48- lin- c-Kit+ Sca-1+ LT-HSCs

Sample_geo_accession	GSM990654
Sample_status	Public on Jun 25 2013
Sample_submission_date	Aug 22 2012
Sample_last_update_date	Jun 25 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Both, Lsd1fl/fl and Lsd1fl/fl Mx1Cre mice were injected with three doses of high molecular weight p(I:C) (Invivogen, San Diego, USA) at a concentration of 12.5µg/g body weight.
Sample_growth_protocol_ch1	Freshly isolated primary bone marrow cells, the cells have NOT been cultured in vitro.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted with the RNeasy Micro Kit (QIAGEN), treated with DNaseI, reverse transcribed. RNA extracted from CD150+ CD48- lin- c-Kit+ Sca-1+ cells was amplified with the Ovation Pico WTA RNA Amplification System 2 (NuGEN Technologies). Single-stranded cDNA amplification products were purified using QIAquick PCR Purification Kit (QIAGEN) and labeled with the FL-Ovation cDNA Biotin Module V2 (NuGEN).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
Sample_hyb_protocol	Standard Affymetrix protocol.
Sample_scan_protocol	Standard Affymetrix protocol.
Sample_data_processing	We RMA-normalized the arrays using the expression file creator package from GenePattern (Broad Institute, Boston, USA). The RMA-normalized *.gct files were then analyzed by the comparative marker selection package from GenePattern (Broad Institute, Boston, USA).
Sample_platform_id	GPL1261
Sample_contact_name	Marc,A.,Kerenyi
Sample_contact_laboratory	Stuart Orkin Laboratory
Sample_contact_department	Hematology / Oncology
Sample_contact_institute	Boston Children's Hospital and Dana Farber Cancer Institute
Sample_contact_address	1 Blackfan Street - Karp Research Building
Sample_contact_city	Boston
Sample_contact_state	Massachusetts
Sample_contact_zip/postal_code	02115
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM990nnn/GSM990654/suppl/GSM990654_SO2012012504.CEL.gz
Sample_series_id	GSE40284
Sample_series_id	GSE40605
Sample_data_row_count	45101

GSM990655

GPL1261

Lsd1fl/fl Mx1Cre biological replicate #2 [LT-HSC]

CD150+ CD48- lin- c-Kit+ Sca-1+ LT-HSCs

strain: C57BL/6/SV129 tissue: adult bone marrow gender: male genotype/variation: Lsd1fl/fl Mx1Cre

FACS-purified primary CD150+ CD48- lin- c-Kit+ Sca-1+ LT-HSCs

Sample_geo_accession	GSM990655
Sample_status	Public on Jun 25 2013
Sample_submission_date	Aug 22 2012
Sample_last_update_date	Jun 25 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Both, Lsd1fl/fl and Lsd1fl/fl Mx1Cre mice were injected with three doses of high molecular weight p(I:C) (Invivogen, San Diego, USA) at a concentration of 12.5µg/g body weight.
Sample_growth_protocol_ch1	Freshly isolated primary bone marrow cells, the cells have NOT been cultured in vitro.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted with the RNeasy Micro Kit (QIAGEN), treated with DNaseI, reverse transcribed. RNA extracted from CD150+ CD48- lin- c-Kit+ Sca-1+ cells was amplified with the Ovation Pico WTA RNA Amplification System 2 (NuGEN Technologies). Single-stranded cDNA amplification products were purified using QIAquick PCR Purification Kit (QIAGEN) and labeled with the FL-Ovation cDNA Biotin Module V2 (NuGEN).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
Sample_hyb_protocol	Standard Affymetrix protocol.
Sample_scan_protocol	Standard Affymetrix protocol.
Sample_data_processing	We RMA-normalized the arrays using the expression file creator package from GenePattern (Broad Institute, Boston, USA). The RMA-normalized *.gct files were then analyzed by the comparative marker selection package from GenePattern (Broad Institute, Boston, USA).
Sample_platform_id	GPL1261
Sample_contact_name	Marc,A.,Kerenyi
Sample_contact_laboratory	Stuart Orkin Laboratory
Sample_contact_department	Hematology / Oncology
Sample_contact_institute	Boston Children's Hospital and Dana Farber Cancer Institute
Sample_contact_address	1 Blackfan Street - Karp Research Building
Sample_contact_city	Boston
Sample_contact_state	Massachusetts
Sample_contact_zip/postal_code	02115
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM990nnn/GSM990655/suppl/GSM990655_SO2012012505.CEL.gz
Sample_series_id	GSE40284
Sample_series_id	GSE40605
Sample_data_row_count	45101

GSM990656

GPL1261

Lsd1fl/fl Mx1Cre biological replicate #3 [LT-HSC]

CD150+ CD48- lin- c-Kit+ Sca-1+ LT-HSCs

strain: C57BL/6/SV129 tissue: adult bone marrow gender: male genotype/variation: Lsd1fl/fl Mx1Cre

FACS-purified primary CD150+ CD48- lin- c-Kit+ Sca-1+ LT-HSCs

Sample_geo_accession	GSM990656
Sample_status	Public on Jun 25 2013
Sample_submission_date	Aug 22 2012
Sample_last_update_date	Jun 25 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Both, Lsd1fl/fl and Lsd1fl/fl Mx1Cre mice were injected with three doses of high molecular weight p(I:C) (Invivogen, San Diego, USA) at a concentration of 12.5µg/g body weight.
Sample_growth_protocol_ch1	Freshly isolated primary bone marrow cells, the cells have NOT been cultured in vitro.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted with the RNeasy Micro Kit (QIAGEN), treated with DNaseI, reverse transcribed. RNA extracted from CD150+ CD48- lin- c-Kit+ Sca-1+ cells was amplified with the Ovation Pico WTA RNA Amplification System 2 (NuGEN Technologies). Single-stranded cDNA amplification products were purified using QIAquick PCR Purification Kit (QIAGEN) and labeled with the FL-Ovation cDNA Biotin Module V2 (NuGEN).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
Sample_hyb_protocol	Standard Affymetrix protocol.
Sample_scan_protocol	Standard Affymetrix protocol.
Sample_data_processing	We RMA-normalized the arrays using the expression file creator package from GenePattern (Broad Institute, Boston, USA). The RMA-normalized *.gct files were then analyzed by the comparative marker selection package from GenePattern (Broad Institute, Boston, USA).
Sample_platform_id	GPL1261
Sample_contact_name	Marc,A.,Kerenyi
Sample_contact_laboratory	Stuart Orkin Laboratory
Sample_contact_department	Hematology / Oncology
Sample_contact_institute	Boston Children's Hospital and Dana Farber Cancer Institute
Sample_contact_address	1 Blackfan Street - Karp Research Building
Sample_contact_city	Boston
Sample_contact_state	Massachusetts
Sample_contact_zip/postal_code	02115
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM990nnn/GSM990656/suppl/GSM990656_SO2012012506.CEL.gz
Sample_series_id	GSE40284
Sample_series_id	GSE40605
Sample_data_row_count	45101

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