Result

Search results for the GEO ID: GSE17995

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GSM ID

GPL ID

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Title

Source name

Description

Characteristics

GSM450397

GPL339

syngen transplanted C57BL/6 mice

strain: C57BL/6 age: 9-12 weeks old gender: female cell type: splenocytes

syngen transplanted C57BL/6 mice

Sample_geo_accession	GSM450397
Sample_status	Public on Sep 14 2009
Sample_submission_date	Sep 07 2009
Sample_last_update_date	Sep 09 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	B6 recipients were irradiated with 10.0 Gray, administered from a 137 Cs source. Splenocytes from B6 mice were prepared as single cell suspensions in PBS and depleted of red blood cells. 2 – 3 × 10^7 splenocytes in a volume of 200 μl were transplanted into B6 recipients via tail vein injection 4 – 6 h after irradiation. Mouse splenocytes were collected on day 4 after transplantation.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was prepared with acid phenol/chloroform extraction (TRIzol, Invitrogen; Karlsruhe, Germany) followed by purification with RNeasy Mini Kit (Qiagen; Hilden, Germany) according to the manufacturer’s instructions and was quantified spectro-photometrically. The quality of the purified RNA was assessed by agarose gel analysis.
Sample_label_ch1	biotin, streptavidin-phycoerytrin
Sample_label_protocol_ch1	A total of 10 µg RNA from each sample was used to prepare biotinylated target cRNA as previously described (Staege MS, Hutter C, Neumann I, et al. DNA microarrays reveal relationship of Ewing family tumors to both endothelial and fetal neural crest-derived cells and define novel targets. Cancer Res 2004;64:8213-21). A detailed protocol is available at www.affymetrix.com.
Sample_hyb_protocol	standard Affymetrix protocol
Sample_scan_protocol	standard Affymetrix protocol
Sample_data_processing	Microarray Suite 5.0 was used with the data and for normalization by scaling all probe sets to 500.
Sample_platform_id	GPL339
Sample_contact_name	Guenther,HS,Richter
Sample_contact_email	guenther.richter@lrz.tum.de
Sample_contact_fax	+49-89-3068 3791
Sample_contact_laboratory	Laboratory f. Functional Genomics & Transplantation Biology
Sample_contact_department	Pediatrics & Children's Cancer Research Center
Sample_contact_institute	Klinikum rechts der Isar, TU-Muenchen
Sample_contact_address	Parzivalstr. 16
Sample_contact_city	Munich
Sample_contact_zip/postal_code	D-80804
Sample_contact_country	Germany
Sample_contact_web_link	http://www.kind.med.tu-muenchen.de/cms/front_content.php
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM450nnn/GSM450397/suppl/GSM450397.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM450nnn/GSM450397/suppl/GSM450397.CHP.gz
Sample_series_id	GSE17995
Sample_data_row_count	22690

GSM450398

GPL339

allogeneic transplanted, isotype treated mice, sample 1

allogeneic transplanted C57BL/6 mice, isotype treated

strain recipient: C57BL/6 strain donor: C3H/HeN age: 9-12 weeks old gender: female cell type: splenocytes

allogeneic transplanted C57BL/6 mice, isotype treated

Sample_geo_accession	GSM450398
Sample_status	Public on Sep 14 2009
Sample_submission_date	Sep 07 2009
Sample_last_update_date	Sep 09 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	B6 recipients were irradiated with 10.0 Gray, administered from a 137 Cs source. Splenocytes from C3H mice were prepared as single cell suspensions in PBS and depleted of red blood cells. 2 – 3 × 10^7 splenocytes in a volume of 200 μl were transplanted into B6 recipients via tail vein injection 4 – 6 h after irradiation. Mice were treated with isotype control (control rat IgG). Mouse splenocytes were collected on day 4 after transplantation.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was prepared with acid phenol/chloroform extraction (TRIzol, Invitrogen; Karlsruhe, Germany) followed by purification with RNeasy Mini Kit (Qiagen; Hilden, Germany) according to the manufacturer’s instructions and was quantified spectro-photometrically. The quality of the purified RNA was assessed by agarose gel analysis.
Sample_label_ch1	biotin, streptavidin-phycoerytrin
Sample_label_protocol_ch1	A total of 10 µg RNA from each sample was used to prepare biotinylated target cRNA as previously described (Staege MS, Hutter C, Neumann I, et al. DNA microarrays reveal relationship of Ewing family tumors to both endothelial and fetal neural crest-derived cells and define novel targets. Cancer Res 2004;64:8213-21). A detailed protocol is available at www.affymetrix.com.
Sample_hyb_protocol	standard Affymetrix protocol
Sample_scan_protocol	standard Affymetrix protocol
Sample_data_processing	Microarray Suite 5.0 was used with the data and for normalization by scaling all probe sets to 500.
Sample_platform_id	GPL339
Sample_contact_name	Guenther,HS,Richter
Sample_contact_email	guenther.richter@lrz.tum.de
Sample_contact_fax	+49-89-3068 3791
Sample_contact_laboratory	Laboratory f. Functional Genomics & Transplantation Biology
Sample_contact_department	Pediatrics & Children's Cancer Research Center
Sample_contact_institute	Klinikum rechts der Isar, TU-Muenchen
Sample_contact_address	Parzivalstr. 16
Sample_contact_city	Munich
Sample_contact_zip/postal_code	D-80804
Sample_contact_country	Germany
Sample_contact_web_link	http://www.kind.med.tu-muenchen.de/cms/front_content.php
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM450nnn/GSM450398/suppl/GSM450398.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM450nnn/GSM450398/suppl/GSM450398.CHP.gz
Sample_series_id	GSE17995
Sample_data_row_count	22690

GSM450399

GPL339

allogeneic transplanted, isotype treated mice, sample 2

allogeneic transplanted C57BL/6 mice, isotype treated

strain recipient: C57BL/6 strain donor: C3H/HeN age: 9-12 weeks old gender: female cell type: splenocytes

allogeneic transplanted C57BL/6 mice, isotype treated

Sample_geo_accession	GSM450399
Sample_status	Public on Sep 14 2009
Sample_submission_date	Sep 07 2009
Sample_last_update_date	Sep 09 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	B6 recipients were irradiated with 10.0 Gray, administered from a 137 Cs source. Splenocytes from C3H mice were prepared as single cell suspensions in PBS and depleted of red blood cells. 2 – 3 × 10^7 splenocytes in a volume of 200 μl were transplanted into B6 recipients via tail vein injection 4 – 6 h after irradiation. Mice were treated with isotype control (control rat IgG). Mouse splenocytes were collected on day 4 after transplantation.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was prepared with acid phenol/chloroform extraction (TRIzol, Invitrogen; Karlsruhe, Germany) followed by purification with RNeasy Mini Kit (Qiagen; Hilden, Germany) according to the manufacturer’s instructions and was quantified spectro-photometrically. The quality of the purified RNA was assessed by agarose gel analysis.
Sample_label_ch1	biotin, streptavidin-phycoerytrin
Sample_label_protocol_ch1	A total of 10 µg RNA from each sample was used to prepare biotinylated target cRNA as previously described (Staege MS, Hutter C, Neumann I, et al. DNA microarrays reveal relationship of Ewing family tumors to both endothelial and fetal neural crest-derived cells and define novel targets. Cancer Res 2004;64:8213-21). A detailed protocol is available at www.affymetrix.com.
Sample_hyb_protocol	standard Affymetrix protocol
Sample_scan_protocol	standard Affymetrix protocol
Sample_data_processing	Microarray Suite 5.0 was used with the data and for normalization by scaling all probe sets to 500.
Sample_platform_id	GPL339
Sample_contact_name	Guenther,HS,Richter
Sample_contact_email	guenther.richter@lrz.tum.de
Sample_contact_fax	+49-89-3068 3791
Sample_contact_laboratory	Laboratory f. Functional Genomics & Transplantation Biology
Sample_contact_department	Pediatrics & Children's Cancer Research Center
Sample_contact_institute	Klinikum rechts der Isar, TU-Muenchen
Sample_contact_address	Parzivalstr. 16
Sample_contact_city	Munich
Sample_contact_zip/postal_code	D-80804
Sample_contact_country	Germany
Sample_contact_web_link	http://www.kind.med.tu-muenchen.de/cms/front_content.php
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM450nnn/GSM450399/suppl/GSM450399.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM450nnn/GSM450399/suppl/GSM450399.CHP.gz
Sample_series_id	GSE17995
Sample_data_row_count	22690

GSM450400

GPL339

allogeneic transplanted, anti-ICOSL mAb day 0 treated mice, sample 1

allogeneic transplanted C57BL/6 mice, anti-ICOSL mAb day 0 treated

strain recipient: C57BL/6 strain donor: C3H/HeN age: 9-12 weeks old gender: female cell type: splenocytes

allogeneic transplanted C57BL/6 mice, anti-ICOSL mAb day 0 treated

Sample_geo_accession	GSM450400
Sample_status	Public on Sep 14 2009
Sample_submission_date	Sep 07 2009
Sample_last_update_date	Sep 09 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	B6 recipients were irradiated with 10.0 Gray, administered from a 137 Cs source. Splenocytes from C3H mice were prepared as single cell suspensions in PBS and depleted of red blood cells. 2 – 3 × 10^7 splenocytes in a volume of 200 μl were transplanted into B6 recipients via tail vein injection 4 – 6 h after irradiation. Mice received 500 μg anti-ICOSL mAb i. p starting at day 0, followed by subsequent injections of 200 μg of mAb every other day. Mouse splenocytes were collected on day 4 after transplantation.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was prepared with acid phenol/chloroform extraction (TRIzol, Invitrogen; Karlsruhe, Germany) followed by purification with RNeasy Mini Kit (Qiagen; Hilden, Germany) according to the manufacturer’s instructions and was quantified spectro-photometrically. The quality of the purified RNA was assessed by agarose gel analysis.
Sample_label_ch1	biotin, streptavidin-phycoerytrin
Sample_label_protocol_ch1	A total of 10 µg RNA from each sample was used to prepare biotinylated target cRNA as previously described (Staege MS, Hutter C, Neumann I, et al. DNA microarrays reveal relationship of Ewing family tumors to both endothelial and fetal neural crest-derived cells and define novel targets. Cancer Res 2004;64:8213-21). A detailed protocol is available at www.affymetrix.com.
Sample_hyb_protocol	standard Affymetrix protocol
Sample_scan_protocol	standard Affymetrix protocol
Sample_data_processing	Microarray Suite 5.0 was used with the data and for normalization by scaling all probe sets to 500.
Sample_platform_id	GPL339
Sample_contact_name	Guenther,HS,Richter
Sample_contact_email	guenther.richter@lrz.tum.de
Sample_contact_fax	+49-89-3068 3791
Sample_contact_laboratory	Laboratory f. Functional Genomics & Transplantation Biology
Sample_contact_department	Pediatrics & Children's Cancer Research Center
Sample_contact_institute	Klinikum rechts der Isar, TU-Muenchen
Sample_contact_address	Parzivalstr. 16
Sample_contact_city	Munich
Sample_contact_zip/postal_code	D-80804
Sample_contact_country	Germany
Sample_contact_web_link	http://www.kind.med.tu-muenchen.de/cms/front_content.php
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM450nnn/GSM450400/suppl/GSM450400.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM450nnn/GSM450400/suppl/GSM450400.CHP.gz
Sample_series_id	GSE17995
Sample_data_row_count	22690

GSM450401

GPL339

allogeneic transplanted, anti-ICOSL mAb day 0 treated mice, sample 2

allogeneic transplanted C57BL/6 mice, anti-ICOSL mAb day 0 treated

strain recipient: C57BL/6 strain donor: C3H/HeN age: 9-12 weeks old gender: female cell type: splenocytes

allogeneic transplanted C57BL/6 mice, anti-ICOSL mAb day 0 treated

Sample_geo_accession	GSM450401
Sample_status	Public on Sep 14 2009
Sample_submission_date	Sep 07 2009
Sample_last_update_date	Sep 09 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	B6 recipients were irradiated with 10.0 Gray, administered from a 137 Cs source. Splenocytes from C3H mice were prepared as single cell suspensions in PBS and depleted of red blood cells. 2 – 3 × 10^7 splenocytes in a volume of 200 μl were transplanted into B6 recipients via tail vein injection 4 – 6 h after irradiation. Mice received 500 μg anti-ICOSL mAb i. p starting at day 0, followed by subsequent injections of 200 μg of mAb every other day. Mouse splenocytes were collected on day 4 after transplantation.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was prepared with acid phenol/chloroform extraction (TRIzol, Invitrogen; Karlsruhe, Germany) followed by purification with RNeasy Mini Kit (Qiagen; Hilden, Germany) according to the manufacturer’s instructions and was quantified spectro-photometrically. The quality of the purified RNA was assessed by agarose gel analysis.
Sample_label_ch1	biotin, streptavidin-phycoerytrin
Sample_label_protocol_ch1	A total of 10 µg RNA from each sample was used to prepare biotinylated target cRNA as previously described (Staege MS, Hutter C, Neumann I, et al. DNA microarrays reveal relationship of Ewing family tumors to both endothelial and fetal neural crest-derived cells and define novel targets. Cancer Res 2004;64:8213-21). A detailed protocol is available at www.affymetrix.com.
Sample_hyb_protocol	standard Affymetrix protocol
Sample_scan_protocol	standard Affymetrix protocol
Sample_data_processing	Microarray Suite 5.0 was used with the data and for normalization by scaling all probe sets to 500.
Sample_platform_id	GPL339
Sample_contact_name	Guenther,HS,Richter
Sample_contact_email	guenther.richter@lrz.tum.de
Sample_contact_fax	+49-89-3068 3791
Sample_contact_laboratory	Laboratory f. Functional Genomics & Transplantation Biology
Sample_contact_department	Pediatrics & Children's Cancer Research Center
Sample_contact_institute	Klinikum rechts der Isar, TU-Muenchen
Sample_contact_address	Parzivalstr. 16
Sample_contact_city	Munich
Sample_contact_zip/postal_code	D-80804
Sample_contact_country	Germany
Sample_contact_web_link	http://www.kind.med.tu-muenchen.de/cms/front_content.php
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM450nnn/GSM450401/suppl/GSM450401.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM450nnn/GSM450401/suppl/GSM450401.CHP.gz
Sample_series_id	GSE17995
Sample_data_row_count	22690

GSM450402

GPL339

allogeneic transplanted, anti-ICOSL mAb day 3 treated mice, sample 1

allogeneic transplanted C57BL/6 mice, anti-ICOSL mAb day 3 treated

strain recipient: C57BL/6 strain donor: C3H/HeN age: 9-12 weeks old gender: female cell type: splenocytes

allogeneic transplanted C57BL/6 mice, anti-ICOSL mAb day 3 treated

Sample_geo_accession	GSM450402
Sample_status	Public on Sep 14 2009
Sample_submission_date	Sep 07 2009
Sample_last_update_date	Sep 09 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	B6 recipients were irradiated with 10.0 Gray, administered from a 137 Cs source. Splenocytes from C3H mice were prepared as single cell suspensions in PBS and depleted of red blood cells. 2 – 3 × 10^7 splenocytes in a volume of 200 μl were transplanted into B6 recipients via tail vein injection 4 – 6 h after irradiation. Mice received 500 μg anti-ICOSL mAb i. p starting at day 3, followed by subsequent injections of 200 μg of mAb every other day. Mouse splenocytes were collected on day 4 after transplantation.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was prepared with acid phenol/chloroform extraction (TRIzol, Invitrogen; Karlsruhe, Germany) followed by purification with RNeasy Mini Kit (Qiagen; Hilden, Germany) according to the manufacturer’s instructions and was quantified spectro-photometrically. The quality of the purified RNA was assessed by agarose gel analysis.
Sample_label_ch1	biotin, streptavidin-phycoerytrin
Sample_label_protocol_ch1	A total of 10 µg RNA from each sample was used to prepare biotinylated target cRNA as previously described (Staege MS, Hutter C, Neumann I, et al. DNA microarrays reveal relationship of Ewing family tumors to both endothelial and fetal neural crest-derived cells and define novel targets. Cancer Res 2004;64:8213-21). A detailed protocol is available at www.affymetrix.com.
Sample_hyb_protocol	standard Affymetrix protocol
Sample_scan_protocol	standard Affymetrix protocol
Sample_data_processing	Microarray Suite 5.0 was used with the data and for normalization by scaling all probe sets to 500.
Sample_platform_id	GPL339
Sample_contact_name	Guenther,HS,Richter
Sample_contact_email	guenther.richter@lrz.tum.de
Sample_contact_fax	+49-89-3068 3791
Sample_contact_laboratory	Laboratory f. Functional Genomics & Transplantation Biology
Sample_contact_department	Pediatrics & Children's Cancer Research Center
Sample_contact_institute	Klinikum rechts der Isar, TU-Muenchen
Sample_contact_address	Parzivalstr. 16
Sample_contact_city	Munich
Sample_contact_zip/postal_code	D-80804
Sample_contact_country	Germany
Sample_contact_web_link	http://www.kind.med.tu-muenchen.de/cms/front_content.php
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM450nnn/GSM450402/suppl/GSM450402.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM450nnn/GSM450402/suppl/GSM450402.CHP.gz
Sample_series_id	GSE17995
Sample_data_row_count	22690

GSM450403

GPL339

allogeneic transplanted, anti-ICOSL mAb day 3 treated mice, sample 2

allogeneic transplanted C57BL/6 mice, anti-ICOSL mAb day 3 treated

strain recipient: C57BL/6 strain donor: C3H/HeN age: 9-12 weeks old gender: female cell type: splenocytes

allogeneic transplanted C57BL/6 mice, anti-ICOSL mAb day 3 treated

Sample_geo_accession	GSM450403
Sample_status	Public on Sep 14 2009
Sample_submission_date	Sep 07 2009
Sample_last_update_date	Sep 09 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	B6 recipients were irradiated with 10.0 Gray, administered from a 137 Cs source. Splenocytes from C3H mice were prepared as single cell suspensions in PBS and depleted of red blood cells. 2 – 3 × 10^7 splenocytes in a volume of 200 μl were transplanted into B6 recipients via tail vein injection 4 – 6 h after irradiation. Mice received 500 μg anti-ICOSL mAb i. p starting at day 3, followed by subsequent injections of 200 μg of mAb every other day. Mouse splenocytes were collected on day 4 after transplantation.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was prepared with acid phenol/chloroform extraction (TRIzol, Invitrogen; Karlsruhe, Germany) followed by purification with RNeasy Mini Kit (Qiagen; Hilden, Germany) according to the manufacturer’s instructions and was quantified spectro-photometrically. The quality of the purified RNA was assessed by agarose gel analysis.
Sample_label_ch1	biotin, streptavidin-phycoerytrin
Sample_label_protocol_ch1	A total of 10 µg RNA from each sample was used to prepare biotinylated target cRNA as previously described (Staege MS, Hutter C, Neumann I, et al. DNA microarrays reveal relationship of Ewing family tumors to both endothelial and fetal neural crest-derived cells and define novel targets. Cancer Res 2004;64:8213-21). A detailed protocol is available at www.affymetrix.com.
Sample_hyb_protocol	standard Affymetrix protocol
Sample_scan_protocol	standard Affymetrix protocol
Sample_data_processing	Microarray Suite 5.0 was used with the data and for normalization by scaling all probe sets to 500.
Sample_platform_id	GPL339
Sample_contact_name	Guenther,HS,Richter
Sample_contact_email	guenther.richter@lrz.tum.de
Sample_contact_fax	+49-89-3068 3791
Sample_contact_laboratory	Laboratory f. Functional Genomics & Transplantation Biology
Sample_contact_department	Pediatrics & Children's Cancer Research Center
Sample_contact_institute	Klinikum rechts der Isar, TU-Muenchen
Sample_contact_address	Parzivalstr. 16
Sample_contact_city	Munich
Sample_contact_zip/postal_code	D-80804
Sample_contact_country	Germany
Sample_contact_web_link	http://www.kind.med.tu-muenchen.de/cms/front_content.php
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM450nnn/GSM450403/suppl/GSM450403.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM450nnn/GSM450403/suppl/GSM450403.CHP.gz
Sample_series_id	GSE17995
Sample_data_row_count	22690

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