Result

Search results for the GEO ID: GSE21255

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GSM ID

GPL ID

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Title

Source name

Description

Characteristics

GSM531315

GPL1261

EML.D417

lymphohematopoietic cell line

cell line: EML genotype/variation: Del417-419insY KIT mutant agent: none

EML

Sample_geo_accession	GSM531315
Sample_status	Public on Apr 10 2010
Sample_submission_date	Apr 08 2010
Sample_last_update_date	Apr 09 2010
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	EML cells were transduced by using PhoenixTM retroviral expression system (ATCC, LGC-Standards, France). Phoenix cells were first transfected with pLXSN vectors containing the c-kit constructs or pMSCVpuro- (Myr)EGFP-AKT by using Fugene 6 (Roche Applied Science, Indianapolis) according to the manufacturer’s instructions. 48 hours later, retroviral supernatants were used to infect EML cells. 24 hours after transfection, cells were selected with 0.4 mg/mL (EML cells) of geneticin (Invitrogen SARL, France) for 14 days. EML cells transfected with KIT mutants were further grown in growth factor-free medium in order to obtain autonomous populations. Cells expressing KIT variants were selected by using ARIA cell sorter (Becton Dickinson, San Jose, CA) to obtain homogenous populations.
Sample_growth_protocol_ch1	EML cells were grown in RPMI 1640 medium supplemented with 20% FBS and 250 ng/ml murine SCF. COS-7, R4 MEFs, Phoenix A, and GP+E-86 retrovirus-packaging cell lines were maintained in Dulbecco's modified Eagle's medium supplemented with 10% FBS and 0.5 mg/ml sodium pyruvate. All of the media and sera were purchased from Invitrogen.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Qiagen RNeasy mini kits. On column, DNase digestion was used.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	see Affymetrix standard protocols, www.affymetrix.com
Sample_hyb_protocol	see Affymetrix standard protocols, www.affymetrix.com
Sample_scan_protocol	see Affymetrix standard protocols, www.affymetrix.com
Sample_data_processing	RMA. Controls were removed, like all genes with low and poorly measured expression as defined by an expression value inferior to 100 units in all samples and a SD less than 0.15 on log2-transformed data. Thus, 10861 probe sets were selected and analysed.
Sample_platform_id	GPL1261
Sample_contact_name	Pascal,,FINETTI
Sample_contact_email	finettip@ipc.unicancer.fnclcc.fr
Sample_contact_phone	(33)+4 91 22 33 04
Sample_contact_laboratory	Molecular Oncology
Sample_contact_department	Centre de cancérologie de Marseille
Sample_contact_institute	Institut Paoli-Calmettes
Sample_contact_address	232 Bd Ste Marguerite
Sample_contact_city	Marseille
Sample_contact_state	BdR
Sample_contact_zip/postal_code	13009
Sample_contact_country	France
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM531nnn/GSM531315/suppl/GSM531315.CEL.gz
Sample_series_id	GSE21255
Sample_data_row_count	10861

GSM531316

GPL1261

EML.D816V

lymphohematopoietic cell line

cell line: EML genotype/variation: D816V KIT mutant agent: none

EML

Sample_geo_accession	GSM531316
Sample_status	Public on Apr 10 2010
Sample_submission_date	Apr 08 2010
Sample_last_update_date	Apr 09 2010
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	EML cells were transduced by using PhoenixTM retroviral expression system (ATCC, LGC-Standards, France). Phoenix cells were first transfected with pLXSN vectors containing the c-kit constructs or pMSCVpuro- (Myr)EGFP-AKT by using Fugene 6 (Roche Applied Science, Indianapolis) according to the manufacturer’s instructions. 48 hours later, retroviral supernatants were used to infect EML cells. 24 hours after transfection, cells were selected with 0.4 mg/mL (EML cells) of geneticin (Invitrogen SARL, France) for 14 days. EML cells transfected with KIT mutants were further grown in growth factor-free medium in order to obtain autonomous populations. Cells expressing KIT variants were selected by using ARIA cell sorter (Becton Dickinson, San Jose, CA) to obtain homogenous populations.
Sample_growth_protocol_ch1	EML cells were grown in RPMI 1640 medium supplemented with 20% FBS and 250 ng/ml murine SCF. COS-7, R4 MEFs, Phoenix A, and GP+E-86 retrovirus-packaging cell lines were maintained in Dulbecco's modified Eagle's medium supplemented with 10% FBS and 0.5 mg/ml sodium pyruvate. All of the media and sera were purchased from Invitrogen.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Qiagen RNeasy mini kits. On column, DNase digestion was used.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	see Affymetrix standard protocols, www.affymetrix.com
Sample_hyb_protocol	see Affymetrix standard protocols, www.affymetrix.com
Sample_scan_protocol	see Affymetrix standard protocols, www.affymetrix.com
Sample_data_processing	RMA. Controls were removed, like all genes with low and poorly measured expression as defined by an expression value inferior to 100 units in all samples and a SD less than 0.15 on log2-transformed data. Thus, 10861 probe sets were selected and analysed.
Sample_platform_id	GPL1261
Sample_contact_name	Pascal,,FINETTI
Sample_contact_email	finettip@ipc.unicancer.fnclcc.fr
Sample_contact_phone	(33)+4 91 22 33 04
Sample_contact_laboratory	Molecular Oncology
Sample_contact_department	Centre de cancérologie de Marseille
Sample_contact_institute	Institut Paoli-Calmettes
Sample_contact_address	232 Bd Ste Marguerite
Sample_contact_city	Marseille
Sample_contact_state	BdR
Sample_contact_zip/postal_code	13009
Sample_contact_country	France
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM531nnn/GSM531316/suppl/GSM531316.CEL.gz
Sample_series_id	GSE21255
Sample_data_row_count	10861

GSM531317

GPL1261

EML.D417.48H

lymphohematopoietic cell line

cell line: EML genotype/variation: Del417-419insY KIT mutant time point: 48 hours agent: 250 ng/mL SCF

EML

Sample_geo_accession	GSM531317
Sample_status	Public on Apr 10 2010
Sample_submission_date	Apr 08 2010
Sample_last_update_date	Apr 09 2010
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	EML cells were transduced by using PhoenixTM retroviral expression system (ATCC, LGC-Standards, France). Phoenix cells were first transfected with pLXSN vectors containing the c-kit constructs or pMSCVpuro- (Myr)EGFP-AKT by using Fugene 6 (Roche Applied Science, Indianapolis) according to the manufacturer’s instructions. 48 hours later, retroviral supernatants were used to infect EML cells. 24 hours after transfection, cells were selected with 0.4 mg/mL (EML cells) of geneticin (Invitrogen SARL, France) for 14 days. EML cells transfected with KIT mutants were further grown in growth factor-free medium in order to obtain autonomous populations. Cells expressing KIT variants were selected by using ARIA cell sorter (Becton Dickinson, San Jose, CA) to obtain homogenous populations.
Sample_growth_protocol_ch1	EML cells were grown in RPMI 1640 medium supplemented with 20% FBS and 250 ng/ml murine SCF. COS-7, R4 MEFs, Phoenix A, and GP+E-86 retrovirus-packaging cell lines were maintained in Dulbecco's modified Eagle's medium supplemented with 10% FBS and 0.5 mg/ml sodium pyruvate. All of the media and sera were purchased from Invitrogen.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Qiagen RNeasy mini kits. On column, DNase digestion was used.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	see Affymetrix standard protocols, www.affymetrix.com
Sample_hyb_protocol	see Affymetrix standard protocols, www.affymetrix.com
Sample_scan_protocol	see Affymetrix standard protocols, www.affymetrix.com
Sample_data_processing	RMA. Controls were removed, like all genes with low and poorly measured expression as defined by an expression value inferior to 100 units in all samples and a SD less than 0.15 on log2-transformed data. Thus, 10861 probe sets were selected and analysed.
Sample_platform_id	GPL1261
Sample_contact_name	Pascal,,FINETTI
Sample_contact_email	finettip@ipc.unicancer.fnclcc.fr
Sample_contact_phone	(33)+4 91 22 33 04
Sample_contact_laboratory	Molecular Oncology
Sample_contact_department	Centre de cancérologie de Marseille
Sample_contact_institute	Institut Paoli-Calmettes
Sample_contact_address	232 Bd Ste Marguerite
Sample_contact_city	Marseille
Sample_contact_state	BdR
Sample_contact_zip/postal_code	13009
Sample_contact_country	France
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM531nnn/GSM531317/suppl/GSM531317.CEL.gz
Sample_series_id	GSE21255
Sample_data_row_count	10861

GSM531318

GPL1261

EML.D816V.48H

lymphohematopoietic cell line

cell line: EML genotype/variation: D816V KIT mutant time point: 48 hours agent: 250 ng/mL SCF

EML

Sample_geo_accession	GSM531318
Sample_status	Public on Apr 10 2010
Sample_submission_date	Apr 08 2010
Sample_last_update_date	Apr 09 2010
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	EML cells were transduced by using PhoenixTM retroviral expression system (ATCC, LGC-Standards, France). Phoenix cells were first transfected with pLXSN vectors containing the c-kit constructs or pMSCVpuro- (Myr)EGFP-AKT by using Fugene 6 (Roche Applied Science, Indianapolis) according to the manufacturer’s instructions. 48 hours later, retroviral supernatants were used to infect EML cells. 24 hours after transfection, cells were selected with 0.4 mg/mL (EML cells) of geneticin (Invitrogen SARL, France) for 14 days. EML cells transfected with KIT mutants were further grown in growth factor-free medium in order to obtain autonomous populations. Cells expressing KIT variants were selected by using ARIA cell sorter (Becton Dickinson, San Jose, CA) to obtain homogenous populations.
Sample_growth_protocol_ch1	EML cells were grown in RPMI 1640 medium supplemented with 20% FBS and 250 ng/ml murine SCF. COS-7, R4 MEFs, Phoenix A, and GP+E-86 retrovirus-packaging cell lines were maintained in Dulbecco's modified Eagle's medium supplemented with 10% FBS and 0.5 mg/ml sodium pyruvate. All of the media and sera were purchased from Invitrogen.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Qiagen RNeasy mini kits. On column, DNase digestion was used.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	see Affymetrix standard protocols, www.affymetrix.com
Sample_hyb_protocol	see Affymetrix standard protocols, www.affymetrix.com
Sample_scan_protocol	see Affymetrix standard protocols, www.affymetrix.com
Sample_data_processing	RMA. Controls were removed, like all genes with low and poorly measured expression as defined by an expression value inferior to 100 units in all samples and a SD less than 0.15 on log2-transformed data. Thus, 10861 probe sets were selected and analysed.
Sample_platform_id	GPL1261
Sample_contact_name	Pascal,,FINETTI
Sample_contact_email	finettip@ipc.unicancer.fnclcc.fr
Sample_contact_phone	(33)+4 91 22 33 04
Sample_contact_laboratory	Molecular Oncology
Sample_contact_department	Centre de cancérologie de Marseille
Sample_contact_institute	Institut Paoli-Calmettes
Sample_contact_address	232 Bd Ste Marguerite
Sample_contact_city	Marseille
Sample_contact_state	BdR
Sample_contact_zip/postal_code	13009
Sample_contact_country	France
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM531nnn/GSM531318/suppl/GSM531318.CEL.gz
Sample_series_id	GSE21255
Sample_data_row_count	10861

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