Result

Search results for the GEO ID: GSE44968

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Title

Source name

Description

Characteristics

GSM1094680

GPL570

RPMI-8226 cells, without LV infection

cell line: RPMI-8226 cell type: multiple myeloma cell

Sample_geo_accession	GSM1094680
Sample_status	Public on Mar 09 2013
Sample_submission_date	Mar 08 2013
Sample_last_update_date	Mar 09 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Lentivirus transductions were performed with lentivirus-containing supernatant diluted to 30-50% in IMDM/10% FCS over 16 hrs at 37˚C/5%CO2, using 8 μg/mL of polybrene (Sigma) . Cells were harvested at 96hours
Sample_growth_protocol_ch1	Cells were cultured in IMDM 10%FBS supplmented with glutamine at 37oC in 5%CO2
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was purified by RNAeasy according to the manufacturer's instructions, and was column purified with RNeasy MinElute Cleanup Kit (Qiagen).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	cDNA synthesis and cRNA preparation was performed as recommended by Affymetrix.
Sample_hyb_protocol	Hybridization to Affymetrix HG-U133 Plus 2.0 GeneChip microarrays (Affymetrix) was performed as recommended by the manufacturer.
Sample_scan_protocol	As recommended by the manufacturer
Sample_data_processing	The data were analyzed with RMA using GenSpringGX default settings including quantile normalization and baseline transformation to the median of all samples.A filter for expressed genes was implemented per cell line and arbitrarily set at >20%-ile expression in at least one sample per cell line. Separate XBP1 transcription factor and IRE1 signatures were derived as all expressed genes will >2-fold decline in expression in at least one cell line with either shXBP1 or shIRE1 treatment versus control NT shRNA treatment.
Sample_platform_id	GPL570
Sample_contact_name	Rodger,E,Tiedemann
Sample_contact_laboratory	Tiedemann
Sample_contact_department	Medical Oncology and Hematology
Sample_contact_institute	University Health Network, University of Toronto, Princess Margaret Cancer Centre
Sample_contact_address	610 University Avenue
Sample_contact_city	Toronto
Sample_contact_state	ON
Sample_contact_zip/postal_code	M5G 2M9
Sample_contact_country	Canada
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1094nnn/GSM1094680/suppl/GSM1094680_8226-11637HG-U133_Plus_2.CEL.gz
Sample_series_id	GSE44968
Sample_data_row_count	54675

GSM1094681

GPL570

RPMI-8226 cells, infected with LV expressing a non-targeted (NT) shRNA

cell line: RPMI-8226 cell type: multiple myeloma cell

Sample_geo_accession	GSM1094681
Sample_status	Public on Mar 09 2013
Sample_submission_date	Mar 08 2013
Sample_last_update_date	Mar 09 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Lentivirus transductions were performed with lentivirus-containing supernatant diluted to 30-50% in IMDM/10% FCS over 16 hrs at 37˚C/5%CO2, using 8 μg/mL of polybrene (Sigma) . Cells were harvested at 96hours
Sample_growth_protocol_ch1	Cells were cultured in IMDM 10%FBS supplmented with glutamine at 37oC in 5%CO2
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was purified by RNAeasy according to the manufacturer's instructions, and was column purified with RNeasy MinElute Cleanup Kit (Qiagen).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	cDNA synthesis and cRNA preparation was performed as recommended by Affymetrix.
Sample_hyb_protocol	Hybridization to Affymetrix HG-U133 Plus 2.0 GeneChip microarrays (Affymetrix) was performed as recommended by the manufacturer.
Sample_scan_protocol	As recommended by the manufacturer
Sample_data_processing	The data were analyzed with RMA using GenSpringGX default settings including quantile normalization and baseline transformation to the median of all samples.A filter for expressed genes was implemented per cell line and arbitrarily set at >20%-ile expression in at least one sample per cell line. Separate XBP1 transcription factor and IRE1 signatures were derived as all expressed genes will >2-fold decline in expression in at least one cell line with either shXBP1 or shIRE1 treatment versus control NT shRNA treatment.
Sample_platform_id	GPL570
Sample_contact_name	Rodger,E,Tiedemann
Sample_contact_laboratory	Tiedemann
Sample_contact_department	Medical Oncology and Hematology
Sample_contact_institute	University Health Network, University of Toronto, Princess Margaret Cancer Centre
Sample_contact_address	610 University Avenue
Sample_contact_city	Toronto
Sample_contact_state	ON
Sample_contact_zip/postal_code	M5G 2M9
Sample_contact_country	Canada
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1094nnn/GSM1094681/suppl/GSM1094681_8226-11638HG-U133_Plus_2.CEL.gz
Sample_series_id	GSE44968
Sample_data_row_count	54675

GSM1094682

GPL570

RPMI-8226 cells, infected with LV expressing an shRNA vs. XBP1

cell line: RPMI-8226 cell type: multiple myeloma cell

Sample_geo_accession	GSM1094682
Sample_status	Public on Mar 09 2013
Sample_submission_date	Mar 08 2013
Sample_last_update_date	Mar 09 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Lentivirus transductions were performed with lentivirus-containing supernatant diluted to 30-50% in IMDM/10% FCS over 16 hrs at 37˚C/5%CO2, using 8 μg/mL of polybrene (Sigma) . Cells were harvested at 96hours
Sample_growth_protocol_ch1	Cells were cultured in IMDM 10%FBS supplmented with glutamine at 37oC in 5%CO2
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was purified by RNAeasy according to the manufacturer's instructions, and was column purified with RNeasy MinElute Cleanup Kit (Qiagen).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	cDNA synthesis and cRNA preparation was performed as recommended by Affymetrix.
Sample_hyb_protocol	Hybridization to Affymetrix HG-U133 Plus 2.0 GeneChip microarrays (Affymetrix) was performed as recommended by the manufacturer.
Sample_scan_protocol	As recommended by the manufacturer
Sample_data_processing	The data were analyzed with RMA using GenSpringGX default settings including quantile normalization and baseline transformation to the median of all samples.A filter for expressed genes was implemented per cell line and arbitrarily set at >20%-ile expression in at least one sample per cell line. Separate XBP1 transcription factor and IRE1 signatures were derived as all expressed genes will >2-fold decline in expression in at least one cell line with either shXBP1 or shIRE1 treatment versus control NT shRNA treatment.
Sample_platform_id	GPL570
Sample_contact_name	Rodger,E,Tiedemann
Sample_contact_laboratory	Tiedemann
Sample_contact_department	Medical Oncology and Hematology
Sample_contact_institute	University Health Network, University of Toronto, Princess Margaret Cancer Centre
Sample_contact_address	610 University Avenue
Sample_contact_city	Toronto
Sample_contact_state	ON
Sample_contact_zip/postal_code	M5G 2M9
Sample_contact_country	Canada
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1094nnn/GSM1094682/suppl/GSM1094682_8226-11639HG-U133_Plus_2.CEL.gz
Sample_series_id	GSE44968
Sample_data_row_count	54675

GSM1094683

GPL570

RPMI-8226 cells, infected with LV expressing an shRNA vs. IRE1

cell line: RPMI-8226 cell type: multiple myeloma cell

Sample_geo_accession	GSM1094683
Sample_status	Public on Mar 09 2013
Sample_submission_date	Mar 08 2013
Sample_last_update_date	Mar 09 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Lentivirus transductions were performed with lentivirus-containing supernatant diluted to 30-50% in IMDM/10% FCS over 16 hrs at 37˚C/5%CO2, using 8 μg/mL of polybrene (Sigma) . Cells were harvested at 96hours
Sample_growth_protocol_ch1	Cells were cultured in IMDM 10%FBS supplmented with glutamine at 37oC in 5%CO2
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was purified by RNAeasy according to the manufacturer's instructions, and was column purified with RNeasy MinElute Cleanup Kit (Qiagen).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	cDNA synthesis and cRNA preparation was performed as recommended by Affymetrix.
Sample_hyb_protocol	Hybridization to Affymetrix HG-U133 Plus 2.0 GeneChip microarrays (Affymetrix) was performed as recommended by the manufacturer.
Sample_scan_protocol	As recommended by the manufacturer
Sample_data_processing	The data were analyzed with RMA using GenSpringGX default settings including quantile normalization and baseline transformation to the median of all samples.A filter for expressed genes was implemented per cell line and arbitrarily set at >20%-ile expression in at least one sample per cell line. Separate XBP1 transcription factor and IRE1 signatures were derived as all expressed genes will >2-fold decline in expression in at least one cell line with either shXBP1 or shIRE1 treatment versus control NT shRNA treatment.
Sample_platform_id	GPL570
Sample_contact_name	Rodger,E,Tiedemann
Sample_contact_laboratory	Tiedemann
Sample_contact_department	Medical Oncology and Hematology
Sample_contact_institute	University Health Network, University of Toronto, Princess Margaret Cancer Centre
Sample_contact_address	610 University Avenue
Sample_contact_city	Toronto
Sample_contact_state	ON
Sample_contact_zip/postal_code	M5G 2M9
Sample_contact_country	Canada
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1094nnn/GSM1094683/suppl/GSM1094683_8226-11640HG-U133_Plus_2.CEL.gz
Sample_series_id	GSE44968
Sample_data_row_count	54675

GSM1094684

GPL570

JJN3 cells, without LV infection

cell line: JJN3 cell type: multiple myeloma cell

Sample_geo_accession	GSM1094684
Sample_status	Public on Mar 09 2013
Sample_submission_date	Mar 08 2013
Sample_last_update_date	Mar 09 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Lentivirus transductions were performed with lentivirus-containing supernatant diluted to 30-50% in IMDM/10% FCS over 16 hrs at 37˚C/5%CO2, using 8 μg/mL of polybrene (Sigma) . Cells were harvested at 96hours
Sample_growth_protocol_ch1	Cells were cultured in IMDM 10%FBS supplmented with glutamine at 37oC in 5%CO2
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was purified by RNAeasy according to the manufacturer's instructions, and was column purified with RNeasy MinElute Cleanup Kit (Qiagen).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	cDNA synthesis and cRNA preparation was performed as recommended by Affymetrix.
Sample_hyb_protocol	Hybridization to Affymetrix HG-U133 Plus 2.0 GeneChip microarrays (Affymetrix) was performed as recommended by the manufacturer.
Sample_scan_protocol	As recommended by the manufacturer
Sample_data_processing	The data were analyzed with RMA using GenSpringGX default settings including quantile normalization and baseline transformation to the median of all samples.A filter for expressed genes was implemented per cell line and arbitrarily set at >20%-ile expression in at least one sample per cell line. Separate XBP1 transcription factor and IRE1 signatures were derived as all expressed genes will >2-fold decline in expression in at least one cell line with either shXBP1 or shIRE1 treatment versus control NT shRNA treatment.
Sample_platform_id	GPL570
Sample_contact_name	Rodger,E,Tiedemann
Sample_contact_laboratory	Tiedemann
Sample_contact_department	Medical Oncology and Hematology
Sample_contact_institute	University Health Network, University of Toronto, Princess Margaret Cancer Centre
Sample_contact_address	610 University Avenue
Sample_contact_city	Toronto
Sample_contact_state	ON
Sample_contact_zip/postal_code	M5G 2M9
Sample_contact_country	Canada
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1094nnn/GSM1094684/suppl/GSM1094684_Jjn011575HG-U133_Plus_2.cel.gz
Sample_series_id	GSE44968
Sample_data_row_count	54675

GSM1094685

GPL570

JJN3 cells, infected with LV expressing a non-targeted (NT) shRNA

cell line: JJN3 cell type: multiple myeloma cell

Sample_geo_accession	GSM1094685
Sample_status	Public on Mar 09 2013
Sample_submission_date	Mar 08 2013
Sample_last_update_date	Mar 09 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Lentivirus transductions were performed with lentivirus-containing supernatant diluted to 30-50% in IMDM/10% FCS over 16 hrs at 37˚C/5%CO2, using 8 μg/mL of polybrene (Sigma) . Cells were harvested at 96hours
Sample_growth_protocol_ch1	Cells were cultured in IMDM 10%FBS supplmented with glutamine at 37oC in 5%CO2
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was purified by RNAeasy according to the manufacturer's instructions, and was column purified with RNeasy MinElute Cleanup Kit (Qiagen).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	cDNA synthesis and cRNA preparation was performed as recommended by Affymetrix.
Sample_hyb_protocol	Hybridization to Affymetrix HG-U133 Plus 2.0 GeneChip microarrays (Affymetrix) was performed as recommended by the manufacturer.
Sample_scan_protocol	As recommended by the manufacturer
Sample_data_processing	The data were analyzed with RMA using GenSpringGX default settings including quantile normalization and baseline transformation to the median of all samples.A filter for expressed genes was implemented per cell line and arbitrarily set at >20%-ile expression in at least one sample per cell line. Separate XBP1 transcription factor and IRE1 signatures were derived as all expressed genes will >2-fold decline in expression in at least one cell line with either shXBP1 or shIRE1 treatment versus control NT shRNA treatment.
Sample_platform_id	GPL570
Sample_contact_name	Rodger,E,Tiedemann
Sample_contact_laboratory	Tiedemann
Sample_contact_department	Medical Oncology and Hematology
Sample_contact_institute	University Health Network, University of Toronto, Princess Margaret Cancer Centre
Sample_contact_address	610 University Avenue
Sample_contact_city	Toronto
Sample_contact_state	ON
Sample_contact_zip/postal_code	M5G 2M9
Sample_contact_country	Canada
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1094nnn/GSM1094685/suppl/GSM1094685_Jjn011576HG-U133_Plus_2.cel.gz
Sample_series_id	GSE44968
Sample_data_row_count	54675

GSM1094686

GPL570

JJN3 cells, infected with LV expressing an shRNA vs. XBP1

cell line: JJN3 cell type: multiple myeloma cell

Sample_geo_accession	GSM1094686
Sample_status	Public on Mar 09 2013
Sample_submission_date	Mar 08 2013
Sample_last_update_date	Mar 09 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Lentivirus transductions were performed with lentivirus-containing supernatant diluted to 30-50% in IMDM/10% FCS over 16 hrs at 37˚C/5%CO2, using 8 μg/mL of polybrene (Sigma) . Cells were harvested at 96hours
Sample_growth_protocol_ch1	Cells were cultured in IMDM 10%FBS supplmented with glutamine at 37oC in 5%CO2
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was purified by RNAeasy according to the manufacturer's instructions, and was column purified with RNeasy MinElute Cleanup Kit (Qiagen).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	cDNA synthesis and cRNA preparation was performed as recommended by Affymetrix.
Sample_hyb_protocol	Hybridization to Affymetrix HG-U133 Plus 2.0 GeneChip microarrays (Affymetrix) was performed as recommended by the manufacturer.
Sample_scan_protocol	As recommended by the manufacturer
Sample_data_processing	The data were analyzed with RMA using GenSpringGX default settings including quantile normalization and baseline transformation to the median of all samples.A filter for expressed genes was implemented per cell line and arbitrarily set at >20%-ile expression in at least one sample per cell line. Separate XBP1 transcription factor and IRE1 signatures were derived as all expressed genes will >2-fold decline in expression in at least one cell line with either shXBP1 or shIRE1 treatment versus control NT shRNA treatment.
Sample_platform_id	GPL570
Sample_contact_name	Rodger,E,Tiedemann
Sample_contact_laboratory	Tiedemann
Sample_contact_department	Medical Oncology and Hematology
Sample_contact_institute	University Health Network, University of Toronto, Princess Margaret Cancer Centre
Sample_contact_address	610 University Avenue
Sample_contact_city	Toronto
Sample_contact_state	ON
Sample_contact_zip/postal_code	M5G 2M9
Sample_contact_country	Canada
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1094nnn/GSM1094686/suppl/GSM1094686_Jjn011577HG-U133_Plus_2.cel.gz
Sample_series_id	GSE44968
Sample_data_row_count	54675

GSM1094687

GPL570

JJN3 cells, infected with LV expressing an shRNA vs. IRE1

cell line: JJN3 cell type: multiple myeloma cell

Sample_geo_accession	GSM1094687
Sample_status	Public on Mar 09 2013
Sample_submission_date	Mar 08 2013
Sample_last_update_date	Mar 09 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Lentivirus transductions were performed with lentivirus-containing supernatant diluted to 30-50% in IMDM/10% FCS over 16 hrs at 37˚C/5%CO2, using 8 μg/mL of polybrene (Sigma) . Cells were harvested at 96hours
Sample_growth_protocol_ch1	Cells were cultured in IMDM 10%FBS supplmented with glutamine at 37oC in 5%CO2
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was purified by RNAeasy according to the manufacturer's instructions, and was column purified with RNeasy MinElute Cleanup Kit (Qiagen).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	cDNA synthesis and cRNA preparation was performed as recommended by Affymetrix.
Sample_hyb_protocol	Hybridization to Affymetrix HG-U133 Plus 2.0 GeneChip microarrays (Affymetrix) was performed as recommended by the manufacturer.
Sample_scan_protocol	As recommended by the manufacturer
Sample_data_processing	The data were analyzed with RMA using GenSpringGX default settings including quantile normalization and baseline transformation to the median of all samples.A filter for expressed genes was implemented per cell line and arbitrarily set at >20%-ile expression in at least one sample per cell line. Separate XBP1 transcription factor and IRE1 signatures were derived as all expressed genes will >2-fold decline in expression in at least one cell line with either shXBP1 or shIRE1 treatment versus control NT shRNA treatment.
Sample_platform_id	GPL570
Sample_contact_name	Rodger,E,Tiedemann
Sample_contact_laboratory	Tiedemann
Sample_contact_department	Medical Oncology and Hematology
Sample_contact_institute	University Health Network, University of Toronto, Princess Margaret Cancer Centre
Sample_contact_address	610 University Avenue
Sample_contact_city	Toronto
Sample_contact_state	ON
Sample_contact_zip/postal_code	M5G 2M9
Sample_contact_country	Canada
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1094nnn/GSM1094687/suppl/GSM1094687_Jjn011578HG-U133_Plus_2.cel.gz
Sample_series_id	GSE44968
Sample_data_row_count	54675

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