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Search results for the GEO ID: GSE43897

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Description

Characteristics

GSM1074128

GPL1261

OSE_ALDH1 negative_rep1

Mouse ovarian surface epithelium ALDH1 negative cells

tissue: ovarian surface epithelium strain: FVB/N age: 2 months cell type: OSE genotype/variation: ALDH1 neg

Gene expression data from ALDH negative OSE cells

Sample_geo_accession	GSM1074128
Sample_status	Public on Jan 31 2013
Sample_submission_date	Jan 30 2013
Sample_last_update_date	Jan 31 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	For detection of ALDH enzymatic activity primary OSE cells (4 x105 – 4 x106) were placed in ALDEFLUOR buffer and processed for staining with the ALDEFLUOR Kit (Aldagen, Durham, NC) according to the manufacture's protocol. Cell sorting and data analysis were performed on a FACS Aria II sorter equipped with the FACS DiVa software (BD Bioscience, San Diego, CA). Unstained and ALDH inhibitor (diethylaminobenzaldehyde, DEAB)-treated cells served as controls. ALDH positive and ALDH negative OSE cells were collected in 0.5 ml OSE-SCM and subjected to RNA isolation.
Sample_growth_protocol_ch1	Individual ovaries were dissected from 8 weeks old virgin FVB/N mice, transferred to 100 µl digestion-buffer, incubated for 55 minutes at 37ºC in a 5 % CO2 incubator. After the incubation, ovaries were removed, 5 ml complete OSE Stem Cell Medium was added, cells were collected by centrifugation and 1 - 2 x 104 cells were seeded onto one gelatinized 24 well in OSE-SCM incubation at 5 % CO2 for 24 hrs.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated using a mirVana miRNA isolation kit (Ambion, Austin, TX). Ovation Pico WTA System V2 (NuGen, San Carlos, CA) was used to amplify cDNA.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	cDNA was labeled with biotin using Encore Biotin Module (NuGen).
Sample_hyb_protocol	5 µg amplified and labeled cDNA was hybridized for 18 hr at 45°C onto Affymetrix Mouse Genome 430 2.0 array.
Sample_scan_protocol	GeneChips were scanned using the GeneArray scanner 3000.
Sample_data_processing	Array data were normalized to the all median signal intensity value for each experiment (each gene chip) and signal values were log base 2 transformed.
Sample_data_processing	Microarray data were analyzed with GeneSifter software (Geospiza, Seattle, WA). To identify genes significantly altered in ALDH1 positive population, we performed paired two group analysis with SAM (Significance Analysis of Microarrays) software (http://www-stat.stanford.edu/∼tibs/SAM) and visualized with Treeview software (http://rana.lbl.gov).
Sample_platform_id	GPL1261
Sample_contact_name	Alexander,,Nikitin
Sample_contact_email	an58@cornell.edu
Sample_contact_laboratory	Nikitin Lab
Sample_contact_department	Biomedical Sciences
Sample_contact_institute	Cornell University
Sample_contact_address	T2 014A VRT Campus Road
Sample_contact_city	Ithaca
Sample_contact_state	New York
Sample_contact_zip/postal_code	14853
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1074nnn/GSM1074128/suppl/GSM1074128_Mouse_ALDH1_neg_1.CEL.gz
Sample_series_id	GSE43897
Sample_data_row_count	45101

GSM1074129

GPL1261

OSE_ALDH1 negative_rep2

Mouse ovarian surface epithelium ALDH1 negative cells

tissue: ovarian surface epithelium strain: FVB/N age: 2 months cell type: OSE genotype/variation: ALDH1 neg

Gene expression data from ALDH negative OSE cells

Sample_geo_accession	GSM1074129
Sample_status	Public on Jan 31 2013
Sample_submission_date	Jan 30 2013
Sample_last_update_date	Jan 31 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	For detection of ALDH enzymatic activity primary OSE cells (4 x105 – 4 x106) were placed in ALDEFLUOR buffer and processed for staining with the ALDEFLUOR Kit (Aldagen, Durham, NC) according to the manufacture's protocol. Cell sorting and data analysis were performed on a FACS Aria II sorter equipped with the FACS DiVa software (BD Bioscience, San Diego, CA). Unstained and ALDH inhibitor (diethylaminobenzaldehyde, DEAB)-treated cells served as controls. ALDH positive and ALDH negative OSE cells were collected in 0.5 ml OSE-SCM and subjected to RNA isolation.
Sample_growth_protocol_ch1	Individual ovaries were dissected from 8 weeks old virgin FVB/N mice, transferred to 100 µl digestion-buffer, incubated for 55 minutes at 37ºC in a 5 % CO2 incubator. After the incubation, ovaries were removed, 5 ml complete OSE Stem Cell Medium was added, cells were collected by centrifugation and 1 - 2 x 104 cells were seeded onto one gelatinized 24 well in OSE-SCM incubation at 5 % CO2 for 24 hrs.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated using a mirVana miRNA isolation kit (Ambion, Austin, TX). Ovation Pico WTA System V2 (NuGen, San Carlos, CA) was used to amplify cDNA.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	cDNA was labeled with biotin using Encore Biotin Module (NuGen).
Sample_hyb_protocol	5 µg amplified and labeled cDNA was hybridized for 18 hr at 45°C onto Affymetrix Mouse Genome 430 2.0 array.
Sample_scan_protocol	GeneChips were scanned using the GeneArray scanner 3000.
Sample_data_processing	Array data were normalized to the all median signal intensity value for each experiment (each gene chip) and signal values were log base 2 transformed.
Sample_data_processing	Microarray data were analyzed with GeneSifter software (Geospiza, Seattle, WA). To identify genes significantly altered in ALDH1 positive population, we performed paired two group analysis with SAM (Significance Analysis of Microarrays) software (http://www-stat.stanford.edu/∼tibs/SAM) and visualized with Treeview software (http://rana.lbl.gov).
Sample_platform_id	GPL1261
Sample_contact_name	Alexander,,Nikitin
Sample_contact_email	an58@cornell.edu
Sample_contact_laboratory	Nikitin Lab
Sample_contact_department	Biomedical Sciences
Sample_contact_institute	Cornell University
Sample_contact_address	T2 014A VRT Campus Road
Sample_contact_city	Ithaca
Sample_contact_state	New York
Sample_contact_zip/postal_code	14853
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1074nnn/GSM1074129/suppl/GSM1074129_Mouse_ALDH1_neg_2.CEL.gz
Sample_series_id	GSE43897
Sample_data_row_count	45101

GSM1074130

GPL1261

OSE_ALDH1 negative_rep3

Mouse ovarian surface epithelium ALDH1 negative cells

tissue: ovarian surface epithelium strain: FVB/N age: 2 months cell type: OSE genotype/variation: ALDH1 neg

Gene expression data from ALDH negative OSE cells

Sample_geo_accession	GSM1074130
Sample_status	Public on Jan 31 2013
Sample_submission_date	Jan 30 2013
Sample_last_update_date	Jan 31 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	For detection of ALDH enzymatic activity primary OSE cells (4 x105 – 4 x106) were placed in ALDEFLUOR buffer and processed for staining with the ALDEFLUOR Kit (Aldagen, Durham, NC) according to the manufacture's protocol. Cell sorting and data analysis were performed on a FACS Aria II sorter equipped with the FACS DiVa software (BD Bioscience, San Diego, CA). Unstained and ALDH inhibitor (diethylaminobenzaldehyde, DEAB)-treated cells served as controls. ALDH positive and ALDH negative OSE cells were collected in 0.5 ml OSE-SCM and subjected to RNA isolation.
Sample_growth_protocol_ch1	Individual ovaries were dissected from 8 weeks old virgin FVB/N mice, transferred to 100 µl digestion-buffer, incubated for 55 minutes at 37ºC in a 5 % CO2 incubator. After the incubation, ovaries were removed, 5 ml complete OSE Stem Cell Medium was added, cells were collected by centrifugation and 1 - 2 x 104 cells were seeded onto one gelatinized 24 well in OSE-SCM incubation at 5 % CO2 for 24 hrs.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated using a mirVana miRNA isolation kit (Ambion, Austin, TX). Ovation Pico WTA System V2 (NuGen, San Carlos, CA) was used to amplify cDNA.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	cDNA was labeled with biotin using Encore Biotin Module (NuGen).
Sample_hyb_protocol	5 µg amplified and labeled cDNA was hybridized for 18 hr at 45°C onto Affymetrix Mouse Genome 430 2.0 array.
Sample_scan_protocol	GeneChips were scanned using the GeneArray scanner 3000.
Sample_data_processing	Array data were normalized to the all median signal intensity value for each experiment (each gene chip) and signal values were log base 2 transformed.
Sample_data_processing	Microarray data were analyzed with GeneSifter software (Geospiza, Seattle, WA). To identify genes significantly altered in ALDH1 positive population, we performed paired two group analysis with SAM (Significance Analysis of Microarrays) software (http://www-stat.stanford.edu/∼tibs/SAM) and visualized with Treeview software (http://rana.lbl.gov).
Sample_platform_id	GPL1261
Sample_contact_name	Alexander,,Nikitin
Sample_contact_email	an58@cornell.edu
Sample_contact_laboratory	Nikitin Lab
Sample_contact_department	Biomedical Sciences
Sample_contact_institute	Cornell University
Sample_contact_address	T2 014A VRT Campus Road
Sample_contact_city	Ithaca
Sample_contact_state	New York
Sample_contact_zip/postal_code	14853
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1074nnn/GSM1074130/suppl/GSM1074130_Mouse_ALDH1_neg_3.CEL.gz
Sample_series_id	GSE43897
Sample_data_row_count	45101

GSM1074131

GPL1261

OSE_ALDH1 positive_rep1

Mouse ovarian surface epithelium ALDH1 positive cells

tissue: ovarian surface epithelium strain: FVB/N age: 2 months cell type: OSE genotype/variation: ALDH1 pos

Gene expression data from ALDH positive OSE cells

Sample_geo_accession	GSM1074131
Sample_status	Public on Jan 31 2013
Sample_submission_date	Jan 30 2013
Sample_last_update_date	Jan 31 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	For detection of ALDH enzymatic activity primary OSE cells (4 x105 – 4 x106) were placed in ALDEFLUOR buffer and processed for staining with the ALDEFLUOR Kit (Aldagen, Durham, NC) according to the manufacture's protocol. Cell sorting and data analysis were performed on a FACS Aria II sorter equipped with the FACS DiVa software (BD Bioscience, San Diego, CA). Unstained and ALDH inhibitor (diethylaminobenzaldehyde, DEAB)-treated cells served as controls. ALDH positive and ALDH negative OSE cells were collected in 0.5 ml OSE-SCM and subjected to RNA isolation.
Sample_growth_protocol_ch1	Individual ovaries were dissected from 8 weeks old virgin FVB/N mice, transferred to 100 µl digestion-buffer, incubated for 55 minutes at 37ºC in a 5 % CO2 incubator. After the incubation, ovaries were removed, 5 ml complete OSE Stem Cell Medium was added, cells were collected by centrifugation and 1 - 2 x 104 cells were seeded onto one gelatinized 24 well in OSE-SCM incubation at 5 % CO2 for 24 hrs.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated using a mirVana miRNA isolation kit (Ambion, Austin, TX). Ovation Pico WTA System V2 (NuGen, San Carlos, CA) was used to amplify cDNA.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	cDNA was labeled with biotin using Encore Biotin Module (NuGen).
Sample_hyb_protocol	5 µg amplified and labeled cDNA was hybridized for 18 hr at 45°C onto Affymetrix Mouse Genome 430 2.0 array.
Sample_scan_protocol	GeneChips were scanned using the GeneArray scanner 3000.
Sample_data_processing	Array data were normalized to the all median signal intensity value for each experiment (each gene chip) and signal values were log base 2 transformed.
Sample_data_processing	Microarray data were analyzed with GeneSifter software (Geospiza, Seattle, WA). To identify genes significantly altered in ALDH1 positive population, we performed paired two group analysis with SAM (Significance Analysis of Microarrays) software (http://www-stat.stanford.edu/∼tibs/SAM) and visualized with Treeview software (http://rana.lbl.gov).
Sample_platform_id	GPL1261
Sample_contact_name	Alexander,,Nikitin
Sample_contact_email	an58@cornell.edu
Sample_contact_laboratory	Nikitin Lab
Sample_contact_department	Biomedical Sciences
Sample_contact_institute	Cornell University
Sample_contact_address	T2 014A VRT Campus Road
Sample_contact_city	Ithaca
Sample_contact_state	New York
Sample_contact_zip/postal_code	14853
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1074nnn/GSM1074131/suppl/GSM1074131_Mouse_ALDH1_pos_1.CEL.gz
Sample_series_id	GSE43897
Sample_data_row_count	45101

GSM1074132

GPL1261

OSE_ALDH1 positive_rep2

Mouse ovarian surface epithelium ALDH1 positive cells

tissue: ovarian surface epithelium strain: FVB/N age: 2 months cell type: OSE genotype/variation: ALDH1 pos

Gene expression data from ALDH positive OSE cells

Sample_geo_accession	GSM1074132
Sample_status	Public on Jan 31 2013
Sample_submission_date	Jan 30 2013
Sample_last_update_date	Jan 31 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	For detection of ALDH enzymatic activity primary OSE cells (4 x105 – 4 x106) were placed in ALDEFLUOR buffer and processed for staining with the ALDEFLUOR Kit (Aldagen, Durham, NC) according to the manufacture's protocol. Cell sorting and data analysis were performed on a FACS Aria II sorter equipped with the FACS DiVa software (BD Bioscience, San Diego, CA). Unstained and ALDH inhibitor (diethylaminobenzaldehyde, DEAB)-treated cells served as controls. ALDH positive and ALDH negative OSE cells were collected in 0.5 ml OSE-SCM and subjected to RNA isolation.
Sample_growth_protocol_ch1	Individual ovaries were dissected from 8 weeks old virgin FVB/N mice, transferred to 100 µl digestion-buffer, incubated for 55 minutes at 37ºC in a 5 % CO2 incubator. After the incubation, ovaries were removed, 5 ml complete OSE Stem Cell Medium was added, cells were collected by centrifugation and 1 - 2 x 104 cells were seeded onto one gelatinized 24 well in OSE-SCM incubation at 5 % CO2 for 24 hrs.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated using a mirVana miRNA isolation kit (Ambion, Austin, TX). Ovation Pico WTA System V2 (NuGen, San Carlos, CA) was used to amplify cDNA.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	cDNA was labeled with biotin using Encore Biotin Module (NuGen).
Sample_hyb_protocol	5 µg amplified and labeled cDNA was hybridized for 18 hr at 45°C onto Affymetrix Mouse Genome 430 2.0 array.
Sample_scan_protocol	GeneChips were scanned using the GeneArray scanner 3000.
Sample_data_processing	Array data were normalized to the all median signal intensity value for each experiment (each gene chip) and signal values were log base 2 transformed.
Sample_data_processing	Microarray data were analyzed with GeneSifter software (Geospiza, Seattle, WA). To identify genes significantly altered in ALDH1 positive population, we performed paired two group analysis with SAM (Significance Analysis of Microarrays) software (http://www-stat.stanford.edu/∼tibs/SAM) and visualized with Treeview software (http://rana.lbl.gov).
Sample_platform_id	GPL1261
Sample_contact_name	Alexander,,Nikitin
Sample_contact_email	an58@cornell.edu
Sample_contact_laboratory	Nikitin Lab
Sample_contact_department	Biomedical Sciences
Sample_contact_institute	Cornell University
Sample_contact_address	T2 014A VRT Campus Road
Sample_contact_city	Ithaca
Sample_contact_state	New York
Sample_contact_zip/postal_code	14853
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1074nnn/GSM1074132/suppl/GSM1074132_Mouse_ALDH1_pos_2.CEL.gz
Sample_series_id	GSE43897
Sample_data_row_count	45101

GSM1074133

GPL1261

OSE_ALDH1 positive_rep3

Mouse ovarian surface epithelium ALDH1 positive cells

tissue: ovarian surface epithelium strain: FVB/N age: 2 months cell type: OSE genotype/variation: ALDH1 pos

Gene expression data from ALDH positive OSE cells

Sample_geo_accession	GSM1074133
Sample_status	Public on Jan 31 2013
Sample_submission_date	Jan 30 2013
Sample_last_update_date	Jan 31 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	For detection of ALDH enzymatic activity primary OSE cells (4 x105 – 4 x106) were placed in ALDEFLUOR buffer and processed for staining with the ALDEFLUOR Kit (Aldagen, Durham, NC) according to the manufacture's protocol. Cell sorting and data analysis were performed on a FACS Aria II sorter equipped with the FACS DiVa software (BD Bioscience, San Diego, CA). Unstained and ALDH inhibitor (diethylaminobenzaldehyde, DEAB)-treated cells served as controls. ALDH positive and ALDH negative OSE cells were collected in 0.5 ml OSE-SCM and subjected to RNA isolation.
Sample_growth_protocol_ch1	Individual ovaries were dissected from 8 weeks old virgin FVB/N mice, transferred to 100 µl digestion-buffer, incubated for 55 minutes at 37ºC in a 5 % CO2 incubator. After the incubation, ovaries were removed, 5 ml complete OSE Stem Cell Medium was added, cells were collected by centrifugation and 1 - 2 x 104 cells were seeded onto one gelatinized 24 well in OSE-SCM incubation at 5 % CO2 for 24 hrs.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated using a mirVana miRNA isolation kit (Ambion, Austin, TX). Ovation Pico WTA System V2 (NuGen, San Carlos, CA) was used to amplify cDNA.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	cDNA was labeled with biotin using Encore Biotin Module (NuGen).
Sample_hyb_protocol	5 µg amplified and labeled cDNA was hybridized for 18 hr at 45°C onto Affymetrix Mouse Genome 430 2.0 array.
Sample_scan_protocol	GeneChips were scanned using the GeneArray scanner 3000.
Sample_data_processing	Array data were normalized to the all median signal intensity value for each experiment (each gene chip) and signal values were log base 2 transformed.
Sample_data_processing	Microarray data were analyzed with GeneSifter software (Geospiza, Seattle, WA). To identify genes significantly altered in ALDH1 positive population, we performed paired two group analysis with SAM (Significance Analysis of Microarrays) software (http://www-stat.stanford.edu/∼tibs/SAM) and visualized with Treeview software (http://rana.lbl.gov).
Sample_platform_id	GPL1261
Sample_contact_name	Alexander,,Nikitin
Sample_contact_email	an58@cornell.edu
Sample_contact_laboratory	Nikitin Lab
Sample_contact_department	Biomedical Sciences
Sample_contact_institute	Cornell University
Sample_contact_address	T2 014A VRT Campus Road
Sample_contact_city	Ithaca
Sample_contact_state	New York
Sample_contact_zip/postal_code	14853
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1074nnn/GSM1074133/suppl/GSM1074133_Mouse_ALDH1_pos_3.CEL.gz
Sample_series_id	GSE43897
Sample_data_row_count	45101

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