Result

Search results for the GEO ID: GSE26816

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GSM ID

GPL ID

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Title

Source name

Description

Characteristics

GSM659568

GPL1261

Ptf1a E10.5 HT dp rep1

Ptf1a mutant mice MGI 1328312

strain: C57BL/6J age: E10.5 tissue: dorsal pancreas genotype/variation: heterozygote

3 dp pooled for RNA and 2X linear amplification

Sample_geo_accession	GSM659568
Sample_status	Public on Jan 24 2011
Sample_submission_date	Jan 24 2011
Sample_last_update_date	Jan 24 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Dorsal pancreatic buds were dissected and the mesenchyme was removed by mechancal dissection. Individual buds were frozen in 5ul of RNA lysis buffer until the genotype was determined.
Sample_growth_protocol_ch1	Adult Ptf1a heterozygote mice were timed mated and embyos were collected at E10.5;midday on the day of vaginal plug appearance was considered E0.5. DNA for genotyping was isolated from the unused embryonic tissue.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	3 pools of 3 dosal E10.5 pancreatic buds (about 2000 to 3000 cells total) were pooled and total RNA was extracted with the Qiagen Rneasy Mini Kit and DNAsed on the column. After cDNA synthesis with a T7-oligo(dT) primer the material was twice amplified using the AmpTec,Express Art mRNA Amplification Kit.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Biotinylated cRNAs were prepared from the amplified cDNA using the IVT Affymetrix Kit and purified with Rneasy Mini Kit and quantified (Nanodrop) and the quality was checked on a Bioanalyer RNA Nanochip
Sample_hyb_protocol	12.5 ug of cRNA was fragmented, checked for size on a Bioanalyzer RNA Nanochip. For each sample 11ug were hybridized for 16 hours at 45°C on the Affymetrix Mouse 430_2 . GeneChips were washed and stained in the Afmetrix Fluidics Station.
Sample_scan_protocol	Affymetrix's GeneChip Scanner 3000 7G System
Sample_data_processing	Probe set summarization was done with GCOS ( GeneChip Operating Software) to enable CEL files to create CHP files. We also used RACE based on RMA to analyze our CEL files for normalization, quality control and expression levels for genes.
Sample_platform_id	GPL1261
Sample_contact_name	Anne,,Grapin-Botton
Sample_contact_email	anne.grapin-botton@sund.ku.dk
Sample_contact_phone	+41 21 693 0761
Sample_contact_department	DanStem
Sample_contact_institute	University of Copenhagen
Sample_contact_address	Blegdamsvej3 B
Sample_contact_city	Copenhagen N
Sample_contact_zip/postal_code	2200
Sample_contact_country	Denmark
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM659nnn/GSM659568/suppl/GSM659568.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM659nnn/GSM659568/suppl/GSM659568.CHP.gz
Sample_series_id	GSE26816
Sample_data_row_count	45101

GSM659569

GPL1261

Ptf1a E10.5 KO dp rep1

Ptf1a mutant mice MGI 1328312

strain: C57BL/6J age: E10.5 tissue: dorsal pancreas genotype/variation: null mutant

3 dp pooled for RNA and 2X linear amplification

Sample_geo_accession	GSM659569
Sample_status	Public on Jan 24 2011
Sample_submission_date	Jan 24 2011
Sample_last_update_date	Jan 24 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Dorsal pancreatic buds were dissected and the mesenchyme was removed by mechancal dissection. Individual buds were frozen in 5ul of RNA lysis buffer until the genotype was determined.
Sample_growth_protocol_ch1	Adult Ptf1a heterozygote mice were timed mated and embyos were collected at E10.5;midday on the day of vaginal plug appearance was considered E0.5. DNA for genotyping was isolated from the unused embryonic tissue.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	3 pools of 3 dosal E10.5 pancreatic buds (about 2000 to 3000 cells total) were pooled and total RNA was extracted with the Qiagen Rneasy Mini Kit and DNAsed on the column. After cDNA synthesis with a T7-oligo(dT) primer the material was twice amplified using the AmpTec,Express Art mRNA Amplification Kit.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Biotinylated cRNAs were prepared from the amplified cDNA using the IVT Affymetrix Kit and purified with Rneasy Mini Kit and quantified (Nanodrop) and the quality was checked on a Bioanalyer RNA Nanochip
Sample_hyb_protocol	12.5 ug of cRNA was fragmented, checked for size on a Bioanalyzer RNA Nanochip. For each sample 11ug were hybridized for 16 hours at 45°C on the Affymetrix Mouse 430_2 . GeneChips were washed and stained in the Afmetrix Fluidics Station.
Sample_scan_protocol	Affymetrix's GeneChip Scanner 3000 7G System
Sample_data_processing	Probe set summarization was done with GCOS ( GeneChip Operating Software) to enable CEL files to create CHP files. We also used RACE based on RMA to analyze our CEL files for normalization, quality control and expression levels for genes.
Sample_platform_id	GPL1261
Sample_contact_name	Anne,,Grapin-Botton
Sample_contact_email	anne.grapin-botton@sund.ku.dk
Sample_contact_phone	+41 21 693 0761
Sample_contact_department	DanStem
Sample_contact_institute	University of Copenhagen
Sample_contact_address	Blegdamsvej3 B
Sample_contact_city	Copenhagen N
Sample_contact_zip/postal_code	2200
Sample_contact_country	Denmark
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM659nnn/GSM659569/suppl/GSM659569.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM659nnn/GSM659569/suppl/GSM659569.CHP.gz
Sample_series_id	GSE26816
Sample_data_row_count	45101

GSM659570

GPL1261

Ptf1a E10.5 HT dp rep2

Ptf1a mutant mice MGI 1328312

strain: C57BL/6J age: E10.5 tissue: dorsal pancreas genotype/variation: heterozygote

3 dp pooled for RNA and 2X linear amplification

Sample_geo_accession	GSM659570
Sample_status	Public on Jan 24 2011
Sample_submission_date	Jan 24 2011
Sample_last_update_date	Jan 24 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Dorsal pancreatic buds were dissected and the mesenchyme was removed by mechancal dissection. Individual buds were frozen in 5ul of RNA lysis buffer until the genotype was determined.
Sample_growth_protocol_ch1	Adult Ptf1a heterozygote mice were timed mated and embyos were collected at E10.5;midday on the day of vaginal plug appearance was considered E0.5. DNA for genotyping was isolated from the unused embryonic tissue.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	3 pools of 3 dosal E10.5 pancreatic buds (about 2000 to 3000 cells total) were pooled and total RNA was extracted with the Qiagen Rneasy Mini Kit and DNAsed on the column. After cDNA synthesis with a T7-oligo(dT) primer the material was twice amplified using the AmpTec,Express Art mRNA Amplification Kit.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Biotinylated cRNAs were prepared from the amplified cDNA using the IVT Affymetrix Kit and purified with Rneasy Mini Kit and quantified (Nanodrop) and the quality was checked on a Bioanalyer RNA Nanochip
Sample_hyb_protocol	12.5 ug of cRNA was fragmented, checked for size on a Bioanalyzer RNA Nanochip. For each sample 11ug were hybridized for 16 hours at 45°C on the Affymetrix Mouse 430_2 . GeneChips were washed and stained in the Afmetrix Fluidics Station.
Sample_scan_protocol	Affymetrix's GeneChip Scanner 3000 7G System
Sample_data_processing	Probe set summarization was done with GCOS ( GeneChip Operating Software) to enable CEL files to create CHP files. We also used RACE based on RMA to analyze our CEL files for normalization, quality control and expression levels for genes.
Sample_platform_id	GPL1261
Sample_contact_name	Anne,,Grapin-Botton
Sample_contact_email	anne.grapin-botton@sund.ku.dk
Sample_contact_phone	+41 21 693 0761
Sample_contact_department	DanStem
Sample_contact_institute	University of Copenhagen
Sample_contact_address	Blegdamsvej3 B
Sample_contact_city	Copenhagen N
Sample_contact_zip/postal_code	2200
Sample_contact_country	Denmark
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM659nnn/GSM659570/suppl/GSM659570.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM659nnn/GSM659570/suppl/GSM659570.CHP.gz
Sample_series_id	GSE26816
Sample_data_row_count	45101

GSM659571

GPL1261

Ptf1a E10.5 KO dp rep2

Ptf1a mutant mice MGI 1328312

strain: C57BL/6J age: E10.5 tissue: dorsal pancreas genotype/variation: null mutant

3 dp pooled for RNA and 2X linear amplification

Sample_geo_accession	GSM659571
Sample_status	Public on Jan 24 2011
Sample_submission_date	Jan 24 2011
Sample_last_update_date	Jan 24 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Dorsal pancreatic buds were dissected and the mesenchyme was removed by mechancal dissection. Individual buds were frozen in 5ul of RNA lysis buffer until the genotype was determined.
Sample_growth_protocol_ch1	Adult Ptf1a heterozygote mice were timed mated and embyos were collected at E10.5;midday on the day of vaginal plug appearance was considered E0.5. DNA for genotyping was isolated from the unused embryonic tissue.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	3 pools of 3 dosal E10.5 pancreatic buds (about 2000 to 3000 cells total) were pooled and total RNA was extracted with the Qiagen Rneasy Mini Kit and DNAsed on the column. After cDNA synthesis with a T7-oligo(dT) primer the material was twice amplified using the AmpTec,Express Art mRNA Amplification Kit.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Biotinylated cRNAs were prepared from the amplified cDNA using the IVT Affymetrix Kit and purified with Rneasy Mini Kit and quantified (Nanodrop) and the quality was checked on a Bioanalyer RNA Nanochip
Sample_hyb_protocol	12.5 ug of cRNA was fragmented, checked for size on a Bioanalyzer RNA Nanochip. For each sample 11ug were hybridized for 16 hours at 45°C on the Affymetrix Mouse 430_2 . GeneChips were washed and stained in the Afmetrix Fluidics Station.
Sample_scan_protocol	Affymetrix's GeneChip Scanner 3000 7G System
Sample_data_processing	Probe set summarization was done with GCOS ( GeneChip Operating Software) to enable CEL files to create CHP files. We also used RACE based on RMA to analyze our CEL files for normalization, quality control and expression levels for genes.
Sample_platform_id	GPL1261
Sample_contact_name	Anne,,Grapin-Botton
Sample_contact_email	anne.grapin-botton@sund.ku.dk
Sample_contact_phone	+41 21 693 0761
Sample_contact_department	DanStem
Sample_contact_institute	University of Copenhagen
Sample_contact_address	Blegdamsvej3 B
Sample_contact_city	Copenhagen N
Sample_contact_zip/postal_code	2200
Sample_contact_country	Denmark
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM659nnn/GSM659571/suppl/GSM659571.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM659nnn/GSM659571/suppl/GSM659571.CHP.gz
Sample_series_id	GSE26816
Sample_data_row_count	45101

GSM659572

GPL1261

Ptf1a E10.5 KO dp rep3

Ptf1a mutant mice MGI 1328312

strain: C57BL/6J age: E10.5 tissue: dorsal pancreas genotype/variation: null mutant

3 dp pooled for RNA and 2X linear amplification

Sample_geo_accession	GSM659572
Sample_status	Public on Jan 24 2011
Sample_submission_date	Jan 24 2011
Sample_last_update_date	Jan 24 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Dorsal pancreatic buds were dissected and the mesenchyme was removed by mechancal dissection. Individual buds were frozen in 5ul of RNA lysis buffer until the genotype was determined.
Sample_growth_protocol_ch1	Adult Ptf1a heterozygote mice were timed mated and embyos were collected at E10.5;midday on the day of vaginal plug appearance was considered E0.5. DNA for genotyping was isolated from the unused embryonic tissue.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	3 pools of 3 dosal E10.5 pancreatic buds (about 2000 to 3000 cells total) were pooled and total RNA was extracted with the Qiagen Rneasy Mini Kit and DNAsed on the column. After cDNA synthesis with a T7-oligo(dT) primer the material was twice amplified using the AmpTec,Express Art mRNA Amplification Kit.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Biotinylated cRNAs were prepared from the amplified cDNA using the IVT Affymetrix Kit and purified with Rneasy Mini Kit and quantified (Nanodrop) and the quality was checked on a Bioanalyer RNA Nanochip
Sample_hyb_protocol	12.5 ug of cRNA was fragmented, checked for size on a Bioanalyzer RNA Nanochip. For each sample 11ug were hybridized for 16 hours at 45°C on the Affymetrix Mouse 430_2 . GeneChips were washed and stained in the Afmetrix Fluidics Station.
Sample_scan_protocol	Affymetrix's GeneChip Scanner 3000 7G System
Sample_data_processing	Probe set summarization was done with GCOS ( GeneChip Operating Software) to enable CEL files to create CHP files. We also used RACE based on RMA to analyze our CEL files for normalization, quality control and expression levels for genes.
Sample_platform_id	GPL1261
Sample_contact_name	Anne,,Grapin-Botton
Sample_contact_email	anne.grapin-botton@sund.ku.dk
Sample_contact_phone	+41 21 693 0761
Sample_contact_department	DanStem
Sample_contact_institute	University of Copenhagen
Sample_contact_address	Blegdamsvej3 B
Sample_contact_city	Copenhagen N
Sample_contact_zip/postal_code	2200
Sample_contact_country	Denmark
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM659nnn/GSM659572/suppl/GSM659572.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM659nnn/GSM659572/suppl/GSM659572.CHP.gz
Sample_series_id	GSE26816
Sample_data_row_count	45101

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