Information about Samples:
Sample_titleSAM SE Col, biological rep1SAM SE Col, biological rep2SAM SE Col, biological rep3SAM SE 35S:AGL15, biological rep1SAM SE 35S:AGL15, biological rep2SAM SE 35S:AGL15, biological rep3SAM SE agl15 agl18 double mutant, biological rep1SAM SE agl15 agl18 double mutant, biological rep2SAM SE agl15 agl18 double mutantL, biological rep3
Sample_geo_accessionGSM439767GSM439768GSM439769GSM439770GSM439771GSM439772GSM439773GSM439774GSM439775
Sample_typeRNARNARNARNARNARNARNARNARNA
Sample_channel_count111111111
Sample_source_name_ch110 day SAM somatic embryo culture10 day SAM somatic embryo culture10 day SAM somatic embryo culture10 day SAM somatic embryo culture10 day SAM somatic embryo culture10 day SAM somatic embryo culture10 day SAM somatic embryo culture10 day SAM somatic embryo culture10 day SAM somatic embryo culture
Sample_organism_ch1Arabidopsis thalianaArabidopsis thalianaArabidopsis thalianaArabidopsis thalianaArabidopsis thalianaArabidopsis thalianaArabidopsis thalianaArabidopsis thalianaArabidopsis thaliana
Sample_characteristics_ch1ecotype/variety: columbiaecotype/variety: columbiaecotype/variety: columbiaecotype/variety: columbiaecotype/variety: columbiaecotype/variety: columbiaecotype/variety: columbiaecotype/variety: columbiaecotype/variety: columbia
Sample_characteristics_ch1genome/variation: wild typegenome/variation: wild typegenome/variation: wild typegenome/variation: 35S:AGL15genome/variation: 35S:AGL15genome/variation: 35S:AGL15genome/variation: Insertional loss-of-function agl15-4 agl18-1genome/variation: Insertional loss-of-function agl15-4 agl18-1genome/variation: Insertional loss-of-function agl15-4 agl18-1
Sample_treatment_protocol_ch1Tissue was collected 10 days after the start of culture and flash frozen for RNA isolation.Tissue was collected 10 days after the start of culture and flash frozen for RNA isolation.Tissue was collected 10 days after the start of culture and flash frozen for RNA isolation.Tissue was collected 10 days after the start of culture and flash frozen for RNA isolation.Tissue was collected 10 days after the start of culture and flash frozen for RNA isolation.Tissue was collected 10 days after the start of culture and flash frozen for RNA isolation.Tissue was collected 10 days after the start of culture and flash frozen for RNA isolation.Tissue was collected 10 days after the start of culture and flash frozen for RNA isolation.Tissue was collected 10 days after the start of culture and flash frozen for RNA isolation.
Sample_growth_protocol_ch1Arabidopsis seeds (Columbia wild type, agl15-4 agl18-1 double mutant, and 35S:AGL15) were surface sterilized and grown to complete germination in liquid MS media with 2% w/v sucrose, 10 mM MES and 4.5 micromolar 2,4-D under a 23 hour light/1 hour dark cycle on a rotary shaker.Arabidopsis seeds (Columbia wild type, agl15-4 agl18-1 double mutant, and 35S:AGL15) were surface sterilized and grown to complete germination in liquid MS media with 2% w/v sucrose, 10 mM MES and 4.5 micromolar 2,4-D under a 23 hour light/1 hour dark cycle on a rotary shaker.Arabidopsis seeds (Columbia wild type, agl15-4 agl18-1 double mutant, and 35S:AGL15) were surface sterilized and grown to complete germination in liquid MS media with 2% w/v sucrose, 10 mM MES and 4.5 micromolar 2,4-D under a 23 hour light/1 hour dark cycle on a rotary shaker.Arabidopsis seeds (Columbia wild type, agl15-4 agl18-1 double mutant, and 35S:AGL15) were surface sterilized and grown to complete germination in liquid MS media with 2% w/v sucrose, 10 mM MES and 4.5 micromolar 2,4-D under a 23 hour light/1 hour dark cycle on a rotary shaker.Arabidopsis seeds (Columbia wild type, agl15-4 agl18-1 double mutant, and 35S:AGL15) were surface sterilized and grown to complete germination in liquid MS media with 2% w/v sucrose, 10 mM MES and 4.5 micromolar 2,4-D under a 23 hour light/1 hour dark cycle on a rotary shaker.Arabidopsis seeds (Columbia wild type, agl15-4 agl18-1 double mutant, and 35S:AGL15) were surface sterilized and grown to complete germination in liquid MS media with 2% w/v sucrose, 10 mM MES and 4.5 micromolar 2,4-D under a 23 hour light/1 hour dark cycle on a rotary shaker.Arabidopsis seeds (Columbia wild type, agl15-4 agl18-1 double mutant, and 35S:AGL15) were surface sterilized and grown to complete germination in liquid MS media with 2% w/v sucrose, 10 mM MES and 4.5 micromolar 2,4-D under a 23 hour light/1 hour dark cycle on a rotary shaker.Arabidopsis seeds (Columbia wild type, agl15-4 agl18-1 double mutant, and 35S:AGL15) were surface sterilized and grown to complete germination in liquid MS media with 2% w/v sucrose, 10 mM MES and 4.5 micromolar 2,4-D under a 23 hour light/1 hour dark cycle on a rotary shaker.Arabidopsis seeds (Columbia wild type, agl15-4 agl18-1 double mutant, and 35S:AGL15) were surface sterilized and grown to complete germination in liquid MS media with 2% w/v sucrose, 10 mM MES and 4.5 micromolar 2,4-D under a 23 hour light/1 hour dark cycle on a rotary shaker.
Sample_molecule_ch1total RNAtotal RNAtotal RNAtotal RNAtotal RNAtotal RNAtotal RNAtotal RNAtotal RNA
Sample_extract_protocol_ch1Trizol extraction of total RNA was performed according to the manufacturer's instructions, and the RNA was further purified using the RNeasy® plant mini kit (Qiagen, www.qiagen.com).Trizol extraction of total RNA was performed according to the manufacturer's instructions, and the RNA was further purified using the RNeasy® plant mini kit (Qiagen, www.qiagen.com).Trizol extraction of total RNA was performed according to the manufacturer's instructions, and the RNA was further purified using the RNeasy® plant mini kit (Qiagen, www.qiagen.com).Trizol extraction of total RNA was performed according to the manufacturer's instructions, and the RNA was further purified using the RNeasy® plant mini kit (Qiagen, www.qiagen.com).Trizol extraction of total RNA was performed according to the manufacturer's instructions, and the RNA was further purified using the RNeasy® plant mini kit (Qiagen, www.qiagen.com).Trizol extraction of total RNA was performed according to the manufacturer's instructions, and the RNA was further purified using the RNeasy® plant mini kit (Qiagen, www.qiagen.com).Trizol extraction of total RNA was performed according to the manufacturer's instructions, and the RNA was further purified using the RNeasy® plant mini kit (Qiagen, www.qiagen.com).Trizol extraction of total RNA was performed according to the manufacturer's instructions, and the RNA was further purified using the RNeasy® plant mini kit (Qiagen, www.qiagen.com).Trizol extraction of total RNA was performed according to the manufacturer's instructions, and the RNA was further purified using the RNeasy® plant mini kit (Qiagen, www.qiagen.com).
Sample_label_ch1biotinbiotinbiotinbiotinbiotinbiotinbiotinbiotinbiotin
Sample_label_protocol_ch1Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 4 ug total RNA (Expression Analysis Technical Manual, 2007, Affymetrix).Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 4 ug total RNA (Expression Analysis Technical Manual, 2007, Affymetrix).Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 4 ug total RNA (Expression Analysis Technical Manual, 2007, Affymetrix).Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 4 ug total RNA (Expression Analysis Technical Manual, 2007, Affymetrix).Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 4 ug total RNA (Expression Analysis Technical Manual, 2007, Affymetrix).Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 4 ug total RNA (Expression Analysis Technical Manual, 2007, Affymetrix).Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 4 ug total RNA (Expression Analysis Technical Manual, 2007, Affymetrix).Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 4 ug total RNA (Expression Analysis Technical Manual, 2007, Affymetrix).Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 4 ug total RNA (Expression Analysis Technical Manual, 2007, Affymetrix).
Sample_taxid_ch1370237023702370237023702370237023702
Sample_hyb_protocolFollowing fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45°C on Arabidopsis ATH1 Genome Array in the Affymetrix GeneChip Hybridization Oven 640. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45°C on Arabidopsis ATH1 Genome Array in the Affymetrix GeneChip Hybridization Oven 640. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45°C on Arabidopsis ATH1 Genome Array in the Affymetrix GeneChip Hybridization Oven 640. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45°C on Arabidopsis ATH1 Genome Array in the Affymetrix GeneChip Hybridization Oven 640. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45°C on Arabidopsis ATH1 Genome Array in the Affymetrix GeneChip Hybridization Oven 640. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45°C on Arabidopsis ATH1 Genome Array in the Affymetrix GeneChip Hybridization Oven 640. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45°C on Arabidopsis ATH1 Genome Array in the Affymetrix GeneChip Hybridization Oven 640. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45°C on Arabidopsis ATH1 Genome Array in the Affymetrix GeneChip Hybridization Oven 640. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45°C on Arabidopsis ATH1 Genome Array in the Affymetrix GeneChip Hybridization Oven 640. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocolGeneChips were scanned using the Affymetrix GCS 3000 7G scanner.GeneChips were scanned using the Affymetrix GCS 3000 7G scanner.GeneChips were scanned using the Affymetrix GCS 3000 7G scanner.GeneChips were scanned using the Affymetrix GCS 3000 7G scanner.GeneChips were scanned using the Affymetrix GCS 3000 7G scanner.GeneChips were scanned using the Affymetrix GCS 3000 7G scanner.GeneChips were scanned using the Affymetrix GCS 3000 7G scanner.GeneChips were scanned using the Affymetrix GCS 3000 7G scanner.GeneChips were scanned using the Affymetrix GCS 3000 7G scanner.
Sample_platform_idGPL198GPL198GPL198GPL198GPL198GPL198GPL198GPL198GPL198