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Sample GSM212559 Query DataSets for GSM212559
Status Public on Jul 25, 2007
Title Gene expression profiling of Phgdh knockout embryo KO1
Sample type RNA
Source name Head RNA of Phgdh KO@E13.5 No.1
Organism Mus musculus
Characteristics ES cells: E14 (129P2/OlaHsd background), Genotype: Knockout (Phgdh-/-), C57BL/6J background, Gestation: 13.5 days, Tissue: head
Biomaterial provider Shigeki Furuya
Treatment protocol Targeted disruption of D-3-Phosphoglycerate dehydrogenase (Phgdh; EC in mice.
Growth protocol None
Extracted molecule total RNA
Extraction protocol Total RNA from embryo heads was extracted and purified using RNeasy Lipid Tissue kit (Qiagen Inc) according to the manufacturer’s instructions.
Label Biotin
Label protocol Labeling was carried out using Affymetrix GeneChip® One-Cycle Target Labeling kit, according to manufactuer's protocol.
Hybridization protocol Hybridization was carried out for 16 hr at 45 ºC according the Affymetrix GeneChip® Manual.
Scan protocol Scanning was carried out using Affymetrix® GeneChip® Scanner with GCOS software according to manufactuer's protocol.
Description Affymetrix GeneChip® Mouse Genome 430 2.0 Array
Data processing Fluorescent data were processed using the Microarray Suite (MAS) 5.0 software (Affymetrix) and then were transferred to GeneSpring 7.0 software (Agilent).
Submission date Jul 23, 2007
Last update date Aug 28, 2018
Contact name Shigeki Furuya
Organization name Kyushu University
Department Bio-Architecture Center
Lab Furuya Laboratory
Street address 6-10-1 Hakozaki, Higashiku
City Fukuoka
State/province Fukuoka
ZIP/Postal code 812-8581
Country Japan
Platform ID GPL1261
Series (1)
GSE8555 Genome-wide analysis of Phgdh inactivation in murine embryonic head
Reanalyzed by GSE119085

Data table header descriptions
VALUE Signal intensity
ABS_CALL Absolute Call: A (Absent), M (Marginal), or P (Present)
DETECTION P-VALUE P-value generated by MAS5

Data table
AFFX-BioB-5_at 67.2354 P 0.000753643
AFFX-BioB-M_at 97.9949 P 0.0012475
AFFX-BioB-3_at 55.004 P 0.000509415
AFFX-BioC-5_at 176.986 P 9.4506e-05
AFFX-BioC-3_at 151.316 P 9.4506e-05
AFFX-BioDn-5_at 192.579 P 4.42873e-05
AFFX-BioDn-3_at 746.278 P 6.02111e-05
AFFX-CreX-5_at 2322.2 P 4.42873e-05
AFFX-CreX-3_at 2848.88 P 4.42873e-05
AFFX-DapX-5_at 4.65927 A 0.313708
AFFX-DapX-M_at 1.96004 A 0.645547
AFFX-DapX-3_at 1.16997 A 0.949771
AFFX-LysX-5_at 1.59259 A 0.39692
AFFX-LysX-M_at 7.81131 A 0.5
AFFX-LysX-3_at 1.63678 A 0.39692
AFFX-PheX-5_at 0.833577 A 0.86866
AFFX-PheX-M_at 0.379405 A 0.957038
AFFX-PheX-3_at 1.45434 A 0.834139
AFFX-ThrX-5_at 1.14712 A 0.783476
AFFX-ThrX-M_at 6.111 A 0.440646

Total number of rows: 45101

Table truncated, full table size 1376 Kbytes.

Supplementary file Size Download File type/resource
GSM212559.CEL.gz 6.0 Mb (ftp)(http) CEL
GSM212559.CHP.gz 11.7 Mb (ftp)(http) CHP
GSM212559.EXP.gz 357 b (ftp)(http) EXP
Processed data included within Sample table
Processed data provided as supplementary file
Raw data provided as supplementary file

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