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Sample GSM1310179 Query DataSets for GSM1310179
Status Public on Jan 18, 2014
Title E11.5 C
Sample type RNA
 
Source name Scx-positive tendon cells from Scx-GFP mice
Organism Mus musculus
Characteristics cell: limb tendon cells
developmental stage: E11.5
Treatment protocol Forelimbs from E11.5, E12.5 and E14.5 Scx-GFP embryos were collected and dissociated with trypsin to obtain cell suspensions. Cell suspensions were subjected to FACS at room temperature using a MoFlo® XDP Flow Cytometer (Dako, with state laser 488 nm) with the Dako-Moflo Summit software or using a VantageTM Se option DiVa flow cytometer (laser 488 nm). The GFP-positive fractions were collected in PBS-EDTA 2 mM supplemented with 20% of foetal calf serum. RNA quantity was monitored on Agilent RNA Pico LabCHips (Agilent). Fragmented biotin-labelled cRNA samples were hybridized on Affymetrix Gene Chip Mouse Genome 430 2.0 arrays
Growth protocol Scx-GFP mouse embryos were collected at E11.5, E12.5 or E14.5 after natural overnight mattings. For staging, fertilization was considered to take place at 0 a.m..
Extracted molecule total RNA
Extraction protocol Total RNA were extract with with the Qiagen RNeasy minikit (Qiagen), then 100 ng of total RNA were amplified using GeneChip 3' IVT Express Kit from Affymetrix.
Label biotin
Label protocol As per manufacturer (Affymetrix)
 
Hybridization protocol As per manufacturer (Affymetrix)
Scan protocol The Arrays were scanned using the Gene Chip Scanner 3000. Then CEL files were generated using the Affymetrix GeneChip Command Console software (AGCC) 3.0
Data processing CHP files were processed using MAS 5.0 analysis algorithm with Affymetrix Expression Console software 1.1
 
Submission date Jan 17, 2014
Last update date Jan 18, 2014
Contact name Delphine Duprez
E-mail(s) delphine.duprez@upmc.fr
Phone +33 1 44 27 27 53
Organization name CNRS/UPMC
Department UMR 7622
Lab Developmental Biology
Street address 9, Quai Saint Bernard
City Paris
ZIP/Postal code 75005
Country France
 
Platform ID GPL1261
Series (1)
GSE54207 Expression data from mouse limb tendon cells during development.

Data table header descriptions
ID_REF
VALUE Signal
ABS_CALL indicating whether the transcript was present (P), absent (A), or marginal (M)
DETECTION P-VALUE

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 761.102 P 5.16732e-05
AFFX-BioB-M_at 1271.11 P 4.42873e-05
AFFX-BioB-3_at 795.497 P 4.42873e-05
AFFX-BioC-5_at 2199.18 P 4.42873e-05
AFFX-BioC-3_at 2739.42 P 5.16732e-05
AFFX-BioDn-5_at 5957.56 P 4.42873e-05
AFFX-BioDn-3_at 10823.9 P 4.42873e-05
AFFX-CreX-5_at 24929.3 P 4.42873e-05
AFFX-CreX-3_at 25805.2 P 4.42873e-05
AFFX-DapX-5_at 1592.22 P 7.00668e-05
AFFX-DapX-M_at 2857.59 P 7.00668e-05
AFFX-DapX-3_at 3881.82 P 4.42873e-05
AFFX-LysX-5_at 217.721 P 5.16732e-05
AFFX-LysX-M_at 357.045 P 0.000195116
AFFX-LysX-3_at 576.087 P 4.42873e-05
AFFX-PheX-5_at 235.208 P 6.02111e-05
AFFX-PheX-M_at 355.539 P 0.00010954
AFFX-PheX-3_at 486.284 P 5.16732e-05
AFFX-ThrX-5_at 382.647 P 0.000126798
AFFX-ThrX-M_at 482.78 P 7.00668e-05

Total number of rows: 45101

Table truncated, full table size 1387 Kbytes.




Supplementary file Size Download File type/resource
GSM1310179_7_11-5C_Mouse430_2_.CEL.gz 3.5 Mb (ftp)(http) CEL
GSM1310179_7_11-5C_Mouse430_2_.mas5.CHP.gz 393.9 Kb (ftp)(http) CHP
Raw data provided as supplementary file
Processed data included within Sample table
Processed data provided as supplementary file

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