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Sample GSM2027275 Query DataSets for GSM2027275
Status Public on Jan 21, 2016
Title control morphant, rep 1
Sample type RNA
 
Source name control morphant zebrafish embryos at 72 hpf
Organism Danio rerio
Characteristics developmental stage: embryo
Treatment protocol Fertilized 1- to 2-cell embryos were microinjected with morpholinos (MOs; 1 to 2 nL of 130 micromol/L in water; Gene Tools). Rescue experiments were performed by co-injecting 1 to 2 nL of a synthetic capped mRNA (50 microgram/ml in water) synthesized from a full-length mouse bdh2 cDNA cloned into pCS2+MT vector as described in Cell 141:1006-1017.
Growth protocol Wild-type Danio rerio (zebrafish) were bred and raised following the procedures approved by the Case Western Reserve University Institutional Animal Care and Use Committee. The embryos were collected from natural spawnings, cultured, and staged as described in Cell 141:1006-1017.
Extracted molecule total RNA
Extraction protocol Extraction of total RNAs were performed using RNeasy Mini kit (Qiagen) per manufacturer's protocol.
Label biotin
Label protocol Per manufacturer’s instructions (Affymetrix GeneChip Expression Analysis Technical Manual, Affymetric, Inc., Santa Clara, CA, USA) at Case Comprehensive Cancer Center Microarray Core Facility.
 
Hybridization protocol Per manufacturer’s instructions (Affymetrix GeneChip Expression Analysis Technical Manual, Affymetric, Inc., Santa Clara, CA, USA) at Case Comprehensive Cancer Center Microarray Core Facility.
Scan protocol Per manufacturer’s instructions (Affymetrix GeneChip Expression Analysis Technical Manual, Affymetric, Inc., Santa Clara, CA, USA) at Case Comprehensive Cancer Center Microarray Core Facility.
Data processing The data were analyzed with Affymetrix Expression Console Software using Affymetrix default analysis settings and global scaling as normalization method.
 
Submission date Jan 04, 2016
Last update date Jan 21, 2016
Contact name Zhuoming Liu
Organization name Case Western Reserve University
Street address 2103 Cornell Road
City Cleveland
State/province OH
ZIP/Postal code 44106
Country USA
 
Platform ID GPL1319
Series (1)
GSE76509 Comparison of expression data between control and Bdh2 morphant zebrafish embryos, as well as Bdh2 morphant zebrafish embryos expressing ectopic Bdh2

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 392.121 P 0.00110197
AFFX-BioB-M_at 385.685 P 5.16732e-05
AFFX-BioB-3_at 349.961 P 0.000753643
AFFX-BioC-5_at 848.073 P 4.42873e-05
AFFX-BioC-3_at 1050.45 P 0.000126798
AFFX-BioDn-5_at 2270.99 P 4.42873e-05
AFFX-BioDn-3_at 4559.87 P 5.16732e-05
AFFX-CreX-5_at 15599.7 P 4.42873e-05
AFFX-CreX-3_at 17666.6 P 4.42873e-05
AFFX-DapX-5_at 71.6357 P 0.00255552
AFFX-DapX-M_at 473.716 P 0.00110197
AFFX-DapX-3_at 1165.46 P 8.14279e-05
AFFX-LysX-5_at 41.6997 A 0.102165
AFFX-LysX-M_at 59.1608 A 0.368438
AFFX-LysX-3_at 135.22 P 8.14279e-05
AFFX-PheX-5_at 72.3588 P 0.0200219
AFFX-PheX-M_at 48.4228 A 0.083592
AFFX-PheX-3_at 130.818 P 9.4506e-05
AFFX-ThrX-5_at 37.833 A 0.48511
AFFX-ThrX-M_at 76.2192 A 0.116113

Total number of rows: 15617

Table truncated, full table size 568 Kbytes.




Supplementary file Size Download File type/resource
GSM2027275_69Dev17.CEL.gz 1.9 Mb (ftp)(http) CEL
GSM2027275_69Dev17.Zebrafish.mas5.CHP.gz 174.5 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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