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Sample GSM264942 Query DataSets for GSM264942
Status Public on Mar 31, 2008
Title 3T3 Sphase RNA expression, technical replicate F
Sample type RNA
 
Source name 3T3 Sphase
Organism Mus musculus
Characteristics Total RNA
Extracted molecule total RNA
Extraction protocol Total RNA was prepared from 107-2x107 cells using
RNAeasy Kit (QIAGEN) following the manufacturer’s instructions. RNA quality was ensured sing the Agilent Systems Bioanalyzer.
Label Biotin
Label protocol Biotinylated RNA was prepared with the Illumina TotalPrep RNA Amplification kit (Ambion)
 
Hybridization protocol 34ul of the Hyb mix with labeled cRNA sample was dispensed onto the center of each array and allowed to hyb with rotations in a pre-heated oven for 16-20h at 55*C. Washes were done with Wash E1BC solution, Block E1 solution was used for blocking and detection performed by Block E1 solution+Streptavidin-Cy3/5.
Scan protocol Standard Illumina procedure
Description no additional description
Data processing Cubic spline normalization method implemented in Bead Studio software
 
Submission date Feb 11, 2008
Last update date Mar 21, 2008
Contact name Vitalina Komashko
E-mail(s) vitalina.komashko@sagebase.org
Organization name Sage Bionetworks
Street address 1100 Fairview Ave N
City Seattle
State/province WA
ZIP/Postal code 98109
Country USA
 
Platform ID GPL4865
Series (1)
GSE10504 Using ChIP-chip technology to reveal common principles of transcriptional repression in normal and cancer cells

Data table header descriptions
ID_REF illumina ProbeID
VALUE cubic spline invariant normalized signal value
DET_VALUE illumina detection probability

Data table
ID_REF VALUE DET_VALUE
18S_rRNA_X00686_523-S 11720.94 0
GI_11079652-S -5.323463 0.5259349
gi_21070949_ref_NM_019639.2__151-S 50262.43 0
gi_21070949_ref_NM_019639.2__531-S 22250.01 0
GI_21070949-S 24158.91 0
GI_21746160-S 4746.606 0
GI_23346428-S 21.52614 0.1519904
GI_23592945-S 55450.27 0
GI_23956057-S -8.993398 0.6007237
GI_28476905-S 55397.81 0
gi_30794511_ref_NM_013551.1__496-S 53.39668 0.02412545
GI_31981441-S 5.13822 0.3341375
gi_31981889_ref_NM_009735.2__43-S 14140.49 0
GI_31982339-S 56.79911 0.02171291
gi_32129296_ref_NM_009438.3__526-S 7747.303 0
GI_46909570-S 354.5224 0
gi_6671508_ref_NM_007393.1__400-S 57772.43 0
GI_6671508-S 32862.74 0
GI_6678306-S -8.647679 0.597105
gi_6679936_ref_NM_008084.1__328-S 47125.27 0

Total number of rows: 24044

Table truncated, full table size 835 Kbytes.




Supplementary file Size Download File type/resource
GSM264942.csv.gz 165.5 Kb (ftp)(http) CSV
GSM264942.idat.gz 1.2 Mb (ftp)(http) IDAT
GSM264942.jpg.gz 1.2 Mb (ftp)(http) JPG
GSM264942.txt.gz 12.4 Mb (ftp)(http) TXT
GSM264942.xml.gz 656 b (ftp)(http) XML
Processed data included within Sample table

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