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Sample GSM93747 Query DataSets for GSM93747
Status Public on Feb 05, 2008
Title Free mRNP of J774-intact-rep1
Sample type RNA
 
Source name macrophage-like J774 cells, free mRNP, intact
Organism Mus musculus
Characteristics Strain:Balb/c Tissue:blood macrophage-like cell
Biomaterial provider RIKEN bioresource center
Treatment protocol intact
Growth protocol RPMI1649 10%FCS 37C, 5%CO2 passage:twice/week
Extracted molecule polyA RNA
Extraction protocol Total RNA was extracted with TRIzol reagent(Invitrogen), and subsequently poly(A) RNA was isolated using microMACS kit(Militenyi). Qulity of poly(A) RNA was checked using a bioanalyzer (Agilent).
Label biotin
Label protocol Labeling was performed using One-cycle target labeling kit (Affymetrix) as manufacture's indications.
 
Hybridization protocol Twenty micro gram of labeled sample was used. Hybridization was performed at 45C for 16hr with continuous rotation.
Scan protocol Washing and streptavidin-phycoerythrin staining was done using a GeneChip Fluidics Station(Affymetrix), then scanning was performed using a GeneChip scanner 3000(Affymetrix) as the default setting.
Description Free mRNP preparation: The cells were lysed with a solution containing 0.5%NP-40.Post-mitochondrial fraction was applied onto 15-50% sucrose gradient, and subsequently centrifuged using SW41Ti (Beckman Coulter) at 39krpm. The gradient was divided into 20 fractions from the surface. The fraction 1-5 were collected, and subjected to total RNA extraction.
Data processing The value was calculated by MAS5 method using a GCOS software package(Affymetrix)
 
Submission date Jan 25, 2006
Last update date Aug 28, 2018
Contact name Hiroshi Kitamura
E-mail(s) ktmr@rakuno.ac.jp
Phone 81-11-388-4781
Organization name Rakuno Gakuen University
Department School of Veterinary Medicine
Lab Laboratory for Veterinary Physiology
Street address 582 Midorimachi, Bunkyodai
City Ebetsu
ZIP/Postal code 069-8501
Country Japan
 
Platform ID GPL1261
Series (1)
GSE4288 Polysomal, free mRNP, and total cellular mRNA of J774.1 before and after LPS stimulation
Relations
Reanalyzed by GSE119085

Data table header descriptions
ID_REF
VALUE VALUE
ABS_CALL ABS_CALL
DETECTION P-VALUE DETECTION P-VALUE

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 869.2 P 0.000754
AFFX-BioB-M_at 1552.1 P 0.00039
AFFX-BioB-3_at 1307.8 P 0.00007
AFFX-BioC-5_at 3501.4 P 0.000044
AFFX-BioC-3_at 3268.1 P 0.000044
AFFX-BioDn-5_at 7006.1 P 0.000044
AFFX-BioDn-3_at 15724.4 P 0.000044
AFFX-CreX-5_at 26693.7 P 0.000044
AFFX-CreX-3_at 34247.2 P 0.000044
AFFX-DapX-5_at 657.6 P 0.000225
AFFX-DapX-M_at 1934.6 P 0.000856
AFFX-DapX-3_at 2891.9 P 0.000169
AFFX-LysX-5_at 122.1 A 0.108979
AFFX-LysX-M_at 116.1 A 0.185131
AFFX-LysX-3_at 302.9 P 0.015183
AFFX-PheX-5_at 193.4 P 0.006871
AFFX-PheX-M_at 276.3 P 0.011384
AFFX-PheX-3_at 587.2 P 0.01667
AFFX-ThrX-5_at 517.1 P 0.002273
AFFX-ThrX-M_at 453.9 P 0.000857

Total number of rows: 45101

Table truncated, full table size 1212 Kbytes.




Supplementary file Size Download File type/resource
GSM93747.CEL.gz 5.8 Mb (ftp)(http) CEL

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