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Sample GSM1551875 Query DataSets for GSM1551875
Status Public on Jul 25, 2016
Title MEF_Lats2KO_PDL70
Sample type RNA
Source name Embryonic fibroblast cells derived from LAT2-/- C57BL/6J mice
Organism Mus musculus
Characteristics strain: C57BL/6J
tissue: embryonic fibroblasts
genotype: Lats2-/-
clone name: #112-C
pdl: 70
Treatment protocol no treatment
Growth protocol Mouse embyonic fibroblasts (MEFs) were cultured in DMEM + 10% inactivated fetal bovine serum (FBS), penicillin (100U/mL), and streptomycin (100μg/mL) at 37°C, 5% CO2.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from cultured cells with miRNeasy Mini Kit (Qiagen) and processed according to the manufacturer’s protocol. The quality of the RNAs was estimated by using the RNA 6000 Nano LabChip Kit (p/n 5065-4476) on the Agilent 2100 Bioanalyzer (G2940BA; Agilent Technologies, Santa Clara, CA).
Label cy3
Label protocol 100 ng of aliquots of total RNA was used for making miRNA probes according to the Agilent protocol (ver. 1.6). Briefly, total RNA was dephosphorylated with calf intestine alkaline phosphatase (Takara Bio, Shiga, Japan), denatured with dimethyl sulfoxide, and labeled with pCp-Cy3 using T4 RNA ligase (Takara Bio, Shiga, Japan) using the miRNA Labeling Reagent and Hybridization Kit (5190-0408, Agilent).
Hybridization protocol Refer to Agilent miRNA hybridisation protocol. Probes were hybridized at 55°C for 20 hours with rotation. Then the slides were washed by Gene expression wash buffer 1 at room temperature for 5 minutes and by Gene expression wash buffer 2 at 37°C for 5 minutes.
Scan protocol After hybridization and washing, the slides were scanned using an Agilent scanner (G2505C).
Description Embryonic fibroblast cells derived from LAT2-/- C57BL/6J mice
Data processing Images were extracted using Agilent Feature Extraction software (v
Submission date Nov 21, 2014
Last update date Jul 25, 2016
Contact name Daisuke Okuzaki
Phone +81-6-6879-4935
Organization name Osaka univ.
Department Immunology Frontier Research Center
Lab Human Immunology (Single Cell Genomics)
Street address Yamadaoka 3-1
City Suita
State/province Osaka
ZIP/Postal code 565-0871
Country Japan
Platform ID GPL10384
Series (2)
GSE63532 miRNA array profiling of Lats2 deficient mouse embryonic fibroblasts
GSE63538 LATS2 regulates repressive epigenetic integrity via regulation of Polycomb repressive complex 2

Data table header descriptions
VALUE Processed Cy3 signal intensity (Agilent gProcessedSignal)

Data table
1 3.88E+02
2 8.15E-02
3 -5.44E+00
4 2.56E+00
5 -3.76E+00
6 3.06E+00
7 7.18E+02
9 -7.62E+00
10 -7.42E+00
11 -7.50E+00
12 -8.89E+00
13 2.13E+01
14 -6.04E+00
15 -1.33E+00
16 4.71E+01
18 -4.77E+00
19 -7.16E+00
20 -6.19E+00
21 -7.43E+00
22 -4.53E+00

Total number of rows: 13715

Table truncated, full table size 198 Kbytes.

Supplementary file Size Download File type/resource
GSM1551875_Lats2_KO_PDL70_.txt.gz 1.9 Mb (ftp)(http) TXT
Processed data included within Sample table
Processed data provided as supplementary file

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