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Sample GSM2265448 Query DataSets for GSM2265448
Status Public on Aug 10, 2016
Title Huh1_siLSD1_3
Sample type RNA
 
Source name Huh1_siLSD1_1% O2 for 24hrs
Organism Homo sapiens
Characteristics cell line: Huh1
cell type: Hepatocellular Carcinoma Cells
transfected with: siLSD1
Treatment protocol Using RNAiMAX (Invitrogen) reagents, Huh-1 cells were reverse-transfected with control siRNA or siLSD1. After 48hrs, cells were incubated under 1% O2 for 24hrs.
Growth protocol Huh-1 cells were maintained in Dulbecco’s modified Eagle medium (DMEM; Gibco BRL, Grand Island, NY). Media was supplemented with heat-inactivated 10% fetal bovine serum (GIBCO BRL) and 1× Antibiotic-Antimycotic (GIBCO BRL). Cells were cultured at 37℃ in a humidified incubator under 5% CO2. Hypoxic culture conditions were constructed with O2/CO2 incubator (1%O2, 5% CO2 and 92%-94% N2, MCO-5M, Sanyo, Japan)
Extracted molecule total RNA
Extraction protocol Total RNA extraction was perforemd using QIAGEN RNeasy mini kit according to manufacturer's instruction. Total RNA integrity was determined with ExperionTM RNA StdSens (BIO-RAD).
Label Biotin
Label protocol Illumina TotalPrep RNA Amplification kit (Applied Biosystem/Ambion, Austin, TX, USA) was used to generate biotin-UTP labeled cRNA according to manufacturer’s instructions
 
Hybridization protocol Labeled cRNA (750ng) was hybridized to HumanHT-12 v4 chips at 58℃ for 18 hours.
Scan protocol After hybridizing procedures, chips were scanned using a BeadArray Reader and BeadScan software (Illumina).
Description Gene expression analysis of Huh1 cell line under transfected with siLSD1. At 48hrs after the control siRNA trasfection to Huh-1 cells, the cells were incubated in 1% O2 for 24 hrs. Biological replication #2, Technical replicatipon #1
Data processing Data extraction and normalization were elevated by BeadStudio software (v. 3.1.1.0, Illumina); content Descriptor; HumanHT-12_V4_0_R2_15002873_B.bgx
 
Submission date Aug 09, 2016
Last update date Aug 10, 2016
Contact name Yang Suk-Jin
E-mail(s) sukjini@kribb.re.kr
Organization name KRIBB (Korea Research Institute of Bioscience and Biotechnology)
Street address 125 Gwahak-ro, Yuseong-gu
City Daejeon
ZIP/Postal code 34141
Country South Korea
 
Platform ID GPL10904
Series (1)
GSE85345 Gene expression profiling in LSD1 depleted Huh-1 cell line under hypoxic condition.

Data table header descriptions
ID_REF
VALUE Quantile normalization.

Data table
ID_REF VALUE
7A5 139.0954
A1BG 176.789
A1CF 8512.678
A26C3 141.2805
A2BP1 132.8378
A2LD1 147.6963
A2M 144.731
A2ML1 89.67336
A3GALT2 140.273
A4GALT 158.0356
A4GNT 171.6792
AAA1 167.8838
AAAS 568.9207
AACS 634.6288
AACSL 322.3134
AADAC 957.6252
AADACL1 908.3605
AADACL2 137.775
AADACL3 146.6825
AADACL4 154.7443

Total number of rows: 34694

Table truncated, full table size 577 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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