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Sample GSM2265442 Query DataSets for GSM2265442
Status Public on Aug 10, 2016
Title Huh1_siControl_1
Sample type RNA
 
Source name Huh1_siControl_1% O2 for 24hrs
Organism Homo sapiens
Characteristics cell line: Huh1
cell type: Hepatocellular Carcinoma Cells
transfected with: control siRNA
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 control siRNA. At 48hrs after the control siRNA trasfection to Huh-1 cells, the cells were incubated in 1% O2 for 24 hrs. Biological replication #1, 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 157.1734
A1BG 173.849
A1CF 5585.898
A26C3 145.5924
A2BP1 132.0438
A2LD1 135.3201
A2M 129.9533
A2ML1 97.99088
A3GALT2 148.6344
A4GALT 278.6489
A4GNT 148.7673
AAA1 141.985
AAAS 622.0488
AACS 569.0244
AACSL 308.2745
AADAC 968.687
AADACL1 1837.407
AADACL2 147.1913
AADACL3 141.4738
AADACL4 128.8649

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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