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Sample GSM2265449 Query DataSets for GSM2265449
Status Public on Aug 10, 2016
Title Huh1_siLSD1_4
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 #2
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 159.7106
A1BG 172.2964
A1CF 8360.678
A26C3 156.2242
A2BP1 124.3345
A2LD1 142.4137
A2M 119.6651
A2ML1 98.47375
A3GALT2 126.8758
A4GALT 193.358
A4GNT 136.7101
AAA1 186.8308
AAAS 636.5889
AACS 583.2543
AACSL 315.8892
AADAC 857.4448
AADACL1 935.5938
AADACL2 131.741
AADACL3 136.0618
AADACL4 140.5681

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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