NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM2265446 Query DataSets for GSM2265446
Status Public on Aug 10, 2016
Title Huh1_siLSD1_1
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 #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 151.0949
A1BG 159.0247
A1CF 8550.491
A26C3 139.1532
A2BP1 127.7431
A2LD1 140.8678
A2M 141.782
A2ML1 105.7684
A3GALT2 143.8688
A4GALT 169.2093
A4GNT 151.2807
AAA1 166.0254
AAAS 619.3922
AACS 642.0071
AACSL 436.1053
AADAC 868.7249
AADACL1 1099.006
AADACL2 147.0302
AADACL3 126.0274
AADACL4 165.9961

Total number of rows: 34694

Table truncated, full table size 577 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap