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Sample GSM8207509 Query DataSets for GSM8207509
Status Public on Apr 15, 2024
Title T.Tn exosome normoxia
Sample type RNA
 
Source name exosomal RNA 48h normoxia
Organism Homo sapiens
Characteristics cell line: T.Tn
cell type: human esophageal squamous cell carcinoma
sample type: exosome
stress: normoxia
Treatment protocol None
Growth protocol Cell lines were grown according to standard conditions up to 80% confluent. After that, the cells were incubated for 48 hours under normoxia (O2: 20%) or hypoxia(O2: 1%).
Extracted molecule total RNA
Extraction protocol Exosomes were isolated from 10 ml of culture medium by ultracentrifuge (Optima TLX Ultracentrifuge, Beckman Coulter, CA, USA) at 10,000 g, 4°C for 90 min. Total Exosome RNA & Protein Isolation Kit ( Thermo Fisher Scientific, Inc, cat.#4478545) was used to extract total RNA from exosomes.
Label biotin
Label protocol Biotin-labeled samples were prepared using the FlashTag™ Biotin HSR RNA Labeling Kit according to the protocol supplied with the kit.
 
Hybridization protocol Arrays were incubated with GeneChip™ Hybridization Oven 645 at 48°C for 18 hours (60 rpm) according to the protocol supplied with the kit. The arrays were cleaned using the GeneChip™ Fluidics Station 450 according to the protocol supplied with the kit.
Scan protocol Arrays were scanned using the GeneChip™ Scanner 3000 7G according to the accompanying manual <GeneChip™ Command Console (AGCC) 4.0 User Manual>.
Data processing Arrays were read using a GeneChip™ Scanner 3000 7G (Thermo Fisher Scientific, Inc.). Images were quantified and corrected using Expression Console™ Software (Thermo Fisher Scientific, Inc.). Normalization was performed by RMA-DABG, and quality flags were calculated by Affymetrix® Expression Console™ Software and are denoted as P: Probes with detectable transcripts and A: Probes with ambiguous transcript detection.
Up regulation (Ratio≥2) is defined when it is more than twice the control, or Down regulation (Ratio≤0.5) when it is less than 1/2 the control. Only data for which both "test,control" in the Quality flag are set to "P" are selected.
 
Submission date Apr 14, 2024
Last update date Apr 15, 2024
Contact name Yasunori Matsumoto
E-mail(s) ymatsumoto@chiba-u.jp
Organization name Chiba University
Department Frontier Surgery
Street address 1-8-1 Inohana, Chuo-Ku
City Chiba-Shi
State/province Chiba
ZIP/Postal code 2608670
Country Japan
 
Platform ID GPL21572
Series (1)
GSE263921 Profiling of exosomal microRNAs expression in culture medium of human esophageal cancer cell lines under hypoxic conditions

Data table header descriptions
ID_REF
VALUE RMA signal

Data table
ID_REF VALUE
20500000 1.802863
20500001 1.461933
20500002 1.803041
20500003 1.349858
20500004 1.309292
20500005 1.045929
20500006 1.701068
20500007 1.073519
20500008 1.936299
20500009 1.628631
20500010 0.9824649
20500011 1.073519
20500012 0.9824649
20500013 1.073519
20500014 3.619373
20500015 1.050359
20500016 1.073519
20500017 1.085001
20500018 0.9715512
20500019 1.323999

Total number of rows: 36249

Table truncated, full table size 638 Kbytes.




Supplementary file Size Download File type/resource
GSM8207509_TTn_1_normoxia_miRNA-4_0.CEL.gz 615.0 Kb (ftp)(http) CEL

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