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Sample GSM6965028 Query DataSets for GSM6965028
Status Public on Feb 23, 2024
Title CM25_50_REP3
Sample type SRA
 
Source name AC16
Organism Homo sapiens
Characteristics cell line: AC16
cell type: human cardiomyocyte
treatment: cultured in hyperglycemic conditions of 25–50 mM glucose
Treatment protocol Cells derived from respective cultures maintained with specific glucose concentrationswere trypsinized, passaged and cultured supplemented with either 5 mM or 25 mM glucose for 24 h followed by increasing the concentration of glucose supplementation to 50 mM in both sets of cultures (5 → 50 and 25 → 50) for the next 24 h afterward. Briefly, an additional amount of D-Glucose was added to supplement for the additional 45 mM glucose or the additional 25 mM glucose in the two culture systems in parallel, to represent a hyperglycemic-induced stress condition consisting of 50 mM glucose in total, for 24 h.
Growth protocol The human cardiomyocyte (CM) cell line AC16 was maintained in DMEM containing 10% fetal bovine serum , 100 U/mL penicillin and 100 mg/mL streptomycin and cultured with either 5 mM or 25 mM D-glucose in a humidified incubator at 37°C with 5% CO2 for at least 3-passages prior to them being used for experiments.
Extracted molecule total RNA
Extraction protocol Total RNAs from the AC16CMs cultures were extracted with TRIzol reagent
RNA libraries were prepared for sequencing using standard Illumina protocols
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Data processing Sequence cluster identification, quality prefiltering, base calling and uncertainty assessment were done in real time using Illumina's NCS 1.0.2 and RFV 1.0.2 software with default parameter settings. Sequencer .cbcl basecall files were demultiplexed and formatted into .fastq files
Sequenced reads were trimmed for adaptor sequence and aligned by STAR aligner
Reads per kilobase of exon per million reads mapped (RPKM) were calculated.
Assembly: hg38
Supplementary files format and content: tab-delimited text files include RPKM content for CM25 vs CM25_50 and CM5 vs CM5_50 sample sets
 
Submission date Jan 24, 2023
Last update date Feb 23, 2024
Contact name Irtisha Singh
E-mail(s) isingh@tamu.edu
Phone 9794360856
Organization name Texas A&M University Health Science Center
Department Cell Biology and Genetics
Street address 8447 Riverside Pkwy
City Bryan
State/province Texas
ZIP/Postal code 77807
Country USA
 
Platform ID GPL18573
Series (1)
GSE223586 Inhibition of ERK 1/2 pathway downregulates YAP1/TAZ signaling in human cardiomyocytes exposed to hyperglycemic conditions
Relations
BioSample SAMN32886451
SRA SRX19147799

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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