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Sample GSM8324984 Query DataSets for GSM8324984
Status Public on Jun 13, 2024
Title MDMs, Normoxia_day2_rep3
Sample type SRA
 
Source name Monocyto-derived macrophages
Organism Homo sapiens
Characteristics tissue: Monocyto-derived macrophages
individual: Healthy donor 3
treatment: Normoxia
Treatment protocol Hypoxic cell culture was performed in a Whitley H35 Hypoxystation at 37 °C, 5% CO2, 1 % O2and 94% N2.
Growth protocol Monocyte derived macrophages were maintained in RPMI supplemented with 10% Human AB serum.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from MDM using the RNeasy Plus minikit.
RNASequencing libraries were generated using the SMARTer Stranded Total RNA-Seq v2 - Pico Input Mammalian kit (Takara).
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 4000
 
Data processing Quality trimming, to remove adapter sequences and check for low quality base calling, was performed with TrimGalore
Transcript quantification was performed using Salmon
Differential transcript analysis was performed with DESeq2
Assembly: Gencode Human Release 35 (GRCh38.p13)
Supplementary files format and content: Salmon quant files that contain TPM values for each transcript
 
Submission date Jun 12, 2024
Last update date Jun 13, 2024
Contact name Niek Wit
E-mail(s) nw416@cam.ac.uk
Organization name University of Cambridge
Department Department of Medicine
Lab Professor James Nathan
Street address Puddicombe Way
City Cambridge
State/province Not US or Canada
ZIP/Postal code CB2 0AW
Country United Kingdom
 
Platform ID GPL20301
Series (1)
GSE269699 Hypoxia drives HIF2-dependent reversible macrophagecellcycle entry
Relations
BioSample SAMN41807509
SRA SRX24895351

Supplementary file Size Download File type/resource
GSM8324984_N3_D2-quant_quant.sf.gz 6.6 Mb (ftp)(http) SF
SRA Run SelectorHelp
Raw data are available in SRA

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