organism: Homo sapiens
description: Protocols: LNCaP human prostate cancer cells were cultured under chronic hypoxia (2% O₂) in RPMI-1640 medium (Gibco #21875034) supplemented with 10% fetal bovine serum (ThermoFisher #26140079) and Penicillin/Streptomycin/Amphotericin B (ThermoFisher #15140122). Cells were harvested by trypsinization at experimental time points (Day 3, Day 6, Day 9), counted using a Luna-FL cell counter, and assessed for viability via trypan blue exclusion. Samples were maintained at 2% O₂ until processing. Single-cell suspensions were prepared following the 10x Genomics Chromium Next GEM Single Cell 3′ Kit v3.1 user guide. RNA molecules were captured within Gel Beads-in-Emulsion (GEMs) using barcoded oligo-dT primers. Reverse transcription within droplets generated cDNA tagged with unique molecular identifiers (UMIs) and cell barcodes. No separate bulk RNA extraction step was performed. cDNA synthesis and library preparation were performed using the 10x Genomics Chromium Next GEM Single Cell 3′ Kit v3.1 (PN-1000268/1000269) together with the 3′ Feature Barcode Kit (PN-1000262), Chromium Next GEM Chip G Single Cell Kit (PN-1000127/1000120), and Dual Index Kit TT Set A (PN-1000215). Libraries were constructed according to the manufacturer's instructions at the Babraham Institute Genomics Facility.
attributes.tag: ENA first public
attributes.value: 2025-11-09
attributes.tag: INSDC center name
attributes.value: The Open University
attributes.tag: INSDC status
attributes.value: public
attributes.tag: Submitter Id
attributes.value: E-MTAB-16057:Sample 4
attributes.tag: broker name
attributes.value: ArrayExpress
attributes.tag: cell line
attributes.value: LNCAP
attributes.tag: collection date
attributes.value: not collected
attributes.tag: common name
attributes.value: human
attributes.tag: disease
attributes.value: prostate adenocarcinoma
attributes.tag: geographic location (country and/or sea)
attributes.value: not collected
attributes.tag: isolate
attributes.value: not applicable
attributes.tag: organism part
attributes.value: prostate gland
attributes.tag: sample name
attributes.value: E-MTAB-16057:Sample 4
attributes.tag: scientific_name
attributes.value: Homo sapiens