{"database":"GEO","file_versions":[{"headers":{"Content-Type":["application/json"]},"body":{"files":{"Other":["ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE344nnn/GSE344100/"]},"type":"primary"},"statusCode":"OK","statusCodeValue":200}],"scores":null,"additional":{"omics_type":["Transcriptomics"],"species":["Homo sapiens"],"gds_type":["Expression profiling by high throughput sequencing"],"full_dataset_link":["https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE344100"],"repository":["GEO"],"entry_type":["GSE"],"additional_accession":[]},"is_claimable":false,"name":"Effects of 3D and 2D culture on gene expression of HCT116 cells","description":"Accurate preclinical models that recapitulate in vivo tumor pathophysiology are essential for reliable assessment of anticancer drug efficacy. Three-dimensional (3D) cell culture systems, which better mimic the in vivo microenvironment, have garnered significant attention. However, high throughput production of uniformly sized spheroids remains a key challenge for drug screening. we developed a PDMS substrate with hexagonally arrayed U-shaped microwells (HAUM PDMS) for high-throughput culture of uniformly sized spheroids. Transcriptome sequencing was performed on HCT116 spheroids harvested from 500 µm HAUM PDMS substrates and on 2D-cultured cells after 3 days. The results showed that transcriptome analysis indicated that up-regulated genes in spheroids were mainly related to cell division and proliferation.","dates":{"publication":"2026/08/18"},"accession":"GSE344100","cross_references":{"GSM":["GSM9970620","GSM9970619","GSM9970616","GSM9970615","GSM9970618","GSM9970617"],"GPL":["24676"],"GSE":["344100"],"taxon":["Homo sapiens"]}}