Understanding the transcriptome changes in HeLa cells after inactivation of endosomes/lysosomes
RNA-seq (gene expression) · human · 24 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Homo sapiens (human)
- Samples
- 24 samples: 6 conditions, mostly with about 4 replicates eachGroups are read from the sample names, not from the paper. Check the list below.
- Data you can get
- A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
- Paper
- A coordinated transcriptional program controls de novo Golgi biogenesisThe EMBO journal · 2026
Read the full summary ↓
Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.
Processed table
The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE325448_RAW.tar (it can run to tens of gigabytes).
Raw sequencing reads
The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.
What the files usually look like: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA1439936 and SRA study SRP685224. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 24 samples.
How we read this: 6 replicated groups read from 24 sample titles; they account for 24 of them. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.
- GSM9603926 HeLaNODAB_0H-1 HeLaNODAB_0H
- GSM9603927 HeLaNODAB_0H-2 HeLaNODAB_0H
- GSM9603928 HeLaNODAB_0H-3 HeLaNODAB_0H
- GSM9603929 HeLaNODAB_0H-4 HeLaNODAB_0H
- GSM9603930 HeLaDAB_0H-1 HeLaDAB_0H
- GSM9603931 HeLaDAB_0H-2 HeLaDAB_0H
- GSM9603932 HeLaDAB_0H-3 HeLaDAB_0H
- GSM9603933 HeLaDAB_0H-4 HeLaDAB_0H
- GSM9603934 HeLaNODAB_6H-1 HeLaNODAB_6H
- GSM9603935 HeLaNODAB_6H-2 HeLaNODAB_6H
- GSM9603936 HeLaNODAB_6H-3 HeLaNODAB_6H
- GSM9603937 HeLaNODAB_6H-4 HeLaNODAB_6H
- GSM9603938 HeLaDAB_6H-1 HeLaDAB_6H
- GSM9603939 HeLaDAB_6H-2 HeLaDAB_6H
- GSM9603940 HeLaDAB_6H-3 HeLaDAB_6H
- GSM9603941 HeLaDAB_6H-4 HeLaDAB_6H
- GSM9603942 HeLaNODAB_18H-1 HeLaNODAB_18H
- GSM9603943 HeLaNODAB_18H-2 HeLaNODAB_18H
- GSM9603944 HeLaNODAB_18H-3 HeLaNODAB_18H
- GSM9603945 HeLaNODAB_18H-4 HeLaNODAB_18H
- GSM9603946 HeLaDAB_18H-1 HeLaDAB_18H
- GSM9603947 HeLaDAB_18H-2 HeLaDAB_18H
- GSM9603948 HeLaDAB_18H-3 HeLaDAB_18H
- GSM9603949 HeLaDAB_18H-4 HeLaDAB_18H
- GSE278183 Understanding the early molecular changes associated with radiation therapy – a preliminary bulk RNA sequencing study 42 samples shares understanding, changes
- GSE234607 Identification of skewed X chromosome inactivation using exome and transcriptome sequencing in patients with suspected rare genetic disease 112 samples shares inactivation
- GSE228254 Mono and biallelic inactivation of Huntingtin gene in patient-specific iPS cells reveal HTT roles in striatal development and in neuronal functions impaired in Huntington’s disease 31 samples shares inactivation
- GSE322198 Female iPSC X-chromosome inactivation (XCI) erosion and its transcriptomic effects during CRISPR gene editing and neural differentiation 228 samples shares inactivation
- GSE287281 Chronic stress stimulated HIF-AS3/HIF-1α loop in neoplastic cells and promoted lung cancer progression through macrophage inactivation [A549 and H1299] 12 samples shares inactivation
- GSE240370 Transcriptomic analysis of the in vivo effects of CDK8/19 inactivation in 22Rv1 xenografts growing in intact and castrated NSG mice 66 samples shares inactivation
- GSE278524 CDK4 Inactivation Hinders Cell Death and Metabolism Remodeling Mitochondria-ER contacts in Triple-Negative Breast cancer cells 8 samples shares inactivation
- GSE287282 Chronic stress stimulated HIF-AS3/HIF-1α loop in neoplastic cells and promoted lung cancer progression through macrophage inactivation [A549_xenograft] 6 samples shares inactivation
Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.