Global gene expression profiling from LeuCAG3'tsRNA depleted- HeLa and HCT-116 cell lines through 50 base pair paired-end RNA-seq
RNA-seq (gene expression) · human · 6 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
- 6 samples
- 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.
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 GSE54878_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 PRJNA238335 and SRA study SRP037988. Searching any of these in the dataset finder brings you back here.
The sample list for this study is not cached yet. Press Load samples and it will be fetched from NCBI.
+ 6 more — browse all 6 samples with per-sample file links →
- GSE266634 Gene expression of HCT-116 cell lines treated with EVs isolated using GlyExo-Capture method 21 samples shares hct-116, lines
- GSE250000 Bulk RNA-sequencing of transduced colorectal cancer cell line HCT-116 and breast cancer cell line MCF-7 overexpressing full-lenght p53β or p53β-stop-lost. 4 samples shares hct-116, rna-seq
- GSE255105 Transcriptome Analysis of Human Cancer Cells with Depleted or Overexpressed STELLA Proteins [RNA-seq] 51 samples shares depleted, rna-seq
- GSE309664 Global Transcriptomic Shifts in Mitochondrial DNA-Depleted Neuronal Cells Reveal Alzheimer's Disease-Related Pathway Changes 40 samples shares depleted, global
- GSE306946 RNA-SEQ of HRECs depleted with Norrin/beta-catenin signaling components or KIF11 or PRDX1 27 samples shares depleted, rna-seq
- GSE239991 Identifying gene expression changes in fibroblasts treated with an inhibitor targeting MLL1-MENIN complex and depleted for MEN1 gene during reprogramming using RNA-seqeuncing 24 samples shares depleted, rna-seq
- GSE291621 RNA-seq analyses of FOXF1/2- and p300/CBP-depleted senescent IMR-90 cells 18 samples shares depleted, rna-seq
- GSE308690 RNA-seq of Tph and Tfh cells proliferated in the spleens of CD8T cells depleted PBMC-transferred humanized mice 12 samples shares depleted, rna-seq
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.