RNA sequencing of HeLa cells with scramble control and CNOT11 knockdown
RNA-seq (gene expression) · human · 4 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
- 4 samples: 2 × RNA-seq Scramble vs 2 × RNA-seq CNOT11-KDGroups 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
- CNOT11 depletion is associated with autophagy-related responses and IL-6-JAK-STAT signaling in cancer cellsFrontiers in cell and developmental biology · 2026
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 GSE306607_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 PRJNA1311466 and SRA study SRP613488. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 4 samples.
How we read this: 2 replicated groups read from 4 sample titles; they account for 4 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.
- GSM9204528 RNA-seq Scramble replicate 1 RNA-seq Scramble
- GSM9204529 RNA-seq Scramble replicate 2 RNA-seq Scramble
- GSM9204530 RNA-seq CNOT11-KD replicate 1 RNA-seq CNOT11-KD
- GSM9204531 RNA-seq CNOT11-KD replicate 2 RNA-seq CNOT11-KD
- GSE304266 Bulk RNA‑seq of IMR90 fibroblasts in IR‑induced senescence with siRNA knockdowns of CCND1, CDK4, CDK6 and controls 21 samples shares knockdown, control
- GSE338135 NRAS knockdown reverses monocytic cell state and resensitizes resistant FLT3-AML cells to gilteritinib 75 samples shares knockdown
- GSE161245 Comparison of bronchial epithelial cells obtained by bronchoscopy from mild asthma patients, moderate asthma patients, severe asthma patients and healthy controls 55 samples shares control
- GSE92592 mRNA Sequencing of Ideopathic Pulmonary Fibrosis (IPF) and Control Samples from the Lung Tissue Research Consortium (LTRC) 39 samples shares control
- GSE342032 Isoform-selective antisense oligonucleotide knockdown of SNCA-dIRE and SNCA-IRE transcripts in SK-MEL-28 cells (dose-response) 36 samples shares knockdown
- GSE288682 control versus allergic rhinitis basal cells in response to Der p1 36 samples shares control
- GSE175617 RNA-Seq Analysis of p53 Knockdown and Knock out Human Cancer cells 36 samples shares knockdown
- GSE325729 Bulk RNA-seq of SIT1 knockout and control T cells from human healthy donors 24 samples shares control
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.