RNA-seq analysis using A549 cells with TRIM22 knockdown and control A549 cells with or without ionizing radiation treatment.
RNA-seq (gene expression) · human · 12 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
- 12 samples: 3 × A549 cells, shControl, sham irradiation vs 3 × A549 cells, shControl, 3 days after ionizing radiation vs 3 × A549 cells, shTRIM22, sham irradiation vs 3 × A549 cells, shTRIM22, 3 days after ionizing radiationGroups 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.
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 GSE277805_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 PRJNA1164243 and SRA study SRP534264. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 4 replicated groups read from 12 sample titles; they account for 12 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.
- GSM8530972 A549 cells, shControl, sham irradiation1 A549 cells, shControl, …
- GSM8530973 A549 cells, shControl, sham irradiation2 A549 cells, shControl, …
- GSM8530974 A549 cells, shControl, sham irradiation3 A549 cells, shControl, …
- GSM8530975 A549 cells, shControl, 3 days after ionizing radiation1 A549 cells, shControl, …
- GSM8530976 A549 cells, shControl, 3 days after ionizing radiation2 A549 cells, shControl, …
- GSM8530977 A549 cells, shControl, 3 days after ionizing radiation3 A549 cells, shControl, …
- GSM8530978 A549 cells, shTRIM22, sham irradiation1 A549 cells, shTRIM22, s…
- GSM8530979 A549 cells, shTRIM22, sham irradiation2 A549 cells, shTRIM22, s…
- GSM8530980 A549 cells, shTRIM22, sham irradiation3 A549 cells, shTRIM22, s…
- GSM8530981 A549 cells, shTRIM22, 3 days after ionizing radiation1 A549 cells, shTRIM22, 3…
- GSM8530982 A549 cells, shTRIM22, 3 days after ionizing radiation2 A549 cells, shTRIM22, 3…
- GSM8530983 A549 cells, shTRIM22, 3 days after ionizing radiation3 A549 cells, shTRIM22, 3…
- GSE246364 RNA-seq data for MCF-7 cells with ER knockdown or GDC-9545 treatment 14 samples shares knockdown, treatment, rna-seq
- GSE304966 Transcriptomic profiling of A549 cells in response to dexamethasone, in the context of light-controlled GR degradation using novel GR-PhotoPROTACs 36 samples shares a549, control
- GSE190943 RNPC3 knockdown in A549 lung adenocarcinoma cells 16 samples shares a549, knockdown
- GSE171750 A549 cell Next Gen sequencing (RNA-seq) for differential gene expression of untreated versus IL4 or IL4+ALOX15 siRNA treated cells 15 samples shares a549, rna-seq
- GSE249544 Phenotypical states modulate sensitivity and transcriptional reprogramming in patient-derived glioblastoma cells in response to temozolomide and radiation therapy. [RNA-Seq] 48 samples shares radiation, rna-seq
- GSE319794 Bulk RNA-sequencing of soft tissue sarcomas from patients undergoing neoadjuvant BO-112 and hypofractionated radiation therapy with or without nivolumab in soft tissue sarcoma 41 samples shares radiation, rna-seq
- GSE175617 RNA-Seq Analysis of p53 Knockdown and Knock out Human Cancer cells 36 samples shares knockdown, rna-seq
- GSE297038 Chemoradiation Reprograms Tumor Cells and Immune Microenvironment In Cervical Cancer [bulk RNA-seq] 34 samples shares radiation, 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.