Depletion of XRN1 from human cell lines
RNA-seq (gene expression) · human · 36 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
- 36 samples: 12 conditions, mostly in triplicateGroups 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 GSE188282_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 PRJNA778197 and SRA study SRP344766. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 36 samples.
How we read this: 12 replicated groups read from 36 sample titles; they account for 36 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.
- GSM5676909 cyt_wt_1 cyt_wt
- GSM5676910 cyt_wt_2 cyt_wt
- GSM5676911 cyt_wt_3 cyt_wt
- GSM5676912 cyt_clone1_1 cyt_clone1
- GSM5676913 cyt_clone1_2 cyt_clone1
- GSM5676914 cyt_clone1_3 cyt_clone1
- GSM5676915 cyt_clone2_1 cyt_clone2
- GSM5676916 cyt_clone2_2 cyt_clone2
- GSM5676917 cyt_clone2_3 cyt_clone2
- GSM5676918 cyt_wt_ad_1 cyt_wt_ad
- GSM5676919 cyt_wt_ad_2 cyt_wt_ad
- GSM5676920 cyt_wt_ad_3 cyt_wt_ad
- GSM5676921 cyt_clone1_ad_1 cyt_clone1_ad
- GSM5676922 cyt_clone1_ad_2 cyt_clone1_ad
- GSM5676923 cyt_clone1_ad_3 cyt_clone1_ad
- GSM5676924 cyt_clone2_ad_1 cyt_clone2_ad
- GSM5676925 cyt_clone2_ad_2 cyt_clone2_ad
- GSM5676926 cyt_clone2_ad_3 cyt_clone2_ad
- GSM5676927 chr_wt_1 chr_wt
- GSM5676928 chr_wt_2 chr_wt
- GSM5676929 chr_wt_3 chr_wt
- GSM5676930 chr_clone1_1 chr_clone1
- GSM5676931 chr_clone1_2 chr_clone1
- GSM5676932 chr_clone1_3 chr_clone1
- GSM5676933 chr_clone2_1 chr_clone2
- GSM5676934 chr_clone2_2 chr_clone2
- GSM5676935 chr_clone2_3 chr_clone2
- GSM5676936 chr_wt_ad_1 chr_wt_ad
- GSM5676937 chr_wt_ad_2 chr_wt_ad
- GSM5676938 chr_wt_ad_3 chr_wt_ad
- GSM5676939 chr_clone1_ad_1 chr_clone1_ad
- GSM5676940 chr_clone1_ad_2 chr_clone1_ad
- GSM5676941 chr_clone1_ad_3 chr_clone1_ad
- GSM5676942 chr_clone2_ad_1 chr_clone2_ad
- GSM5676943 chr_clone2_ad_2 chr_clone2_ad
- GSM5676944 chr_clone2_ad_3 chr_clone2_ad
- GSE226482 Single cell RNA sequencing of spinal motor neurons and interneurons differentiated from isogenic FUS and TARDBP human induced pluripotent stem cell lines harbouring ALS-causative mutations 1415 samples shares lines
- GSE288929 Baseline Gene Expression in Human Derived Cell Lines 180 samples shares lines
- GSE336490 Comparative toxicogenomic profiling of human epithelial cell lines exposed to hazardous chemicals 120 samples shares lines
- GSE216561 Depletion-assisted multiplexing cell-free RNA sequencing reveals distinct human and microbial signatures in plasma versus extracellular vesicle 113 samples shares depletion
- GSE222196 Treatment of prostate cancer cell lines with Androgen Receptor and Receptor Tyrosine Kinase inhibitors 246 samples shares lines
- GSE288221 RNA sequencing human melanoma, glioblastoma and pancreatic adenocarcinoma cell lines 32 samples shares lines
- GSE336141 Systematic transcriptomic comparison of the time-serial interferon responses in two widely used human cell lines 30 samples shares lines
- GSE250236 Heterogeneous expression of cell surface markers in human myeloma cell lines: implications for disease modelling and therapeutic targeting 18 samples shares lines
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.