Copper inhibits ATR and synergizes with PARP inhibitors (RNA-seq)
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 × ES2 vs 6 × ES2_EC vs 6 × ES2_Olap vs 6 × ES2_EC_OlapGroups 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.
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 GSE246085_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 PRJNA1031244 and SRA study SRP468016. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 24 samples.
How we read this: 4 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.
- GSM7855243 ES2_1 ES2
- GSM7855244 ES2_2 ES2
- GSM7855245 ES2_3 ES2
- GSM7855246 ES2_4 ES2
- GSM7855247 ES2_5 ES2
- GSM7855248 ES2_6 ES2
- GSM7855249 ES2_EC_1 ES2_EC
- GSM7855250 ES2_EC_2 ES2_EC
- GSM7855251 ES2_EC_3 ES2_EC
- GSM7855252 ES2_EC_4 ES2_EC
- GSM7855253 ES2_EC_5 ES2_EC
- GSM7855254 ES2_EC_6 ES2_EC
- GSM7855255 ES2_Olap_1 ES2_Olap
- GSM7855256 ES2_Olap_2 ES2_Olap
- GSM7855257 ES2_Olap_3 ES2_Olap
- GSM7855258 ES2_Olap_4 ES2_Olap
- GSM7855259 ES2_Olap_5 ES2_Olap
- GSM7855260 ES2_Olap_6 ES2_Olap
- GSM7855261 ES2_EC_Olap_1 ES2_EC_Olap
- GSM7855262 ES2_EC_Olap_2 ES2_EC_Olap
- GSM7855263 ES2_EC_Olap_3 ES2_EC_Olap
- GSM7855264 ES2_EC_Olap_4 ES2_EC_Olap
- GSM7855265 ES2_EC_Olap_5 ES2_EC_Olap
- GSM7855266 ES2_EC_Olap_6 ES2_EC_Olap
- GSE281517 Lysosomal sequestration of PARP inhibitors drives heterogeneous accumulation in ovarian cancer to increase efficacy [RNA-seq] 72 samples shares parp, inhibitors, rna-seq
- GSE279448 Multiomics Analyses Unveil Immune Landscape in Pediatric and Adult Sepsis [bulk RNA-seq] 207 samples shares atr, rna-seq
- GSE293805 Single nucleus RNA-sequencing atlas of pediatric solid tumors 182 samples shares atr, rna-seq
- GSE272023 CpG island methylator phenotype classification improves risk assessment in pediatric T-cell Acute Lymphoblastic Leukemia [RNA-seq] 111 samples shares atr, rna-seq
- GSE208732 Mapping functional to morphological variation reveals the basis of regional extracellular matrix subversion and nerve invasion in pancreatic cancer [RNA-seq] 102 samples shares atr, rna-seq
- GSE222556 Neoadjuvant PARPi or Chemotherapy in Ovarian Cancer Informs Targeting Effector Treg Cells for Homologous-Recombination-Deficient Tumors [10x scRNA-seq] 67 samples shares parp, rna-seq
- GSE303271 RNA-seq of liver biopsies from patients with pediatric autoimmune liver disease 64 samples shares atr, rna-seq
- GSE255612 Large-scale Single-nuclei Profiling Identifies Role for ATRNL1 in Atrial Fibrillation [snRNA-seq] 34 samples shares atr, 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.