Loss of the USP22 deubiquitylase confers resistance to chemotherapy in small cell lung cancer [RNA-seq]
RNA-seq (gene expression) · human · 20 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)
- Topic
- Small cell lung cancerThis series is part of our curated briefing on it.
- Samples
- 20 samples: 5 × JHULX33_Empty_SAL vs 5 × JHULX33_USP22_SAL vs 5 × JHULX33_USP22_CE vs 4 × JHULX33_Empty_CEGroups 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 GSE296155_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 PRJNA1257930. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 19 samples.
How we read this: 4 replicated groups read from 20 sample titles; they account for 19 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.
- GSM8966054 JHULX33_Empty_SAL1 JHULX33_Empty_SAL
- GSM8966055 JHULX33_Empty_SAL2 JHULX33_Empty_SAL
- GSM8966056 JHULX33_Empty_SAL3 JHULX33_Empty_SAL
- GSM8966057 JHULX33_Empty_SAL4 JHULX33_Empty_SAL
- GSM8966058 JHULX33_Empty_SAL5 JHULX33_Empty_SAL
- GSM8966059 JHULX33_USP22_SAL1 JHULX33_USP22_SAL
- GSM8966060 JHULX33_USP22_SAL2 JHULX33_USP22_SAL
- GSM8966061 JHULX33_USP22_SAL3 JHULX33_USP22_SAL
- GSM8966062 JHULX33_USP22_SAL4 JHULX33_USP22_SAL
- GSM8966063 JHULX33_USP22_SAL5 JHULX33_USP22_SAL
- GSM8966064 JHULX33_Empty_CE1 JHULX33_Empty_CE
- GSM8966065 JHULX33_Empty_CE2 JHULX33_Empty_CE
- GSM8966066 JHULX33_Empty _CE3
- GSM8966067 JHULX33_Empty_CE4 JHULX33_Empty_CE
- GSM8966068 JHULX33_Empty_CE5 JHULX33_Empty_CE
- GSM8966069 JHULX33_USP22_CE1 JHULX33_USP22_CE
- GSM8966070 JHULX33_USP22_CE2 JHULX33_USP22_CE
- GSM8966071 JHULX33_USP22_CE3 JHULX33_USP22_CE
- GSM8966072 JHULX33_USP22_CE4 JHULX33_USP22_CE
- GSM8966073 JHULX33_USP22_CE5 JHULX33_USP22_CE
- GSE296261 Loss of the USP22 deubiquitylase confers resistance to chemotherapy in small cell lung cancer 43 samples same disease briefing · shares usp22, deubiquitylase, chemotherapy, resistance, confers, small, loss
- GSE296258 Loss of the USP22 deubiquitylase confers resistance to chemotherapy in small cell lung cancer [CUT&Tag] 23 samples same disease briefing · shares usp22, deubiquitylase, chemotherapy, resistance, confers, small, loss
- GSE255095 An in vivo screening platform using PDX models reveals KEAP1, USP22 and other drivers of chemoresistance in small cell lung cancer 67 samples same disease briefing · shares usp22, resistance, small
- GSE268219 Phase separation of RXRγ drives tumor chemoresistance and represents a therapeutic target for small cell lung cancer [RNA-Seq] 8 samples same disease briefing · shares resistance, rna-seq, small
- GSE281525 RNA-sequence data of clinically never-metastatic primary small cell lung cancer cases and small cell lung cancer metastasis cases, FOXA2 knock-down and overexpression in cell lines 61 samples same disease briefing · shares rna-seq, small
- GSE138474 Single-cell analyses reveal increasing intratumoral heterogeneity as an essential component of treatment resistance in small cell lung cancer 43 samples same disease briefing · shares resistance, small
- GSE300624 The function of FTO in small cell lung cancer [RNA-seq] 15 samples same disease briefing · shares rna-seq, small
- GSE297360 Loss of NOTCH2 Creates a TRIM28-Dependent Vulnerability in Small Cell Lung Cancer [human_bulk_RNA_seq] 14 samples same disease briefing · shares small, loss
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.