The RNA binding proteins LARP4A and LARP4B promote tumour growth and metastasis in prostate cancer and osteosarcoma
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)
- Topic
- Prostate cancerThis series is part of our curated briefing on it.
- Samples
- 12 samples: 6 conditions, mostly in duplicateGroups 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
- The RNA binding proteins LARP4A and LARP4B promote sarcoma and carcinoma growth and metastasisiScience · 2024
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 GSE222467_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 PRJNA922157 and SRA study SRP416628. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 6 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.
- GSM6923782 PC3 cells, siControl rep 1 PC3 cells, siControl
- GSM6923783 PC3 cells, siControl rep 2 PC3 cells, siControl
- GSM6923784 PC3 cells, siLARP4A rep 1 PC3 cells, siLARP4A
- GSM6923785 PC3 cells, siLARP4A rep 2 PC3 cells, siLARP4A
- GSM6923786 PC3 cells, siLARP4B rep 1 PC3 cells, siLARP4B
- GSM6923787 PC3 cells, siLARP4B rep 2 PC3 cells, siLARP4B
- GSM6923788 MG63 cells, siControl rep 1 MG63 cells, siControl
- GSM6923789 MG63 cells, siControl rep 2 MG63 cells, siControl
- GSM6923790 MG63 cells, siLARP4A rep 1 MG63 cells, siLARP4A
- GSM6923791 MG63 cells, siLARP4A rep 2 MG63 cells, siLARP4A
- GSM6923792 MG63 cells, siLARP4B rep 1 MG63 cells, siLARP4B
- GSM6923793 MG63 cells, siLARP4B rep 2 MG63 cells, siLARP4B
- GSE115501 RNA sequencing on circulating tumor cells from prostate cancer patients 136 samples same disease briefing · shares prostate
- GSE300947 A novel six-biomarker panel identified from male breast cancer-associated fibroblasts demonstrates prognostic power for prostate tumors 6 samples same disease briefing · shares prostate
- GSE120181 Human prostate cancer cell line, 22Rv1: Control vs. luteolin treatment 2 samples same disease briefing · shares prostate
- GSE242541 ONECUT2 is a druggable driver of luminal to basal breast cancer plasticity 12 samples same disease briefing
- GSE71008 Plasma extracellular RNA profiles in healthy and cancer patients 192 samples same disease briefing
- GSE324131 A single-cell and spatial atlas of prostate cancer reveals the combinatorial nature of gene modules underlying lineage plasticity and metastasis 38 samples shares metastasis, prostate
- GSE253036 Tumor Cell JAGGED-1 Promotes Lymph Node Metastasis and Predicts Recurrence in Lymph Node Positive Breast Cancer Patients 27 samples shares metastasis, promote
- GSE309392 Cancer-associated fibroblasts promote esophageal carcinogenesis and lung metastasis by CDH11-mediated extracellular matrix environment remodeling [scRNA-Seq] 23 samples shares metastasis, promote
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.