LARP6 shapes the mRNA translation of fibrogenic genes
RNA-seq (gene expression) · human · 16 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
- 16 samples: 8 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.
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 GSE279065_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 PRJNA1170278 and SRA study SRP536455. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 16 samples.
How we read this: 8 replicated groups read from 16 sample titles; they account for 16 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.
- GSM8553790 ctrl_IP_rep1 ctrl_IP
- GSM8553791 ctrl_IN_rep1 ctrl_IN
- GSM8553792 ctrl_IP_rep2 ctrl_IP
- GSM8553793 ctrl_IN_rep2 ctrl_IN
- GSM8553794 TGFb_IP_rep1 TGFb_IP
- GSM8553795 TGFb_IN_rep1 TGFb_IN
- GSM8553796 TGFb_IP_rep2 TGFb_IP
- GSM8553797 TGFb_IN_rep2 TGFb_IN
- GSM8560360 rnaseq_control_rep1 rnaseq_control
- GSM8560361 rnaseq_control_rep2 rnaseq_control
- GSM8560362 rnaseq_larp6kd_rep1 rnaseq_larp6kd
- GSM8560363 rnaseq_larp6kd_rep2 rnaseq_larp6kd
- GSM8560364 rp_control_rep1 rp_control
- GSM8560365 rp_control_rep2 rp_control
- GSM8560366 rp_larp6kd_rep1 rp_larp6kd
- GSM8560367 rp_larp6kd_rep2 rp_larp6kd
- GSE285857 Mutant KRAS-Driven Selective mRNA Translation Reveals Mechanisms and Therapeutic Vulnerabilities in Cancer 48 samples shares translation, mrna
- GSE303964 Serine tRNAs Compete to Regulate the mRNA Translation Of Serine-sensitive Codons 48 samples shares translation, mrna
- GSE244655 Long read subcellular fractionation and sequencing reveals the translational fate of full length mRNA isoforms during neuronal differentiation 40 samples shares translation, mrna
- GSE239826 eIF4G2-dependent translation of pro-fibrotic mRNAs is essential for cardiac fibroblast activation 16 samples shares translation, mrna
- GSE248572 m6A sites in the coding region trigger translation-dependent mRNA decay (ribosome profiling) 12 samples shares translation, mrna
- GSE222266 Phase separation-competent FBL shapes nucleolar function and translation in leukemogenesis 14 samples shares translation, shapes
- GSE246419 Comparative CRISPRi screens reveal a human stem cell dependence on mRNA translation-coupled quality control 80 samples shares translation, mrna
- GSE299341 Altered mRNA transport and local translation in i3Neurons with RNA binding protein knockdown 52 samples shares translation, mrna
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.