The influence of the transcription factor EB for BCR-induced gene expression in human Ramos B cells
RNA-seq (gene expression) · human · 18 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
- 18 samples: 9 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
- TFEB activation hallmarks antigenic experience of B lymphocytes and directs germinal center fate decisionsNature communications · 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 GSE212456_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 PRJNA875453 and SRA study SRP395095. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 18 samples.
How we read this: 9 replicated groups read from 18 sample titles; they account for 18 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.
- GSM6533055 Ramos wt 0h_1 Ramos wt 0h
- GSM6533056 Ramos wt 6h_1 Ramos wt 6h
- GSM6533057 Ramos wt 18h_1 Ramos wt 18h
- GSM6533058 Ramos TFEB KO #A-31 0h_1 Ramos TFEB KO #A-31 0h
- GSM6533059 Ramos TFEB KO #A-31 6h_1 Ramos TFEB KO #A-31 6h
- GSM6533060 Ramos TFEB KO #A-31 18h_1 Ramos TFEB KO #A-31 18h
- GSM6533061 Ramos TFEB KO #B-24 0h_1 Ramos TFEB KO #B-24 0h
- GSM6533062 Ramos TFEB KO #B-24 6h_1 Ramos TFEB KO #B-24 6h
- GSM6533063 Ramos TFEB KO #B-24 18h_1 Ramos TFEB KO #B-24 18h
- GSM6533064 Ramos wt 0h_2 Ramos wt 0h
- GSM6533065 Ramos wt 6h_2 Ramos wt 6h
- GSM6533066 Ramos wt 18h_2 Ramos wt 18h
- GSM6533067 Ramos TFEB KO #A-31 0h_2 Ramos TFEB KO #A-31 0h
- GSM6533068 Ramos TFEB KO #A-31 6h_2 Ramos TFEB KO #A-31 6h
- GSM6533069 Ramos TFEB KO #A-31 18h_2 Ramos TFEB KO #A-31 18h
- GSM6533070 Ramos TFEB KO #B-24 0h_2 Ramos TFEB KO #B-24 0h
- GSM6533071 Ramos TFEB KO #B-24 6h_2 Ramos TFEB KO #B-24 6h
- GSM6533072 Ramos TFEB KO #B-24 18h_2 Ramos TFEB KO #B-24 18h
- GSE328457 Pooled combinatorial screening identifies transcription factor sets that drive hematopoietic progenitor-like cell fate 39 samples shares transcription, factor
- GSE335040 Evolutionary guided transcription factor design programs novel T cell states [RNAseq_Paired] 33 samples shares transcription, factor
- GSE216688 Identification of a transcription factor network that regulates anti-TNF mediated IL-10 expression in human CD4+ T-cells 16 samples shares transcription, factor
- GSE263748 Genetic dependencies associated with transcription factor activities in human cancer cell lines 23 samples shares transcription, factor
- GSE307817 A MEF2C transcription factor network regulates proliferation of glomerular endothelial cells in diabetic kidney disease 12 samples shares transcription, factor
- GSE302930 Epigenetic Atlas of Bladder Cancer Reveals Master Transcription Factors and Risk-Associated Regulatory Elements in Luminal and Basal-Squamous Molecular Subtypes 92 samples shares transcription, factor
- GSE301298 Functional redundancy between UTY and UTX in regulating the localization of transcription factors involved in pluripotency 88 samples shares transcription, factor
- GSE275721 Lineage master regulator and cancer-selective partner transcription factors rewire 3D genome topology for tumor-specific gene control 72 samples shares transcription, factor
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.