ZBTB48 is a pioneer factor regulating B-cell-specific CIITA expression [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)
- Samples
- 20 samples: 5 × U2OS cells, WT, RNA-seq vs 5 × U2OS cells, ZBTB48 KO, RNA-seq vs 5 × U2OS cells, WT IFNg, RNA-seq vs 5 × U2OS cells, ZBTB48 KO IFNg, RNA-seqGroups 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
- ZBTB48 is a priming factor regulating B-cell-specific CIITA expressionThe EMBO journal · 2024
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 GSE237958_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 PRJNA997299 and SRA study SRP450804. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 20 samples.
How we read this: 4 replicated groups read from 20 sample titles; they account for 20 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.
- GSM7656939 U2OS cells, WT, RNA-seq rep1 U2OS cells, WT, RNA-seq
- GSM7656940 U2OS cells, WT, RNA-seq rep2 U2OS cells, WT, RNA-seq
- GSM7656941 U2OS cells, WT, RNA-seq rep3 U2OS cells, WT, RNA-seq
- GSM7656942 U2OS cells, WT, RNA-seq rep4 U2OS cells, WT, RNA-seq
- GSM7656943 U2OS cells, WT, RNA-seq rep5 U2OS cells, WT, RNA-seq
- GSM7656944 U2OS cells, ZBTB48 KO, RNA-seq rep1 U2OS cells, ZBTB48 KO, …
- GSM7656945 U2OS cells, ZBTB48 KO, RNA-seq rep2 U2OS cells, ZBTB48 KO, …
- GSM7656946 U2OS cells, ZBTB48 KO, RNA-seq rep3 U2OS cells, ZBTB48 KO, …
- GSM7656947 U2OS cells, ZBTB48 KO, RNA-seq rep4 U2OS cells, ZBTB48 KO, …
- GSM7656948 U2OS cells, ZBTB48 KO, RNA-seq rep5 U2OS cells, ZBTB48 KO, …
- GSM7656949 U2OS cells, WT IFNg, RNA-seq rep1 U2OS cells, WT IFNg, RN…
- GSM7656950 U2OS cells, WT IFNg, RNA-seq rep2 U2OS cells, WT IFNg, RN…
- GSM7656951 U2OS cells, WT IFNg, RNA-seq rep3 U2OS cells, WT IFNg, RN…
- GSM7656952 U2OS cells, WT IFNg, RNA-seq rep4 U2OS cells, WT IFNg, RN…
- GSM7656953 U2OS cells, WT IFNg, RNA-seq rep5 U2OS cells, WT IFNg, RN…
- GSM7656954 U2OS cells, ZBTB48 KO IFNg, RNA-seq rep1 U2OS cells, ZBTB48 KO I…
- GSM7656955 U2OS cells, ZBTB48 KO IFNg, RNA-seq rep2 U2OS cells, ZBTB48 KO I…
- GSM7656956 U2OS cells, ZBTB48 KO IFNg, RNA-seq rep3 U2OS cells, ZBTB48 KO I…
- GSM7656957 U2OS cells, ZBTB48 KO IFNg, RNA-seq rep4 U2OS cells, ZBTB48 KO I…
- GSM7656958 U2OS cells, ZBTB48 KO IFNg, RNA-seq rep5 U2OS cells, ZBTB48 KO I…
- GSE237959 ZBTB48 is a pioneer factor regulating B-cell-specific CIITA expression. 36 samples shares zbtb48, ciita, b-cell-specific, regulating, pioneer, factor
- GSE301297 Functional redundancy between UTY and UTX in regulating the localization of transcription factors involved in pluripotency [RNA-seq] 40 samples shares regulating, rna-seq, factor
- GSE228606 Recruitment of the m6A/Am demethylase FTO to target RNAs by the telomeric zinc finger protein ZBTB48 [RNA-seq] 4 samples shares zbtb48, rna-seq
- GSE324163 Kava and DHM inhibit chronic hexavalent chromium exposure-induced cell malignant transformation through down-regulating RNA splicing factor SNRPA1 expression 12 samples shares regulating, factor
- GSE178401 LncRNA HIF1A-AS1 regulates the apoptosis and proliferation of vascular endothelial cells through globally regulating miRNAs expression [RNA-Seq] 12 samples shares regulating, rna-seq
- GSE264191 Secreted factors from M1 macrophages drive prostate cancer stem cell plasticity by upregulating NANOG, SOX2 and CD44 through NFκB signaling 30 samples shares regulating, factor
- GSE183843 Loss of FBXO11 establishes a stem cell program in acute myeloid leukemia by dysregulating LONP1 [RNA-seq] 23 samples shares regulating, rna-seq
- GSE272848 Overlapping and distinctfunctions of SPT6, PNUTS and PCF11 in regulating transcription termination [RNA-Seq] 21 samples shares regulating, 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.