BPDCN MYB Fusions Regulate Cell Cycle Genes, Impair Differentiation and Induce Myeloid-Dendritic Cell Leukemia [K562CutRun]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 20 samples
- What it is
- ChIP-seq / ATAC-seq (genome binding and open chromatin)Where proteins bind the genome, or which regions are open and active.
- Organism
- Homo sapiens (human)
- Samples
- 20 samples: 16 distinct titles, 4 of them repeatedGroups 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
- BPDCN MYB fusions regulate cell cycle genes, impair differentiation, and induce myeloid-dendritic cell leukemiaJCI insight · 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 GSE261411_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: Look for peak files (.bed, .narrowPeak) and signal tracks (.bigWig) among the supplementary files; the raw reads are on ENA.
Also filed as BioProject PRJNA1086896 and SRA study SRP494759. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 20 sample titles: 16 distinct titles with little repetition. 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.
- GSM8143630 MYB-WT, MYB
- GSM8143631 MYB-WT, H3K27ac
- GSM8143632 MYB-WT, V5Ab1
- GSM8143633 MYB-WT, V5Ab2
- GSM8143634 MYB-WT, IgG
- GSM8143635 MYB-TR, MYB
- GSM8143636 MYB-TR, H3K27ac
- GSM8143637 MYB-TR, V5Ab1
- GSM8143638 MYB-TR, V5Ab2
- GSM8143639 MYB-TR, IgG
- GSM8143640 MYB-PLEKHO1, MYB
- GSM8143641 MYB-PLEKHO1, H3K27ac
- GSM8143642 MYB-PLEKHO1, V5Ab1
- GSM8143643 MYB-PLEKHO1, V5Ab2
- GSM8143644 MYB-PLEKHO1, IgG
- GSM8143645 NTC, MYB
- GSM8143646 NTC, H3K27ac
- GSM8143647 NTC, V5Ab1
- GSM8143648 NTC, V5Ab2
- GSM8143649 NTC, IgG
- GSE261534 BPDCN MYB Fusions Regulate Cell Cycle Genes, Impair Differentiation and Induce Myeloid-Dendritic Cell Leukemia [BPDCNCutRun] 31 samples shares bpdcn, myb, myeloid-dendritic, regulate, leukemia, fusions, impair
- GSE263952 ETS1 recruits cBAF to hijack the hematopoietic stem cell MYB enhancer in T-cell leukemia. 10 samples shares myb, leukemia
- GSE263913 ETS1 recruits cBAF to hijack the hematopoietic stem cell MYB enhancer in T-cell leukemia [dataset 2] 6 samples shares myb, leukemia
- GSE263585 ETS1 recruits cBAF to hijack the hematopoietic stem cell MYB enhancer in T-cell leukemia [dataset 1] 4 samples shares myb, leukemia
- GSE263511 Bidirectional enhancer RNAs regulate different MYB promoters 21 samples shares myb, regulate
- GSE305485 Cell cycle regulator MYBL2 is a distinct vulnerability in acute myeloid leukemia 12 samples shares myb, leukemia
- GSE299929 Pan-cyclin-dependent kinase inhibition is a potential treatment for adenoid cystic carcinoma that downregulates the MYB::NFIB fusion and induces tumor regression 12 samples shares myb, regulate
- GSE292665 MYB and HIF1α crosstalk drives hypoxia-induced transcriptional reprogramming and adaptive signaling alterations in pancreatic cancer [ChIP-seq] 27 samples shares myb
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.