Inhibition of lysine demethylase 6B blocks the development of ASXL1 truncation-mediated myeloid malignancies [ChIP-seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 16 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
- Mus musculus (mouse)
- 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 GSE208246_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 PRJNA858845 and SRA study SRP386477. 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.
- GSM6339557 ChIP_H3K27me3_WT_rep1 ChIP_H3K27me3_WT
- GSM6339558 ChIP_H3K27me3_WT_rep2 ChIP_H3K27me3_WT
- GSM6339559 ChIP_H3K27me3_Kdm6b_het_rep1 ChIP_H3K27me3_Kdm6b_het
- GSM6339560 ChIP_H3K27me3_Kdm6b_het_rep2 ChIP_H3K27me3_Kdm6b_het
- GSM6339561 ChIP_H3K27me3_Asxl1_mutation_rep1 ChIP_H3K27me3_Asxl1_mut…
- GSM6339562 ChIP_H3K27me3_Asxl1_mutation_rep2 ChIP_H3K27me3_Asxl1_mut…
- GSM6339563 ChIP_H3K27me3_double_mutation_rep1 ChIP_H3K27me3_double_mu…
- GSM6339564 ChIP_H3K27me3_double_mutation_rep2 ChIP_H3K27me3_double_mu…
- GSM6339565 Input_WT_rep1 Input_WT
- GSM6339566 Input_WT_rep2 Input_WT
- GSM6339567 Input_Kdm6b_het_rep1 Input_Kdm6b_het
- GSM6339568 Input_Kdm6b_het_rep2 Input_Kdm6b_het
- GSM6339569 Input_Asxl1_mutation_rep1 Input_Asxl1_mutation
- GSM6339570 Input_Asxl1_mutation_rep2 Input_Asxl1_mutation
- GSM6339571 Input_double_mutation_rep1 Input_double_mutation
- GSM6339572 Input_double_mutation_rep2 Input_double_mutation
- GSE208249 Inhibition of lysine demethylase 6B blocks the development of ASXL1 truncation-mediated myeloid malignancies 28 samples shares asxl1, truncation-mediated, malignancies, demethylase, inhibition, myeloid, lysine
- GSE208054 Inhibition of lysine demethylase 6B blocks the development of ASXL1 truncation-mediated myeloid malignancies [RNA-seq] 12 samples shares asxl1, truncation-mediated, malignancies, demethylase, inhibition, myeloid, lysine
- GSE214679 The histone H3 lysine 36 demethylase KDM2A/FBXL11 is essential for germ cell development in male mice [ChIP-Seq] 24 samples shares demethylase, chip-seq, lysine
- GSE286398 Lysine-specific demethylase 1 regulates hematopoietic stem cell expansion and myeloid cell differentiation [scRNA-seq] 13 samples shares demethylase, myeloid, lysine
- GSE268911 SMAD1/5-Mediated Recruitment of the Histone Demethylase KDM1A Controls Cell Fate Programs in Embryonic Stem Cells [ChIP-seq] 18 samples shares demethylase, chip-seq
- GSE291448 T cell receptor signaling induces expression of lysine demethylase KDM6B to maintain Treg homeostasis [CUT&Run] 14 samples shares demethylase, lysine
- GSE316006 T cell receptor signaling induces expression of lysine demethylase KDM6B to maintain Treg homeostasis [ATAC-seq] 12 samples shares demethylase, lysine
- GSE36346 The histone demethylase KDM1A sustains the oncogenic potential of MLL-AF9 leukemia stem cells (ChIP-Seq data) 9 samples shares demethylase, chip-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.