MED16 negatively regulates erythropoiesis and myelopoiesis through modulation of chromatin accessibility [ChIP-Seq human]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 12 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)
- Topic
- Myelodysplastic syndromesThis series is part of our curated briefing on it.
- Samples
- 12 samples: 6 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.
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 GSE248804_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 PRJNA1046034 and SRA study SRP474766. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 6 replicated groups read from 12 sample titles; they account for 12 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.
- GSM7920319 D0CD34_RUNX1_R1 D0CD34_RUNX1
- GSM7920320 D0CD34_RUNX1_R2 D0CD34_RUNX1
- GSM7920321 D4CD34_RUNX1_R1 D4CD34_RUNX1
- GSM7920322 D4CD34_RUNX1_R2 D4CD34_RUNX1
- GSM7920323 D4CD34SCR_SPT16_R1 D4CD34SCR_SPT16
- GSM7920324 D4CD34SCR_SPT16_R2 D4CD34SCR_SPT16
- GSM7920325 D4CD34SHI_SPT16_R1 D4CD34SHI_SPT16
- GSM7920326 D4CD34SHI_SPT16_R2 D4CD34SHI_SPT16
- GSM7920327 D0CD34_MED16_R1 D0CD34_MED16
- GSM7920328 D0CD34_MED16_R2 D0CD34_MED16
- GSM7920329 D4CD34_MED16_R1 D4CD34_MED16
- GSM7920330 D4CD34_MED16_R2 D4CD34_MED16
- GSE248802 MED16 negatively regulates erythropoiesis and myelopoiesis through modulation of chromatin accessibility [ATAC-Seq human] 8 samples same disease briefing · shares med16, erythropoiesis, accessibility, myelopoiesis, negatively, modulation, chromatin
- GSE248808 MED16 negatively regulates erythropoiesis and myelopoiesis through modulation of chromatin accessibility [RNA-Seq human] 16 samples same disease briefing · shares med16, erythropoiesis, accessibility, myelopoiesis, negatively, modulation, chromatin
- GSE248810 MED16 negatively regulates erythropoiesis and myelopoiesis through modulation of chromatin accessibility [scRNA-Seq] 2 samples same disease briefing · shares med16, erythropoiesis, accessibility, myelopoiesis, negatively, modulation, chromatin
- GSE291718 Analysis of chromatin accessibility relative to epigenetic features of azacitidine response in high-risk myelodysplastic syndrome 56 samples same disease briefing · shares accessibility, chromatin
- GSE298729 Chromatin accessibility of hematopoietic stem/progenitor cells (HSPCs) derived from MDS patients before and after disease progression 2 samples same disease briefing · shares accessibility, chromatin
- GSE265824 Human iPSCs-based modeling unveils a dominant role of SETBP1 mutation in shaping stable chromatin accessibility landscape in GATA2 deficiency 25 samples same disease briefing · shares accessibility, chromatin
- GSE248238 Modeling and drug targeting of a myeloid neoplasm with atypical 3q26/MECOM rearrangement using patient-specific iPSCs [ChIP-seq] 37 samples same disease briefing · shares chip-seq
- GSE270760 PRC2-mediated apoptosis evasion is a therapeutic target of MDS/AML harboring inv(3)/t(3;3) and monosomy 7 (CUT&Tag) 24 samples same disease briefing
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.