MED16 negatively regulates erythropoiesis and myelopoiesis through modulation of chromatin accessibility [RNA-Seq human]
RNA-seq (gene expression) · human · 16 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)
- Topic
- Myelodysplastic syndromesThis series is part of our curated briefing on it.
- Samples
- 16 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 GSE248808_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 PRJNA1046041 and SRA study SRP474799. 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 16 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.
- GSM7920405 SCR-1_Day0 SCR-1_Day
- GSM7920406 SCR-2_Day0 SCR-2_Day
- GSM7920407 SH-1_Day0 SH-1_Day
- GSM7920408 SH-2_Day0 SH-2_Day
- GSM7920409 SCR-1_Day4 SCR-1_Day
- GSM7920410 SCR-2_Day4 SCR-2_Day
- GSM7920411 SH-1_Day4 SH-1_Day
- GSM7920412 SH-2_Day4 SH-2_Day
- GSM7920413 VO-1_Day12
- GSM7920414 VO-2_Day12
- GSM7920415 OE-1_Day12
- GSM7920416 OE-2_Day12
- GSM7920417 MDSmonoNucle_SCR_R1 MDSmonoNucle_SCR
- GSM7920418 MDSmonoNucle_SCR_R2 MDSmonoNucle_SCR
- GSM7920419 MDSmonoNucle_SHI_R1 MDSmonoNucle_SHI
- GSM7920420 MDSmonoNucle_SHI_R2 MDSmonoNucle_SHI
- 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, rna-seq
- GSE248804 MED16 negatively regulates erythropoiesis and myelopoiesis through modulation of chromatin accessibility [ChIP-Seq human] 12 samples same disease briefing · shares med16, erythropoiesis, accessibility, myelopoiesis, negatively, modulation, chromatin
- 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
- 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
- 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
- GSE281562 Unique epigenomic signatures identify biologically significant subtypes of MDS and predict response to azacytidine [RNA-Seq] 83 samples same disease briefing · shares rna-seq
- GSE211032 Expression Analysis (RNA-Seq) of adult Myelodysplastic Syndromes (MDS)/Acute Myeloid Leukemia (AML) with isolated monosomy 7 compared to controls 45 samples same disease briefing · shares 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.