Molecular profiling of pre-and post-5-azacytidine myelodysplastic syndrome samples identifies predictors of response
RNA-seq (gene expression) · human · 34 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
- 34 samples: 29 distinct titles, 1 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
- Molecular profiling of pre- and post- 5-azacytidine myelodysplastic syndrome samples identifies predictors of responseFrontiers in oncology · 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 GSE272173_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 PRJNA1135256 and SRA study SRP519658. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 28 samples read as cases, 6 as controls.
How we read this: Read from 34 sample titles: 29 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.
- GSM8395061 Patient_1 pre-AZA
- GSM8395062 Patient_1 post-AZA
- GSM8395063 Patient_2 pre-AZA
- GSM8395064 Patient_2 post-AZA
- GSM8395065 Patient_3 pre-AZA
- GSM8395066 Patient_3 post-AZA
- GSM8395067 Patient_4 pre-AZA
- GSM8395068 Patient_4 post-AZA
- GSM8395069 Patient_5 pre-AZA
- GSM8395070 Patient_5 post-AZA
- GSM8395071 Patient_6 pre-AZA
- GSM8395072 Patient_6 post-AZA
- GSM8395073 Patient_7 pre-AZA
- GSM8395074 Patient_7 post-AZA
- GSM8395075 Patient_8 pre-AZA
- GSM8395076 Patient_8 post-AZA
- GSM8395077 Patient_9 pre-AZA
- GSM8395078 Patient_9 post-AZA
- GSM8395079 Patient_10 pre-AZA
- GSM8395080 Patient_10 post-AZA
- GSM8395081 Patient_11 pre-AZA
- GSM8395082 Patient_11 post-AZA
- GSM8395083 Patient_12 pre-AZA
- GSM8395084 Patient_12 post-AZA
- GSM8395085 Patient_13 pre-AZA
- GSM8395086 Patient_13 post-AZA
- GSM8395087 Patient_14 pre-AZA
- GSM8395088 Patient_14 post-AZA
- GSM8395089 Healthy donor_1
- GSM8395090 Healthy donor_2
- GSM8395091 Healthy donor_3
- GSM8395092 Healthy donor_4
- GSM8395093 Healthy donor_5
- GSM8395094 Healthy donor_6
- GSE278230 Single-cell sequencing identifies characteristics of disease and bone marrow in concurrent multiple myeloma and myelodysplastic syndrome 4 samples same disease briefing · shares myelodysplastic, identifies
- GSE129828 DNA Methylation Identifies Genetically and Prognostically Distinct Subtypes of Myelodysplastic Syndromes 141 samples same disease briefing · shares myelodysplastic, identifies
- GSE261339 Genome-Wide CRISPR-Cas9 Screening Identifies a Synergy between Hypomethylating Agents and SUMOylation Blockade in Myelodysplastic Syndromes and Acute Myeloid Leukemia 18 samples same disease briefing · shares myelodysplastic, identifies
- 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 myelodysplastic
- GSE292039 Splicing of erythroid transcription factor is associated with therapeutic response in myelodysplastic syndromes 27 samples same disease briefing · shares myelodysplastic
- GSE237148 Targeting IL-1b–mediated inflammatory signaling overcomes transfusion dependence in early-stage myelodysplastic syndromes 26 samples same disease briefing · shares myelodysplastic
- GSE280881 Rapid Disease Progression of Myelodysplastic Syndrome is Reflected in Transcriptomic and Functional Abnormalities of Bone Marrow MSCs 22 samples same disease briefing · shares myelodysplastic
- GSE290183 Distinct routes of clonal progression in SF3B1-mutant myelodysplastic syndromes 15 samples same disease briefing · shares myelodysplastic
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.