Treatment-associated gene expression in hematopoietic stem/progenitor cells from patients with polycythemia vera (PV) [6 hour treatment]
RNA-seq (gene expression) · human · 23 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
- Myeloproliferative neoplasmsThis series is part of our curated briefing on it.
- Samples
- 23 samples: 23 samples, each with a distinct title — no replicated groupsGroups 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 GSE188487_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 PRJNA779051 and SRA study SRP345278. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 23 sample titles: 23 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.
- GSM5683809 Sample1_6hrs_control
- GSM5683810 Sample1_6hrs_Clu
- GSM5683811 Sample1_6hrs_IKK16
- GSM5683812 Sample1_6hrs_CluIKK16
- GSM5683813 Sample1_6hrs_HU
- GSM5683814 Sample2_6hrs_control
- GSM5683815 Sample2_6hrs_Clu
- GSM5683816 Sample2_6hrs_IKK16
- GSM5683817 Sample3_6hrs_control
- GSM5683818 Sample3_6hrs_Clu
- GSM5683819 Sample3_6hrs_IKK16
- GSM5683820 Sample3_6hrs_CluIKK16
- GSM5683821 Sample3_6hrs_HU
- GSM5683822 Sample4_6hrs_control
- GSM5683823 Sample4_6hrs_Clu
- GSM5683824 Sample4_6hrs_IKK16
- GSM5683825 Sample4_6hrs_CluIKK16
- GSM5683826 Sample4_6hrs_HU
- GSM5683827 Sample5_6hrs_control
- GSM5683828 Sample5_6hrs_Clu
- GSM5683829 Sample5_6hrs_IKK16
- GSM5683830 Sample5_6hrs_CluIKK16
- GSM5683831 Sample5_6hrs_HU
- GSE186869 Treatment-associated gene expression in hematopoietic stem/progenitor cells from patients with polycythemia vera (PV) 25 samples same disease briefing · shares treatment-associated, hematopoietic, polycythemia, progenitor, treatment, stem, vera
- GSE300470 A Stem and Progenitor Cell-Derived Gene Expression Signature is Prognostic for Survival in Myelofibrosis [RNA-Seq] 358 samples same disease briefing · shares progenitor, stem
- GSE277354 Genetic charcterization of myeloproliferative neoplasms (MPN) 402 samples same disease briefing
- GSE288386 Type 2 calreticulin mutations activate ATF6 to promote BCL-xL-mediated survival in myeloproliferative neoplasms 37 samples same disease briefing
- GSE301154 Preclinical efficacy of tasquinimod-based combinations in advanced myeloproliferative neoplasms (MPN) in blastic phase 32 samples same disease briefing
- GSE309082 Menin-dependent megakaryocyte proliferation and fibrosis in myeloproliferative neoplasms 29 samples same disease briefing
- GSE241825 Mesenchymal stromal cell reprogramming and aberrant inflammatory signalling in myelofibrosis: insights from single-cell RNA sequencing 21 samples same disease briefing
- GSE190517 DUSP6 mediates resistance to JAK2 inhibition and drives leukemic progression (RNA-Seq) 20 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.