Perturbing LSD1 and WNT rewires transcription to synergistically induce AML differentiation (RNA-Seq)
RNA-seq (gene expression) · human · 12 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)
- Samples
- 12 samples: 12 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.
- Paper
- Perturbing LSD1 and WNT rewires transcription to synergistically induce AML differentiationNature · 2025
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 GSE251859_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 PRJNA1055693 and SRA study SRP479740. 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 12 sample titles: 12 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.
- GSM7989221 THP-1 cells, Combo R1, RNA-seq biol rep 1
- GSM7989222 THP-1 cells, Control R2, RNA-seq biol rep 2
- GSM7989223 THP-1 cells, GSK-LSD1 R1, RNA-seq biol rep 1
- GSM7989224 THP-1 cells, GSK-LSD1 R3, RNA-seq biol rep 3
- GSM7989225 THP-1 cells, GSK-LSD1 R2, RNA-seq biol rep 2
- GSM7989226 THP-1 cells, LY2090314 R1, RNA-seq biol rep 1
- GSM7989227 THP-1 cells, LY2090314 R2, RNA-seq biol rep 2
- GSM7989228 THP-1 cells, LY2090314 R3, RNA-seq biol rep 3
- GSM7989229 THP-1 cells, Combo R2, RNA-seq biol rep 2
- GSM7989230 THP-1 cells, Combo R3, RNA-seq biol rep 3
- GSM7989231 THP-1 cells, Control R3, RNA-seq biol rep 3
- GSM7989232 THP-1 cells, Control R1, RNA-seq biol rep 1
- GSE251860 Perturbing LSD1 and WNT rewires transcription to synergistically induce AML differentiation 38 samples shares lsd1, wnt, aml, synergistically, transcription, perturbing, rewires
- GSE251857 Perturbing LSD1 and WNT rewires transcription to synergistically induce AML differentiation (CUT&RUN) 26 samples shares lsd1, wnt, aml, synergistically, transcription, perturbing, rewires
- GSE272002 LSD1 inhibitor, TAS1440, disrupts INSM1-LSD1 complex activating tumor-suppressive pathways via transcriptional reprogramming in neuroendocrine SCLC 324 samples shares lsd1, transcription
- GSE327386 RNA-Seq of paired diagnosis and relapse AML specimens with healthy controls 130 samples shares aml, rna-seq
- GSE260773 RNA-seq Analysis of Acute myeloid leukemia (AML) primary samples 69 samples shares aml, rna-seq
- GSE279590 BMP, MEK and WNT modulation with NGN2 expression for rapid generation of hiPSC-derived neurons amenable to regional patterning [bulk RNA-seq] 61 samples shares wnt, rna-seq
- GSE296649 Clonal evolution permits outgrowth of chemoresistant LMPP-like early progenitors in relapsed NPM1c AML [scRNA-Seq] 58 samples shares aml, 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 shares aml, 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.