Bone morphogenetic protein (BMP) signaling determines neuroblastoma cell fate and sensitivity to retinoic acid [RNA-seq]
RNA-seq (gene expression) · human · 17 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
- 17 samples: 17 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
- Bone morphogenetic protein (BMP) signaling determines neuroblastoma cell fate and sensitivity to retinoic acidNature communications · 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 GSE253785_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 PRJNA1067126 and SRA study SRP484943. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 4 samples read as cases, 2 as controls.
How we read this: Read from 17 sample titles: 17 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.
- GSM8027890 CHP-134, DMSO, RNA-seq Replicate1 [CHP-134-0d-1]
- GSM8027891 CHP-134, DMSO, RNA-seq Replicate2 [CHP-134-0d-2]
- GSM8027892 CHP-134, 1day 2uM ATRA, RNA-seq Replicate1 [CHP-134-1d-1]
- GSM8027893 CHP-134, 1day 2uM ATRA, RNA-seq Replicate2 [CHP-134-1d-2]
- GSM8027894 CHP-134, 3day 2uM ATRA, RNA-seq Replicate1 [CHP-134-3d-1]
- GSM8027895 CHP-134, 3day 2uM ATRA, RNA-seq Replicate2 [CHP-134-3d-2]
- GSM8027896 CHP-134, 6day 2uM ATRA, RNA-seq Replicate1 [CHP-134-6d-1]
- GSM8027897 CHP-134, 6day 2uM ATRA, RNA-seq Replicate2 [CHP-134-6d-2]
- GSM8027898 CHP-134 implanted in mice, untreated control, RNA-seq Replicate 1 [CHP-134-L49]
- GSM8027899 CHP-134 implanted in mice, untreated control, RNA-seq Replicate 2 [CHP-134-L55]
- GSM8027900 CHP-134 implanted in mice, untreated control, RNA-seq Replicate 3 [CHP-134-L59]
- GSM8027901 CHP-134 implanted in mice, untreated control, RNA-seq Replicate 4 [CHP-134-L60]
- GSM8027902 CHP-134 implanted in mice, untreated control, RNA-seq Replicate 5 [CHP-134-L73]
- GSM8027903 CHP-134 implanted in mice, RA-treated, RNA-seq Replicate 1 [CHP-134-L54]
- GSM8027904 CHP-134 implanted in mice, RA-treated, RNA-seq Replicate 2 [CHP-134-L56]
- GSM8027905 CHP-134 implanted in mice, RA-treated, RNA-seq Replicate 3 [CHP-134-L61]
- GSM8027906 CHP-134 implanted in mice, RA-treated, RNA-seq Replicate 4 [CHP-134-L72]
- GSE222212 TCF4 is a key mediator of cell identity in neuroblastoma and vulnerable to protein degradation by multiple epigenetic factors [RNA-seq] 42 samples shares neuroblastoma, protein, 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 bmp, rna-seq
- GSE275686 GATA6 regulates WNT and BMP programs to pattern precardiac mesoderm during the earliest stages of human cardiogenesis (RNA-Seq) 22 samples shares bmp, rna-seq
- GSE49711 RNA-Seq reveals an unprecedented complexity of the neuroblastoma transcriptome and is suitable for clinical endpoint prediction [RNA-Seq] 498 samples shares neuroblastoma, rna-seq
- GSE150910 RNA-Sequencing of Chronic hypersensitivity pneumonitis compared with Idiopathic Pulmonary Fibrosis and Control Lung 288 samples shares sensitivity, rna-seq
- GSE287496 CDK12 as an entry point for combination therapy in high-risk neuroblastoma [RNA-seq] 59 samples shares neuroblastoma, rna-seq
- GSE249544 Phenotypical states modulate sensitivity and transcriptional reprogramming in patient-derived glioblastoma cells in response to temozolomide and radiation therapy. [RNA-Seq] 48 samples shares sensitivity, rna-seq
- GSE320139 The timing of antenatal glucocorticoids determines the receptor sensitivity in preterm infants 47 samples shares sensitivity, determines
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.