TGF-β signaling controls neural crest developmental plasticity via SMAD2/3 [hiNCC RNA-seq]
RNA-seq (gene expression) · human · 14 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
- 14 samples: 7 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.
- Paper
- TGF-β signaling controls neural crest developmental plasticity via SMAD2/3Developmental cell · 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 GSE175809_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 PRJNA733780 and SRA study SRP321933. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 14 samples.
How we read this: 7 replicated groups read from 14 sample titles; they account for 14 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.
- GSM5348306 RNA_highWNT_1 RNA_highWNT
- GSM5348307 RNA_highWNT_2 RNA_highWNT
- GSM5348308 RNA_highWNT_SB4_1 RNA_highWNT_SB4
- GSM5348309 RNA_highWNT_SB4_2 RNA_highWNT_SB4
- GSM5348310 RNA_highWNT_TGFB_1 RNA_highWNT_TGFB
- GSM5348311 RNA_highWNT_TGFB_2 RNA_highWNT_TGFB
- GSM5348312 RNA_lowWNT_1 RNA_lowWNT
- GSM5348313 RNA_lowWNT_2 RNA_lowWNT
- GSM5348314 RNA_lowWNT_SB4_1 RNA_lowWNT_SB4
- GSM5348315 RNA_lowWNT_SB4_2 RNA_lowWNT_SB4
- GSM5348316 RNA_lowWNT_TGFB_1 RNA_lowWNT_TGFB
- GSM5348317 RNA_lowWNT_TGFB_2 RNA_lowWNT_TGFB
- GSM5348318 RNA_NoInd_1 RNA_NoInd
- GSM5348319 RNA_NoInd_2 RNA_NoInd
- GSE270296 TGF-β Signaling Pathway and Cell-Cell Interactions in the Tumor Microenvironment Drive Bladder Cancer Progression after BCG Instillation Treatment: Insights from longitudinal Single-Nucleus RNA-Seq 14 samples shares tgf, rna-seq
- GSE253493 RNA-Seq experiment of primary hepatic stellate cells (HSCs) and LX-2 cell line treated with TGFb 12 samples shares tgf, rna-seq
- GSE327386 RNA-Seq of paired diagnosis and relapse AML specimens with healthy controls 130 samples shares controls, rna-seq
- GSE315664 Gene expression profile of antisense oligonucleotide-treated Neural Progenitors from controls and Schinzel-Giedion Syndrome cases 60 samples shares controls, neural
- GSE211032 Expression Analysis (RNA-Seq) of adult Myelodysplastic Syndromes (MDS)/Acute Myeloid Leukemia (AML) with isolated monosomy 7 compared to controls 45 samples shares controls, rna-seq
- GSE286874 Triglyceride metabolism controls inflammation and microglial phenotypes associated with APOE4 [RNA-seq] 26 samples shares controls, rna-seq
- GSE301166 PURPL bidirectionally controls senescence: depletion rejuvenates fibroblasts while overexpression accelerates aging [RNA-Seq2] 18 samples shares controls, rna-seq
- GSE296115 The Histone Methyltransferase KMT2D is a Critical Mediator of Lineage Plasticity and Therapeutic Response in Castration Resistant Prostate Cancer [LNCaP Bulk RNA-Seq] 16 samples shares plasticity, 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.