TCF4 is a key mediator of cell identity in neuroblastoma and vulnerable to protein degradation by multiple epigenetic factors [RNA-seq]
RNA-seq (gene expression) · human · 42 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
- 42 samples: 14 conditions, mostly in triplicateGroups 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
- Transcription factor 4 is a key mediator of oncogenesis in neuroblastoma by promoting MYC activityMolecular oncology · 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 GSE222212_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 PRJNA918612 and SRA study SRP415962. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 42 samples.
How we read this: 14 replicated groups read from 42 sample titles; they account for 42 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.
- GSM6918024 kelly_sh3_trt_rep1 kelly_sh3_trt
- GSM6918025 kelly_sh3_ctrl_rep1 kelly_sh3_ctrl
- GSM6918026 kelly_sh2_trt_rep1 kelly_sh2_trt
- GSM6918027 kelly_sh2_ctrl_rep1 kelly_sh2_ctrl
- GSM6918028 kelly_sh3_trt_rep2 kelly_sh3_trt
- GSM6918029 kelly_sh3_ctrl_rep2 kelly_sh3_ctrl
- GSM6918030 kelly_sh2_trt_rep2 kelly_sh2_trt
- GSM6918031 kelly_sh2_ctrl_rep2 kelly_sh2_ctrl
- GSM6918032 kelly_sh3_trt_rep3 kelly_sh3_trt
- GSM6918033 kelly_sh3_ctrl_rep3 kelly_sh3_ctrl
- GSM6918034 kelly_sh2_trt_rep3 kelly_sh2_trt
- GSM6918035 kelly_sh2_ctrl_rep3 kelly_sh2_ctrl
- GSM6918036 sknas_sh3_trt_rep1 sknas_sh3_trt
- GSM6918037 sknas_sh3_ctrl_rep1 sknas_sh3_ctrl
- GSM6918038 sknas_sh2_trt_rep1 sknas_sh2_trt
- GSM6918039 sknas_sh2_ctrl_rep1 sknas_sh2_ctrl
- GSM6918040 sknas_sh3_trt_rep2 sknas_sh3_trt
- GSM6918041 sknas_sh3_ctrl_rep2 sknas_sh3_ctrl
- GSM6918042 sknas_sh2_trt_rep2 sknas_sh2_trt
- GSM6918043 sknas_sh2_ctrl_rep2 sknas_sh2_ctrl
- GSM6918044 sknas_sh3_trt_rep3 sknas_sh3_trt
- GSM6918045 sknas_sh3_ctrl_rep3 sknas_sh3_ctrl
- GSM6918046 sknas_sh2_trt_rep3 sknas_sh2_trt
- GSM6918047 sknas_sh2_ctrl_rep3 sknas_sh2_ctrl
- GSM6918048 kelly_ctrl_3hr_rep1 kelly_ctrl_3hr
- GSM6918049 kelly_ctrl_3hr_rep2 kelly_ctrl_3hr
- GSM6918050 kelly_ctrl_3hr_rep3 kelly_ctrl_3hr
- GSM6918051 kelly_jq1_3hr_trt_rep1 kelly_jq1_3hr_trt
- GSM6918052 kelly_jq1_3hr_trt_rep2 kelly_jq1_3hr_trt
- GSM6918053 kelly_jq1_3hr_trt_rep3 kelly_jq1_3hr_trt
- GSM6918054 imr32_ctrl_3hr_rep1 imr32_ctrl_3hr
- GSM6918055 imr32_jq1_trt_3hr_rep1 imr32_jq1_trt_3hr
- GSM6918056 imr32_ctrl_3hr_rep2 imr32_ctrl_3hr
- GSM6918057 imr32_jq1_trt_3hr_rep2 imr32_jq1_trt_3hr
- GSM6918058 imr32_ctrl_3hr_rep3 imr32_ctrl_3hr
- GSM6918059 imr32_jq1_trt_3hr_rep3 imr32_jq1_trt_3hr
- GSM6918060 sknas_ctrl_3hr_rep1 sknas_ctrl_3hr
- GSM6918061 sknas_jq1_trt_3hr_rep1 sknas_jq1_trt_3hr
- GSM6918062 sknas_ctrl_3hr_rep2 sknas_ctrl_3hr
- GSM6918063 sknas_jq1_trt_3hr_rep2 sknas_jq1_trt_3hr
+ 2 more — browse all 42 samples with per-sample file links →
- GSE328216 NSD2 Degradation Remediates the Oncogenic Cistrome in t(4;14) Multiple Myeloma [RNA-seq] 24 samples shares degradation, multiple
- GSE254118 SUV39H1 epigenetically modulates the MCPIP1-AURKA signaling axis to enhance neuroblastoma tumorigenesis 12 samples shares neuroblastoma, epigenetic
- GSE328217 NSD2 Degradation Remediates the Oncogenic Cistrome in t(4;14) Multiple Myeloma 46 samples shares degradation, multiple
- GSE328215 NSD2 Degradation Remediates the Oncogenic Cistrome in t(4;14) Multiple Myeloma [ATAC-seq] 22 samples shares degradation, multiple
- GSE244183 Degradation of Ikaros prevents epigenetic progression of T cell exhaustion in novel antigen-specific assay [bulk ATAC-seq] 11 samples shares degradation, epigenetic
- GSE49711 RNA-Seq reveals an unprecedented complexity of the neuroblastoma transcriptome and is suitable for clinical endpoint prediction [RNA-Seq] 498 samples shares neuroblastoma
- GSE245175 Neuroblastoma heterogeneity and plasticity over disease progression are rooted in the dynamics of an early sympathetic transcriptional trajectory 79 samples shares neuroblastoma
- GSE292992 MDM2 degradation overcomes feedback regulation of p53 signaling in Merkel cell carcinoma 66 samples shares degradation
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.