The role of ZNHIT3 in cerebellar granule cell development
RNA-seq (gene expression) · mouse · 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
- Mus musculus (mouse)
- Samples
- 12 samples: 3 × P3_GCP_control vs 3 × P3_GCP_cKO vs 3 × P6_GCP_control vs 3 × P6_GCP_cKOGroups 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 GSE298423_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 PRJNA1269435 and SRA study SRP588735. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 4 replicated groups read from 12 sample titles; they account for 12 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.
- GSM9014089 P3_GCP_control_1 P3_GCP_control
- GSM9014090 P3_GCP_control_2 P3_GCP_control
- GSM9014091 P3_GCP_control_3 P3_GCP_control
- GSM9014092 P3_GCP_cKO_1 P3_GCP_cKO
- GSM9014093 P3_GCP_cKO_2 P3_GCP_cKO
- GSM9014094 P3_GCP_cKO_3 P3_GCP_cKO
- GSM9014095 P6_GCP_control_1 P6_GCP_control
- GSM9014096 P6_GCP_control_2 P6_GCP_control
- GSM9014097 P6_GCP_control_3 P6_GCP_control
- GSM9014098 P6_GCP_cKO_1 P6_GCP_cKO
- GSM9014099 P6_GCP_cKO_2 P6_GCP_cKO
- GSM9014100 P6_GCP_cKO_3 P6_GCP_cKO
- GSE279346 Ezh2 Delays Activation of Differentiation Genes During Normal Cerebellar Granule Neuron Development and in Medulloblastoma [RNA-seq] 15 samples shares cerebellar, granule
- GSE260623 Germline ELP1 deficiency sensitizes cerebellar granule neuron progenitors to SHH medulloblastoma [bulkRNA] 91 samples shares cerebellar, granule
- GSE282803 KMT2D controls cerebellar granule cell differentiation by temporally activating neuronal transcriptional factor genes [RNA-seq] 8 samples shares cerebellar, granule
- GSE281630 KMT2D is essential for cerebellar granule cell differentiation 4 samples shares cerebellar, granule
- GSE279347 Ezh2 Delays Activation of Differentiation Genes During Normal Cerebellar Granule Neuron Development and in Medulloblastoma [ChIP-seq] 32 samples shares cerebellar, granule
- GSE282804 KMT2D controls cerebellar granule cell differentiation by temporally activating neuronal transcriptional factor genes 18 samples shares cerebellar, granule
- GSE267993 ZNHIT3 Regulates Translation to Ensure Cell Lineage Differentiation in Mouse Preimplantation Development [scRNA-Seq] 96 samples shares znhit3
- GSE267997 ZNHIT3 Regulates Translation to Ensure Cell Lineage Differentiation in Mouse Preimplantation Development [seRNA-Seq] 94 samples shares znhit3
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.