RNA-seq profiling of cerebral organoids derived from CBP mutant iPSCs
RNA-seq (gene expression) · human · 28 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
- 28 samples: 7 conditions, mostly with about 4 replicates eachGroups 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.
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 GSE319859_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 PRJNA1425428 and SRA study SRP677978. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 28 samples.
How we read this: 7 replicated groups read from 28 sample titles; they account for 28 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.
- GSM9527917 Parental_day6 Parental_day
- GSM9527918 Parental_day12 Parental_day
- GSM9527919 Parental_day18 Parental_day
- GSM9527920 Parental_day30 Parental_day
- GSM9527921 WT_day6 WT_day
- GSM9527922 WT_day12 WT_day
- GSM9527923 WT_day18 WT_day
- GSM9527924 WT_day30 WT_day
- GSM9527925 Het_clone1_day6 Het_clone1_day
- GSM9527926 Het_clone1_day12 Het_clone1_day
- GSM9527927 Het_clone1_day18 Het_clone1_day
- GSM9527928 Het_clone1_day30 Het_clone1_day
- GSM9527929 Het_clone2_day6 Het_clone2_day
- GSM9527930 Het_clone2_day12 Het_clone2_day
- GSM9527931 Het_clone2_day18 Het_clone2_day
- GSM9527932 Het_clone2_day30 Het_clone2_day
- GSM9527933 Het_clone3_day6 Het_clone3_day
- GSM9527934 Het_clone3_day12 Het_clone3_day
- GSM9527935 Het_clone3_day18 Het_clone3_day
- GSM9527936 Het_clone3_day30 Het_clone3_day
- GSM9527937 Homo_clone1_day6 Homo_clone1_day
- GSM9527938 Homo_clone1_day12 Homo_clone1_day
- GSM9527939 Homo_clone1_day18 Homo_clone1_day
- GSM9527940 Homo_clone1_day30 Homo_clone1_day
- GSM9527941 Homo_clone2_day6 Homo_clone2_day
- GSM9527942 Homo_clone2_day12 Homo_clone2_day
- GSM9527943 Homo_clone2_day18 Homo_clone2_day
- GSM9527944 Homo_clone2_day30 Homo_clone2_day
- GSE337246 Integrated single-cell profiling of RNA and DNA interactomes reveals targetable chromatin architectures in cancer [scRNA-Seq organoids] 35 samples shares organoids, rna-seq
- GSE326221 Acquired genetic and cell state changes in IDH-mutant glioma progression [snRNA-seq] 75 samples shares rna-seq, mutant
- GSE303346 Single-Cell RNA-Seq Reveals Immunosuppressive Effects of Triple-Negative Breast Cancer–Derived Exosomes on NK Cell Responses 16 samples shares rna-seq, derived
- GSE342790 Development-inspired approach for the derivation of functional and transplantable salivary gland organoids from human pluripotent stem cells [RNA-Seq] 16 samples shares organoids, rna-seq
- GSE303509 Biomarker-guided responses in patient-derived organoids predict effective therapies in breast cancer 14 samples shares organoids, derived
- GSE237489 RNA-seq for iPSC-derived macrophages with/without Lipopolysaccharide (LPS) stimulation. 8 samples shares rna-seq, derived
- GSE319641 RNA-Seq profiling of pre- and on-treatment tumor samples from breast cancer patients enrolled in the NeoTRIP trial. 401 samples shares rna-seq
- GSE296250 Targeting p300/CBP abolishes HOXB13 loss-induced lipogenesis and tumor metastasis 43 samples shares cbp
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.