Mutant Huntingtin impairs neurodevelopment in human brain organoids through CHCHD2-mediated neurometabolic failure [NGN2]
RNA-seq (gene expression) · human · 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
- Homo sapiens (human)
- Samples
- 12 samples: 6 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
- Mutant huntingtin impairs neurodevelopment in human brain organoids through CHCHD2-mediated neurometabolic failureNature communications · 2024
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 GSE233914_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 PRJNA978567 and SRA study SRP440703. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 6 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.
- GSM7439035 NGN2, C1, rep 1 NGN2, C1,
- GSM7439036 NGN2, C1, rep 2 NGN2, C1,
- GSM7439037 NGN2, C2, rep 1 NGN2, C2,
- GSM7439038 NGN2, C2, rep 2 NGN2, C2,
- GSM7439039 NGN2, C3, rep 1 NGN2, C3,
- GSM7439040 NGN2, C3, rep 2 NGN2, C3,
- GSM7439041 NGN2, HD1, rep 1 NGN2, HD1,
- GSM7439042 NGN2, HD1, rep 2 NGN2, HD1,
- GSM7439043 NGN2, HD2, rep 1 NGN2, HD2,
- GSM7439044 NGN2, HD2, rep 2 NGN2, HD2,
- GSM7439045 NGN2, HD3, rep 1 NGN2, HD3,
- GSM7439046 NGN2, HD3, rep 2 NGN2, HD3,
- GSE233916 Mutant Huntingtin impairs neurodevelopment in human brain organoids through CHCHD2-mediated neurometabolic failure 36 samples shares neurodevelopment, chchd2-mediated, neurometabolic, huntingtin, organoids, impairs, failure
- GSE233895 Mutant Huntingtin impairs neurodevelopment in human brain organoids through CHCHD2-mediated neurometabolic failure [organoids] 24 samples shares neurodevelopment, chchd2-mediated, neurometabolic, huntingtin, organoids, impairs, failure
- GSE271852 Mutant Huntingtin impairs neurodevelopment in human brain organoids through CHCHD2-mediated neurometabolic failure 6 samples shares neurodevelopment, chchd2-mediated, neurometabolic, huntingtin, organoids, impairs, failure
- GSE289912 APOE4 impacts cortical neurodevelopment and alters network formation in human brain organoids 32 samples shares neurodevelopment, organoids
- GSE231321 Phosphorylation of 53BP1 by ATM enforce neurodevelopmental programs in cortical organoids 30 samples shares neurodevelopment, organoids
- GSE287509 Propofol Differentially Modulates Neurodevelopmental Processes in Region-Specific Human Brain Organoids 12 samples shares neurodevelopment, organoids
- GSE217832 Human cytomegalovirus dysregulates neurodevelopmental pathways in cerebral organoids 8 samples shares neurodevelopment, organoids
- GSE334981 Cortical organoids reveal human-specific role of METTL5 in neurodevelopment via regulation of CHCHD2 [scRNA-seq] 6 samples shares neurodevelopment, organoids
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.