Role of copper in the brain development and autism spectrum disorder pathogenesis
RNA-seq (gene expression) · mouse · 21 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
- 21 samples: 8 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.
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 GSE232864_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 PRJNA974248 and SRA study SRP438571. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 21 samples.
How we read this: 8 replicated groups read from 21 sample titles; they account for 21 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.
- GSM7385007 CTL_E18_1-1 CTL_E18_1
- GSM7385008 CTL_E18_1-2 CTL_E18_1
- GSM7385009 CTL_E18_2-1 CTL_E18_2
- GSM7385010 CTL_E18_2-2 CTL_E18_2
- GSM7385011 CTL_E18_3-1 CTL_E18_3
- GSM7385012 CTL_E18_3-2 CTL_E18_3
- GSM7385013 TETA_E18_1-1 TETA_E18_1
- GSM7385014 TETA_E18_1-2 TETA_E18_1
- GSM7385015 TETA_E18_2-1 TETA_E18_2
- GSM7385016 TETA_E18_2-2 TETA_E18_2
- GSM7385017 TETA_E18_3-1 TETA_E18_3
- GSM7385018 TETA_E18_3-2 TETA_E18_3
- GSM7385019 CTL_7W_1 CTL_7W
- GSM7385020 CTL_7W_2 CTL_7W
- GSM7385021 CTL_7W_3 CTL_7W
- GSM7385022 CTL_7W_4 CTL_7W
- GSM7385023 CTL_7W_5 CTL_7W
- GSM7385024 TETA_7W_1 TETA_7W
- GSM7385025 TETA_7W_2 TETA_7W
- GSM7385026 TETA_7W_3 TETA_7W
- GSM7385027 TETA_7W_4 TETA_7W
- GSE300410 Parental preconceptual α-cypermethrin exposure alters embryonic brain transcriptomics in mice: implications for autism spectrum disorder and stress vulnerability 76 samples shares spectrum, disorder, autism, brain
- GSE319614 Bulk RNA-seq transcriptome profiling of hippocampus across 17 autism spectrum disorder mouse models 269 samples shares spectrum, disorder, autism
- GSE286067 Autism spectrum disorder associated chromatin modifiers converge on transcription with sex-specific regulatory signatures 66 samples shares spectrum, disorder, autism
- GSE328363 Developmental dynamics of the cortical cellular and molecular landscapes in autism spectrum disorder models 135 samples shares spectrum, disorder, autism
- GSE147239 Inter-chromosomal contacts of the 16p11.2 locus connect with gene expression changes of Pcdh genes in autism spectrum disorder 34 samples shares spectrum, disorder, autism
- GSE272272 Changes in the astrocyte translatome induced by developmental ethanol mediate dysregulation of neuronal development: role of the extracellular matrix and relevance to Fetal Alcohol Spectrum Disorders 48 samples shares spectrum, disorder
- GSE248222 Impact of Maternal Immune Activation and Sex on Placental and Fetal Brain Cytokine and Gene Expression Profiles in a Preclinical Model of Neurodevelopmental Disorders 64 samples shares disorder, brain
- GSE272257 Treatment of neurologic disorders by brain-wide microglia replacement using a non-conditioning strategy 11 samples shares disorder, brain
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.