Investigation of Chimeric Transcripts Derived from LINE-1 and Alu Retrotransposons in Cerebellar Tissues of Individuals with Autism Spectrum Disorder (ASD)
RNA-seq (gene expression) · human · 13 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
- 13 samples
- 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
- Investigation of chimeric transcripts derived from LINE-1 and Alu retrotransposons in cerebellar tissues of individuals with autism spectrum disorder (ASD)Scientific reports · 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 GSE269105_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 PRJNA1120182 and SRA study SRP511835. Searching any of these in the dataset finder brings you back here.
The grouping that defines any comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Sample titles run CBell_B4925 … CBell_B7369 and carry no group information.
- GSM8306374 CBell_B4925
- GSM8306375 CBell_B5000
- GSM8306376 CBell_B5144
- GSM8306377 CBell_B5173
- GSM8306378 CBell_B5251
- GSM8306379 CBell_B5718
- GSM8306380 CBell_B5873
- GSM8306381 CBell_B6337
- GSM8306382 CBell_B6401
- GSM8306383 CBell_B6677
- GSM8306384 CBell_B6994
- GSM8306385 CBell_B7333
- GSM8306386 CBell_B7369
- GSE201774 LINE-1 retrotransposons are reduced in bone of osteoporotic patients, correlate positively to BMD, and stimulate bone anabolism in transfected mesenchymal stem cells 16 samples shares line-1, retrotransposons
- GSE296212 LINE-1 locus transcription nucleates oncogenic chromatin architecture [RNA-Seq] 80 samples shares line-1
- GSE283597 LINE-1 transposable elements regulate the exit of human pluripotency and early brain development [bulkRNA-seq] 45 samples shares line-1
- GSE244189 Transcriptomic analysis of ASD and IDD associated pathogenic MYT1L S707Q mutation in human cortical interneurons 24 samples shares asd
- GSE287105 LINE-1 ORF1p immune evasion mechanisms in pancreatic ductal adenocarcinoma 24 samples shares line-1
- GSE284086 LINE-1 transposable elements regulate the exit of human pluripotency and early brain development [snRNA-seq] 19 samples shares line-1
- GSE326651 in vivo human embryonic spinal cord atlas validates stem cell-derived human dorsal interneurons and reveals ASD spinal signatures [day0NMP_bulk RNAseq] 15 samples shares asd
- GSE326655 in vivo human embryonic spinal cord atlas validates stem cell-derived human dorsal interneurons and reveals ASD spinal signatures [day43NMP_scRNAseq] 12 samples shares asd
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.