Molecular Mechanisms Limiting the Therapeutic Window of AAV Gene Therapy in Mouse Models of Blue Cone Monochromacy
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: 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
- Molecular Mechanisms Limiting the Therapeutic Window of AAV Gene Therapy in Mouse Models of Blue Cone MonochromacybioRxiv : the preprint server for biology · 2025
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 GSE289547_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 PRJNA1223411 and SRA study SRP563751. 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.
- GSM8793943 C198R_1M_rep1 C198R_1M
- GSM8793944 C198R_1M_rep2 C198R_1M
- GSM8793945 C198R_4M_rep1 C198R_4M
- GSM8793946 C198R_4M_rep2 C198R_4M
- GSM8793947 DKO_1M_rep1 DKO_1M
- GSM8793948 DKO_1M_rep2 DKO_1M
- GSM8793949 DKO_4M_rep1 DKO_4M
- GSM8793950 DKO_4M_rep2 DKO_4M
- GSM8793951 WT_1M_rep1 WT_1M
- GSM8793952 WT_1M_rep2 WT_1M
- GSM8793953 WT_4M_rep1 WT_4M
- GSM8793954 WT_4M_rep2 WT_4M
- GSE232166 Dual AAV gene therapy in combination with rapamycin rescues muscle and liver impairment in a mouse model of GSDIII. 36 samples shares aav, therapy
- GSE312724 Dual AAV gene therapy using laminin-linking proteins ameliorates muscle and nerve defects in LAMA2-related muscular dystrophy 21 samples shares aav, therapy
- GSE311488 Chemotherapeutic Induction of Single-Stranded DNA Accumulation Sensitizes Triple-Negative Breast Cancer to Immunotherapy [scRNA-seq] 32 samples shares therapeutic, therapy
- GSE333360 Distinct neuroinflammatory effects of individual chemotherapeutics shape chemotherapy-induced peripheral neuropathy in a novel mouse model of CVAD combination regimen. 30 samples shares therapeutic, therapy
- GSE278517 Telomere recapping via gene therapy as a therapeutic strategy for cardio-renal syndromes type 4 12 samples shares therapeutic, therapy
- GSE235987 Enhancer-AAVs allow genetic access to diverse populations of astrocytes and oligodendrocytes across species 2040 samples shares aav
- GSE308116 Epigenetic modification, as a distinctive therapeutic molecule for Parkinson’s disease gene therapy. 17 samples shares therapeutic, therapy
- GSE311156 Technical and biological sources of noise confound multiplexed enhancer AAV screening [dataset3] 797 samples shares aav
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.