Analysis of gene expression of mice's thyroid glands according to the state of the Pink1 Knock-out
RNA-seq (gene expression) · mouse · 10 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
- 10 samples: 5 × C57BL/6, Pink1 WT, vs 5 × C57BL/6, Pink1 KO,Groups 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
- Mitophagy Defects Exacerbate Inflammation and Aberrant Proliferation in Lymphocytic ThyroiditisThyroid : official journal of the American Thyroid Association · 2024
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 GSE232119_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 PRJNA970913 and SRA study SRP436760. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 10 samples.
How we read this: 2 replicated groups read from 10 sample titles; they account for 10 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.
- GSM7315542 C57BL/6, Pink1 WT, 1 C57BL/6, Pink1 WT,
- GSM7315543 C57BL/6, Pink1 WT, 2 C57BL/6, Pink1 WT,
- GSM7315544 C57BL/6, Pink1 WT, 3 C57BL/6, Pink1 WT,
- GSM7315545 C57BL/6, Pink1 WT, 4 C57BL/6, Pink1 WT,
- GSM7315546 C57BL/6, Pink1 WT, 5 C57BL/6, Pink1 WT,
- GSM7315547 C57BL/6, Pink1 KO, 1 C57BL/6, Pink1 KO,
- GSM7315548 C57BL/6, Pink1 KO, 2 C57BL/6, Pink1 KO,
- GSM7315549 C57BL/6, Pink1 KO, 3 C57BL/6, Pink1 KO,
- GSM7315550 C57BL/6, Pink1 KO, 4 C57BL/6, Pink1 KO,
- GSM7315551 C57BL/6, Pink1 KO, 5 C57BL/6, Pink1 KO,
- GSE299843 CAMK1D activates PINK1/Parkin-dependent mitophagy to promote enzalutamide resistance in prostate cancer 2 samples shares pink1, state
- GSE284259 A single Citrobacter rodentium infection in Pink1 knockout and wild type mice leads to regional blood-brain-barrier perturbation and glial activation without dopamine neuron axon terminal loss 17 samples shares pink1
- GSE244464 ATR licenses PINK1-mediated mitophagy 10 samples shares pink1
- GSE338930 A Blood-Derived Factor Rescues ALS: Platelet Factor 4 Activates OPTN-Dependent Autophagy to Clear SOD1 Aggregates Independently of PINK1 8 samples shares pink1
- GSE271210 A rewiring of the earliest immune events leading to T-cell mediated disease following intestinal microbial infection in a PINK1KO mouse model of Parkinson’s disease 8 samples shares pink1
- GSE318551 TRalpha Deficiency Drives Sarcopenia by Disrupting Perimitochondrial Targeting of Pink1 mRNA and Mitophagy 6 samples shares pink1
- GSE310832 Single-nucleus RNA sequencing of colon tissue from Pink1 knockout and wild-type mice 2 samples shares pink1
- GSE281254 PINK1 Deficiency Aggravates Age-related Bone Loss 2 samples shares pink1
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.