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Thyroid dysplasia in C57BL/6NTac caused by a LINE-1 in Thyroglobulin

GSE298337 Mus musculus (mouse) RNA-seq (gene expression) 12 samples Submitted 2025/05/31 Platform GPL19057
At a glance

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: 7 × Wild Type Phenotype_19 vs 5 × Thyroid Dysplasia Phenotype_19Groups 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
LINE-1 transposition into murine Thyroglobulin results in congenital thyroid dysplasiaPloS one · 2025
Summary (written by the submitters)
A spontaneous mutation in the Taconic Biosciences wildtype C57BL/6NTac mouse was discovered that is associated with early-onset histopathologic sequalae typical of thyroid dysplasia. The spontaneous mutation resulted from insertion of a L1 long interspersed nuclear element (LINE-1) into an intron within the Thyroglobulin (Tg) gene. The mouse genome contains a significant amount of retrotransposon DNA, and these mobile genetic elements routinely change genomic location through retrotransposition, including in germ cells.
Read the full summary ↓
Analysis of the thyroid transcriptome suggested that the presence of the LINE-1 interferes with the Tg gene splicing, resulting in exclusion of exon 26 from most Tg transcripts in animals homozygous for the insertion. The LINE-1 insertion allele of the Tg gene has been designated Tgtdys-Tac. The resulting phenotype is inherited in an autosomal dominant manner with affected mice exhibiting thyroid follicular cell dysplasia that progresses to thyroid adenoma by 9 months of age with complete penetrance in homozygotes. Serum thyroid hormone measurements revealed a decrease in triiodothyronine (T3) levels in homozygotes at 9 months and 12 months of age, as well as a decrease in tetraiodothyronine (T4) levels at 6-9 months in homozygotes and at 12 months of age in both heterozygotes and homozygotes. In addition, serum Thyroid Stimulating Hormone (TSH) level was strongly increased in homozygotes at 6-8 months of age, consistent with hypothyroidism. Computational molecular modeling showed that omission of the 61 amino acids from the TG protein arm domain, which is the consequence of exon 26-skipping in the Tg transcript, results in decreased local stability. This result in combination with the observed up-regulation in unfolded protein response pathways in the thyroids of affected animals, identifies the arm domain of TG as important for its proper cellular distribution. This report describes a spontaneous retrotransposon insertion causatively linked to dysregulated physiological phenotypes in a widely used inbred mouse strain.
Published in
LINE-1 transposition into murine Thyroglobulin results in congenital thyroid dysplasia
Bailey WJ, Smits BMG, Erdos Z et al. · PloS one 2025 · PMID 40627674 · doi:10.1371/journal.pone.0325493
This dataset
Open GSE298337 in finder → Find more mouse RNA-seq datasets →
Download · which file do I need?

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.

1 · Just have a look

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.

Series matrix ↓
2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE298337_RAW.tar (it can run to tens of gigabytes).

All supplementary files ↗ Whole study · RAW.tar ↓
3 · Start from the raw reads

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.

Raw reads on ENA ↗

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 PRJNA1268983 and SRA study SRP588259. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 40627674) ↗
Study design
7 × Wild Type Phenotype_19 vs 5 × Thyroid Dysplasia Phenotype_19

Supports a between-group comparison across 12 samples.

How we read this: 2 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.

Samples in this study
Datasets on a similar topic

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