Tandem Repeat Explorer

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TR Explorer Catalog	# of loci

Variation Clusters

Known Disease-associated TR Loci

Other Genome-wide TR Catalogs	# of loci

Reference Tracks

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About TR Explorer

Features:

Search TRs by genomic intervals, genes, observed polymorphism rates, variation clusters, and other attributes
Export search results to BED, TSV, JSON or to the specific formats used as input to various TR genotyping tools
Use IGV.js to explore more than 10 recently-published or widely-used TR catalogs alongside other reference tracks

TR Explorer is a companion resource for the paper:

Defining a tandem repeat catalog and variation clusters for genome-wide analyses and population databases

Ben Weisburd, Egor Dolzhenko, Mark F. Bennett, Matt C. Danzi, Adam English, Laurel Hiatt, Hope Tanudisastro, Nehir Edibe Kurtas, Helyaneh Ziaei Jam, Harrison Brand, Fritz J. Sedlazeck, Melissa Gymrek, Harriet Dashnow, Michael A. Eberle, Heidi L. Rehm

bioRxiv 2024.10.04.615514

It allows users to explore the catalog described in the paper, as well as other genome-wide TR catalogs.

Results Table Columns

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Polymorphism

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Search region(s), gene(s), or transcript(s)

Search TR Catalog

Select catalog

TR Explorer catalog 4,863,041 loci

Illumina 174k 174,286 loci

Known disease-associated loci 63 loci

Gene Region(s)

Coding

5' UTR

3' UTR

Promoter

Intron

Intergenic

Exon (non-coding transcript)

Motif Size(s)

Motif(s) motifs of known disease-associated loci >

Polymorphism Filter

Polymorphism filter:

Select filter

σ_LPS2

σ_LPS

σ_10K

σ_1kGP

σ_T2T

≥

Variation Cluster Filter

Variation cluster (VC) filter:

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Exclude VCs

Exclude VCs ≥ +50bp

Keep only VCs

Keep only VCs ≥ +50bp

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