CATCH-Seq: Targeted Sequencing Technology

targeted sequencing

CATCH-Seq Technology

The proprietary CATCH-Seq targeted sequencing technology leverages genomic clones to generate probes corresponding to large, contiguous blocks of a genome. This is particularly useful when your research calls for sequencing coding and non-coding regions of a gene, including introns and flanking sequences.  Sequencing large target regions including introns make it ideal for identification of structural variants and CNV’s.

CATCH-Seq target enrichment is also ideal for studies of DNA methylation, by performing targeted bisulfite sequencing after the target enrichment steps.  CATCH-Seq target enrichment technology is compatible with any NGS library or platform.  Best of all, since CATCH-Seq technology requires no oligonucleotide design and production costs, custom capture reagents are available at a fraction of the cost of other target enrichment methods.

targeted sequencing CATCH-Seq

 

Advantages of CATCH-Seq

Large target regions: CATCH-Seq capture probes can cover several hundred kilobases to several megabases of contiguous sequence and can cover exons, introns, 5’ regulatory regions, 3’ regulatory regions, and flanking regions.

Greater specificity with longer probes (200-300bp)

Better coverage of the targeted region including repeats

Significantly lower cost than oligo-based probes

Multiplexed capture of samples reduces costs

Examples of CATCH-Seq technology

Targeted sequencing of four genes (>200 kb region)

CATCH-Seq four genes

Targeted sequencing of DPCR1: The detection of 3 kb duplication region

CATCH-seq DPCR1

Targeted sequencing of MHC (~3.8 MB)

CATCH-seq MHC

Breast Cancer Panel: up to 88 genes related to breast cancer, including all coding and non-coding regions

CATCH-Seq breast cancer

Service and Product with CATCH-Seq Technology

Targeted Sequencing Service

MHC sequencing: Capture and sequence the human MHC locus including exons, introns, and flanking sequences.

LRC/KIR sequencingCapture and sequence the human KIR locus including exons, introns, and flanking sequences.

Breast cancer panel: Capture and sequence coding and non-coding regions of up to 88 human genes related to breast cancer.

Custom CATCH-Seq targeted sequencing: Capture and sequence the customized large target regions of 200 kb to >10 Mb.

Targeted Sequencing Product

MHC sequencing: Capture and sequence the human MHC locus including exons, introns, and flanking sequences.

LRC/KIR sequencingCapture and sequence ~X Mb of the human KIR locus including exons, introns, and flanking sequences.

Breast cancer panel: Capture and sequence coding and non-coding regions of 88 breast cancer related genes.

Publications using CATCH-Seq

Targeted sequencing of large genomic regions with CATCH-Seq.
PLoS One. 2014 Oct 30; 9(10):e111756.  PMID: 25357200

Epigenome-wide association study of fasting blood lipids in the Genetics of Lipid-lowering Drugs and Diet Network study.
Circulation. 2014 Aug 12; 130(7):565-72.  PMID: 24920721

Regulation of DNA methylation dictates CD4 expression during the development of helper and cytotoxic T cell lineages.
Nat Immunol. 2015 Jul; 16(7):746-54.  PMID: 26030024

Recurrent evolution of melanism in South American felids.
PLoS Genet. 2015 Feb 19;11(2):e1004892. doi: 10.1371/journal.pgen.1004892. PMID: 25695801

A deletion at ADAMTS9-MAGI1 locus is associated with psoriatic arthritis risk.
Ann Rheum Dis. 2015 Oct;74(10):1875-81. doi: 10.1136/annrheumdis-2014-207190. PMID: 25990289

dCATCH-Seq: improved sequencing of large continuous genomic targets with double-hybridization.
BMC Genomics 2017:18, 811. DOI: https://doi.org/10.1186/s12864-017-4159-7

Stage-specific epigenetic regulation of CD4 expression by coordinated enhancer elements during T cell development.
Nat Commun. 2018 Sep 5;9(1):3594. doi: 10.1038/s41467-018-05834-w. PMID: 30185805

Whole Blood Targeted Bisulfite Sequencing Validates Differential Methylation in C6ORF10 gene of Patients with Rheumatoid Arthritis.
J Rheumatology. 2019 Nov; jrheum.190376; DOI: 10.3899/jrheum.190376

TET proteins regulate T cell and iNKT cell lineage specification in a TET2 catalytic dependent manner.
Front Immunol. 2022 Aug 5;13:940995. doi: 10.3389/fimmu.2022.940995. PMID: 35990681; PMCID: PMC9389146.

CD4 expression in effector T cells depends on DNA demethylation over a developmentally established stimulus-responsive element.
Nat Commun. 2022 Mar 18;13(1):1477. doi: 10.1038/s41467-022-28914-4. PMID: 35304452