GOPHER: Generator Of Probes for capture Hi-C Experiments at high Resolution.

ABSTRACT:

Background

Target enrichment combined with chromosome conformation capturing methodologies such as capture Hi-C (CHC) can be used to investigate spatial layouts of genomic regions with high resolution and at scalable costs. A common application of CHC is the investigation of regulatory elements that are in contact with promoters, but CHC can be used for a range of other applications. Therefore, probe design for CHC needs to be adapted to experimental needs, but no flexible tool is currently available for this purpose.

Results

We present a Java desktop application called GOPHER (Generator Of Probes for capture Hi-C Experiments at high Resolution) that implements three strategies for CHC probe design. GOPHER's simple approach is similar to the probe design of previous approach

SUBMITTER: Hansen P 

PROVIDER: S-EPMC6332836 | biostudies-literature | 2019 Jan

REPOSITORIES: biostudies-literature