05-clingen.Rmd

# Introduction to ClinGen

```{r, include = FALSE}
ottrpal::set_knitr_image_path()
```

## Learning Objectives

This chapter will summarize:

- The ClinGen Organization
- ClinGen Somatic Cancer Variant Curation Expert Panels

## ClinGen Somatic 

The ClinGen organization, which leverages expert working groups to tailor guidelines for specific genes and provide publicly curated germline variant interpretations, has developed a parallel effort in the somatic space under the [Somatic Cancer Clinical Domain Working Group](https://www.clinicalgenome.org/working-groups/clinical-domain/somatic-cancer-cdwg/). Multiple ClinGen Somatic Cancer Variant Curation Expert Panels (SC-VCEPs) are being developed around different genes or disease groupings (FGFR, NTRK, etc), and undergoing a four step process for approval. SC-VCEP somatic curation follows data models which incorporate the above mentioned AMP/ASCO/CAP and ClinGen/CGC/VICC guidelines for clinical relevance and oncogenicity, which may be tailored for specific genes and disease contexts.The [CIViC knowledgebase](https://civicdb.org), discussed below, has been selected as the primary database and curation interface for SC-VCEP variant classifications.

```{r, fig.align='center', out.width="100%", echo = FALSE, fig.alt= "ClinGen Somatic Organization"}
ottrpal::include_slide("https://docs.google.com/presentation/d/1zwvAVLWpN2mKrJLgo5ZcAuSKQrHZ8zunIYHLe-w6bBo/edit#slide=id.g28106c9f66a_0_0")
```