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update README with linkages and publication
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saorisakaue committed May 28, 2024
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Expand Up @@ -6,7 +6,7 @@ Single-Cell ENhancer Target gene mapping using multimodal data with ATAC + RNA

(*beta version*)

The manuscript will soon appear at medRxiv! (Sakaue et al. "**Tissue-specific enhancer-gene maps from multimodal single-cell data identify causal disease alleles**")
The manuscript is now publised in *Nature Genetics*! (Sakaue et al. ["**Tissue-specific enhancer-gene maps from multimodal single-cell data identify causal disease alleles**"](https://www.nature.com/articles/s41588-024-01682-1))



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|4 | celltype |User specified celltype (ex. "Tcells") to run the SCENT algorithm |
|5 | output_dir | User specified directory to output the SCENT results to aggregate once completed. |

### Enhancer-gene links from the paper

SCENT enhancer-gene linkages (FDR<10%) from the 8 datasets that we described in the paper can be downloaded from the following dropbox link.

https://www.dropbox.com/scl/fo/g20tfnwkcuhib4a6z1wp4/ABYaK5s8bwTLnzrJ0KoZn48?rlkey=j1s5365gso53r2v2dsdynnsr2&st=5np1fq0a&dl=0

### Contact

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