What annotations are included in the downloadable reference genomes for Cell Ranger ATAC?

Question: What annotations are included in the downloadable reference genomes for Cell Ranger ATAC?

Answer: The following annotations are included in the reference genomes for Cell Ranger ATAC:

• Ensembl annotated promoter and enhancer regions.
• ENCODE annotated DNase hypersensitivity regions.
• GENCODE annotated TSS (Transcription Start Site) for each transcript.
• Transcription factor motifs from JASPAR (http://jaspar.genereg.net/) vertebrate non-redundant collection.