# NeMO Archive — Neuroscience Multi-Omic Archive ## Overview The NeMO Archive (Neuroscience Multi-Omic Archive) is a data repository for multi-omic single-cell data from the [[NIH BRAIN Initiative]] and the primary archive for [[BICAN]] (BRAIN Initiative Cell Atlas Network) datasets. Hosted at the University of Maryland Institute for Genome Sciences, NeMO stores and distributes single-cell and single-nucleus sequencing data from human, non-human primate, and mouse brain studies. ## What NeMO Stores NeMO stores scRNA-seq and snRNA-seq (single-cell and single-nucleus transcriptomics of brain tissue) as [[AnnData]]/h5ad files. It also stores scATAC-seq (chromatin accessibility), spatial transcriptomics (MERFISH, Slide-seq, Visium), multi-omics (joint transcriptome and chromatin accessibility), epigenomics (DNA methylation), and processed data including cell type annotations and clustering results. ## Access Model NeMO operates a tiered access model. Processed data (cell type annotations, metadata, summary files) is freely downloadable without registration. Raw data from human subjects requires a data access request managed through the NeMO Access portal, similar to [[dbGaP]]. The NeMO Analytics workspace provides cloud-based analysis of controlled-access data without requiring download. ## BICAN Datasets NeMO is the primary repository for [[BICAN]] data. The Human Brain Cell Atlas provides a comprehensive human brain single-cell taxonomy covering millions of cells across all major brain regions. Non-human primate atlases cover macaque and marmoset brain cell types. The mouse brain atlas continues and expands BICCN mouse data. Spatial transcriptomics datasets include MERFISH brain maps with cell type spatial distributions. ## Data Standards - Primary format: [[AnnData]] / h5ad (processed data) - Raw reads: [[FASTQ]] files deposited in NCBI SRA (cross-linked from NeMO records) - Cell type annotations: [[Cell Ontology]] (CL) terms - Anatomy: [[UBERON]] brain region terms - Access: REST API and AWS S3 for large-scale data transfer ## Connections - Funded by: [[NIH BRAIN Initiative]] - Primary archive for: [[BICAN]] - Formats: [[AnnData]], [[FASTQ]] - Annotations use: [[Cell Ontology]], [[UBERON]] ## Resources - https://nemoarchive.org - https://assets.nemoarchive.org (NeMO Analytics workspace) - https://nemoarchive.org/data-access-request (controlled access request)