BICAN Rapid Release Inventory: Single cell transcriptomics and epigenomics (BICAN-2026-09-RR-SCO)

Program
bican
Collection Type
Static
Keywords
BICAN-2026-09-RR-SCO 2026 Rapid Release Inventory

This is the third public release of post-QC single-cell and single-nucleus transcriptomic and epigenomic data from the BRAIN Initiative Cell Atlas Network. This is the first Rapid Release to include processed data files (aligned data, counts, and analysis metrics) from the BICAN common sequencing analysis pipelines. It features data from 9 institutions, totaling 1018 donors, 10248 specimens (library aliquots), and 74 data collections. There are 34 new collections of raw sequencing data for this release including human multimodal droplet Paired-Tag data from the Ren lab at UC San Diego, transcriptomic and multimodal data from mouse locus ceruleus neurons from the Cohen lab at the Allen Institute, multimodal mouse spinal cord data from the Lai lab at the UT Southwestern Medical Center, multimodal developmental mouse data from the Arlotta lab at Harvard University, transcriptomic and multimodal data from mouse neurons and multi-species 10X v4 OCM sequencing data collected by the Lein lab at the Allen Institute, as well as new collections of transcriptomic data from the Krienen lab (Princeton University) and McCarroll lab (Broad Institute). Also new are 24 processed datasets originating from new and previously released raw data collections generated by 10x Chromium 3’ v3.1/v3.1-HT sequencing, 10x Genomics Chromium 3’ v4 sequencing, 10x Genomics Multiome RNA-seq, and snm3C-seq analysis pipelines. This release also has updates to existing collections from the Allen Institute (Zeng and Lein), UC Los Angeles (Luo), UC San Francisco (Nowakowski), Salk Institute (Ecker), Broad Institute (McCarroll), Princeton University (Krienen), and Harvard University (Arlotta). This release provides metadata and identifiers to integrate information from the Data Catalog with the Neuroanatomy-anchored Information Management Platform for Collaborative BICAN Data Generation (NIMP) and access to data files at the NeMO archive. The data are provided under a CC-BY license for non-human data, BICAN-BY-NR license for open access human data, and other data use agreements for controlled access human data.

Data citation
No data citation listed
Funding agency
NIMH
Grant numbers
UM1MH130994, UM1MH130981, UM1MH130966, U01MH130995, U01MH130962, R01MH134799, R01MH134833
Access
open
License
No license listed

Download URLs

No download URLs listed for this collection.

Anatomical Regions

  • ventral group of lateral nucleus
  • Hindbrain
  • rostral subdivision of area 20
  • dorsal division of basomedial nucleus
  • Hippocampal formation
  • Hippocampal region

Taxa

Ma's night monkey white-tufted-ear marmoset nine-banded armadillo human crab-eating macaque rhesus macaque pig-tailed macaque gray short-tailed opossum house mouse domestic ferret chimpanzee Norway rat pig nothern tree shrew naked mole-rat gray mouse lemur

Projects this collection belongs to

  • nemo:prj-butzji4
    Center for Multiomic Human Brain Cell Atlas
  • nemo:prj-t8d9ty5
    Functionally guided adult whole brain cell atlas in human and NHP
  • nemo:prj-hqeuy8h
    An Atlas of Human Brain Cell Variation
  • nemo:prj-vwtwc3r
    Spatiotemporal epigenomic and chromosomal architectural cell atlas of developing human brains
  • nemo:prj-ggc1k9k
    Comprehensive single-cell atlas of the developing mouse brain
  • nemo:prj-frwup1c
    Molecular and anatomical atlases from progenitors to adult neurons in the mouse spinal cord

Assays, Modalities & Techniques

Assays
transcriptome methylation multiome; chromatin multiome; transcriptome HT; transcriptome transciptome; cellplex_barcode transciptome; cellplex_RNAseq HT; cellplex_barcode HT; cellplex_RNAseq multimodal LT; transcriptome
Modalities
transcriptome epigenome multimodal
Techniques
10x chromium 3' v3 sequencing 10x chromium 3' v3.1 sequencing 10X genomics multiome;atac-seq 10X genomics multiome;rnaseq m3c-seq smart-seq v4 10xV3.1_HT_CellPlex;Barcode 10xV3.1_HT 10xV3.1_HT_CellPlex;GEX 10x Chromium 3' v4 sequencing 10xV3.1_CellPlex;Barcode 10xV3.1_CellPlex;GEX droplet paired-tag; DNA droplet paired-tag; RNA multiplex droplet paired-tag; RNA 10x chromium 5' v3 sequencing 10x chromium 5' v2 sequencing SMARTSeqSC snmCT-seq 10x Chromium 3' v4-OCM sequencing 10xV3.1_LT

Child collections

  • nemo:col-tqreqdu
    Developmental Multiomics: Chromatin Conformation and Cytosine DNA methylation (mC) analysis of single nuclei from human brain (BICAN-2026-01-RR-SCO Snapshot)
  • nemo:col-86wekaq
    Developmental Multiomics: Chromatin Conformation and Cytosine DNA methylation (mC) analysis of single nuclei from human brain (General research use) (BICAN-2026-01-RR-SCO Snapshot)
  • nemo:col-u1qf544
    Developmental Multiomics: Single-nucleus multi-omic DNA methylation and transcriptome sequencing (snmCT-seq) from human brain (General research use) (BICAN-2026-01-RR-SCO Snapshot)
  • nemo:col-7x7snh7
    Developing Mouse Brain Atlas: RNAseq of single cells from embryonic and postnatal mouse brain (10X v3.1) (BICAN-2026-01-RR-SCO Snapshot)
  • nemo:col-9v0xd24
    Developing Mouse Brain Atlas: RNAseq of single cells from embryonic and postnatal mouse brain (10X v3.1 HT) (BICAN-2026-01-RR-SCO Snapshot)
  • nemo:col-gmx43jp
    Human and Mammalian Brain Atlas: Multiome analysis of single nuclei from rat brain (BICAN-2026-01-RR-SCO MetaSnapshot)

Parent collections

No parent collections listed for BICAN Rapid Release Inventory: Single cell transcriptomics and epigenomics (BICAN-2026-09-RR-SCO) collection.

Associated publications

No publications linked yet.

URL Protocols

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Contributors

No contributors listed for BICAN Rapid Release Inventory: Single cell transcriptomics and epigenomics (BICAN-2026-09-RR-SCO) collection.

Cross-archive links

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Documentation & resources