BICCN at Neuroscience 2022 in San Diego

After 5 years of collaboration, the BICCN is out in force at Neuroscience 2022 in San Diego!  Come meet  our consortium members and learn about the science, data, and tools at the events below, from booth representation to posters and presentations.









Come meet BICCN members at these events

  • Satellite Event. Responsible Conduct of Research Short Course. Friday, November 11, 2022, 1:00-5:30 pm, SDCC, Room 10. Anita Bandrowski (UCSD) and Satrajit Ghosh (MIT) presenting.  Link

  • Satellite Event. Open resources for cell types and taxonomies with the Allen Brain Map.  Saturday, November 12, 2022, 7:30-10:30am, Marriott Marquis San Diego Marina, Pacific Ballroom 14-17.  Register!

  • Social.  Tools, Tech & Theory: A BRAIN Initiative Alliance Social at the 2022 Society for Neuroscience Annual Meeting. The Allen Institute for Brain Science is a sponsor and participant in this Brain Initiative meeting. At this social, meet leading toolmakers supported by the BRAIN Initiative. Sunday, November 13, 6:30-9:30pm. Hilton Bayfront.

  • Allen Institute Booth Session. BICCN applications and data portals for neuroanatomy and connectomics. Monday, Nov. 14, 11-12pm. Allen Institute Booth #1312.  Speakers: Rachel Dalley, Pooja Balaram, Zizhen Yao. Topics include:  Single cell reconstructions from slice and fMOST data and BIL data access; Molecular Probes Database to identify antibody targets and and light sheet imaging to visualize connectomics; introduction to the mouse whole brain cell type atlas and merfish dataset.

  • NIF Booth Session. BICCN Data Archives and Resources.  Monday, Nov. 14, 1-2pm. NIF Booth #3314.  Speakers: Satrajit Ghosh and Yarik Halchenko (DANDI), Brock Wester (BossDB), Carol Thompson (AIBS), Anita Bandrowski (UCSD).  Topics include:  BRAIN Data Archives DANDI and BossDB; finding resources through the BICCN portal; Research Resource Identifiers.

  • Allen Institute Booth Session. BICCN and Allen Brain Map applications enabling users to explore, visualize, and download multimodal datasets describing mammalian brain cell types. Tuesday, Nov. 15, 11-12pm. Allen Institute Booth #1312. Speakers: Patrick Ray, Raymond Sanchez, Jeremy Miller.  From Portals to Explorers: learn about gene expression and cell type phenotypes using the Transcriptomics Explorer and Cell Types Knowledge Explorer.




Special lecture

  • Monday, November 14, 10:35-11:20am: Open Neuroscience and the Meaning of FAIR. Maryann Martone, UCSD. SDCC Ballroom 20.
  • Monday, November 14, 12–1pm: Understanding Brain Cell Type Diversity. Hongkui Zeng, Allen Institute for Brain Science. Ballroom 20 and livestreamed.

Symposia, minisymposia, and nanosymposia

Sunday, November 13, 2022, 8:00-10:30 pm. Nanosymposium: Autism and Synapse Development. SDCC1.

  • Presentation, 8:00-8:15am: L. Zhou, Properties of the synaptic modules in the developing human cortex. #100.01

Monday, November 14, 2022, 9:30am - 12pm. Nanosymposium: On Neural Connectomics. SDCC25.

  • Presentation, 1:00-1:15pm: Pooja Balaram, A pipeline for high resolution axonal connectomics in nonhuman primates and humans.

Wednesday, November 16, 2022, 8:00-10:15 am. Nanosymposium: Genomics and Transcriptomics in Health and Disease. SDCC 23.

  • Presentation, 9:00-9:15am: Rongxin Fang. Spatially resolved single-cell transcriptomics reveals conservation and divergence of the cellular organization in human and mouse cortices. #598.05

Wednesday, November 16, 2022, 1:00-2:45 pm. Nanosymposium: Epigenomic and Transcriptomic Cell Type Atlas of the Whole Mouse Brain. SDCC 1.

  • Presentation, 1:00-1:15pm: Michael Kunst, A whole-brain mouse spatial transcriptomics atlas. #684.01
  • Presentation, 1:15-1:30pm: Meng Zhang, A molecularly defined and spatially resolved cell atlas of the whole mouse brain.  #684.02
  • Presentation, 1:30-1:45pm: J. Langlieb, A spatial and single-cell transcriptional atlas of the adult mouse brain.  #684.03.
  • Presentation, 1:45-2:00pm: Zizhen Yao, A whole mouse brain transcriptomic cell type atlas. #684.04
  • Presentation: 2:00-2:15pm: J. Zhou, Brain-wide Correspondence Between Neuronal Epigenomics and Long-Distance Projections. #684.05
  • Presentation, 2:15-2:30pm: S. Zu, Comprehensive single-cell analysis of chromatin accessibility in the adult mouse brain. #684.06.
  • Presentation: 2:30-2:45 pm: Hanqing Liu, Dna methylome and 3d chromatin landscape of cell types across the mouse brain.  #684.07



Saturday, Nov. 12

Poster Session: 031 - Comparative Cellular and Molecular Mechanisms. SDCC Halls B-H

  • Marmosets have birth siblings' microglia. Poster. Sat., Nov. 12., 2:00-3:00 pm #031.06 / B26.
  • Comprehensive analysis of single-cell chromatin accessibility in the human brain. Poster. Sat., Nov. 12., 2:00-3:00 pm. #031.10 / B30.
  • Areal specializations in L5 extratelencephalic-projecting neuron morpho-electric and transcriptomic properties in the primate neocortex. Poster. Sat., Nov. 12, 2:00-3:00 pm. #031.11 / B31.
  • Morphoelectric and transcriptomic divergence of the layer 1 interneuron repertoire in human versus mouse neocortex. Poster. Sat., Nov. 12, 2:00-3:00 pm. #031.14 / B34.
  • Single nucleus methylome and 3D chromatin heterogeneity reveals cell-type identity, spatial location and regulatory genome complexity in the human brain. Poster. Sat., Nov. 12., 3:00-4:00 pm. #031.15 / B35.
  • Cross-species taxonomies of primate basal ganglia cell types defined by single nucleus RNA-sequencing. Poster. Sat. Nov. 12., 4:00-5:00 pm.  #031.16 / B36.
  • Transcriptomic diversity of cell types across the adult human brain. Poster. Sat., Nov. 12., 1:00 PM - 2:00 pm. #031.17 / B37.
  • Signature morpho-electric properties of GABAergic interneuron subclasses and types in the human neocortex. Poster. Sat., Nov. 12, 3:00-4:00 pm. #031.19 / B39.
  • A marmoset brain cell atlas reveals effects of local context on neurons. Poster. Sat., Nov. 12., 4:00- 5:00 pm. #031.20 / B40. 
  • An integrative single-cell genomics analysis of Alzheimer’s disease identifies cellular state alterations and neuronal vulnerabilities. Poster. Sat., Nov. 12, 2:00-3:00 pm. #031.22 / B42.
  • Cellular and molecular specialization of functional areas in human neocortex. Poster. Sat., Nov. 12, 3:00-4:00 pm. #031.23 / B43.
  • Inter-individual genomic and transcriptomic variation in human cortical cell type. Poster. Sat., Nov. 12, 2:00-3:00pm. #031.26 / B46. 

Poster Session 083 - Single Cell profiling Technique in Health and Disease. SDCC Halls B-H.

  • Multiple modality classification of long-ragne projecting, glutamatergic neurons in mouse visual cortex. Poster. Sat., Nov. 12., 4:00-5:00 pm. #083.20 / VV34.
  • Modular and hierarchical cell type organization of cortical areas revealed by in situ sequencing. Poster. Sat., Nov. 12, 2:00-3:00pm. #083.18 / VV32.

Sunday, Nov. 13

Poster Session 162 - Bioinformatics and Systems Biology. SDCC Halls B-H.


  • DANDI: An archive and collaboration space for cellular neurophysiology projects. Poster. Sun., Nov. 13, 8:00-9:00am. #162.05 / XX2.
  • The cellxgene suite is an online analytical platform and the largest repository of standardized single-cell data. Poster. Sun., Nov. 13, 11:00am-12:00pm. #162.04 / XX1.

Poster Session 245 - Tools and Resources for Data Standardization and Data Sharing.  SDCC Halls B-H.

  • Ontologies to support BRAIN Initiative Cell Census Network (BICCN) data and future expansion. Poster. Sun., Nov. 13., 4:00-5:00pm. #245.04 / XX46.
  • A Guide to Five years of Data from the BRAIN Initiative Cell Census Network (BICCN). Poster. Sun., Nov. 13., 1:00-2:00 pm. #245.05 / XX47.

Other Poster Sessions

  • Brain-wide circuit representations of sensory and behavioral responses to olfactory stimuli in adult Drosophila. Poster. Sun., Nov. 13., 4:00-5:00 pm. #209.04 / N9.
  • EPIC-Clear: enzyme powered IHC-compatible clearing for whole organs and whole animals. Poster. Sun., Nov. 13., 2:00-3:00 pm #242.02 / WW45.
  • Histological validation of human post mortem amygdala DTI. Poster. Sun., Nov. 13., 11:00-12:00 pm. #164.12 / XX37.
  • Effective preservation of biomolecules in frozen human brain tissues for 3D spatial multi-omic analysis. Poster. Sun., Nov. 13., 9:00-10:00 am #161.02 / WW43.

Monday, Nov. 14

Poster Session 411 - Light and Electron Microscopy Techniques. SDCC Halls B-H.

  • A parallelly distributed microscope and software system for scalable high-throughput multispectral 3D imaging. Poster. Mon., Nov. 14, 3:00-4:00pm. #411.03 / YY54.
  • High-throughput light-sheet microscopy imaging: a custom hardware setup and a software stack for large-scale brain tissue reconstruction. Poster. Mon.,  Nov. 14., 4:00-5:00 pm #411.04 / YY55.
  • 3d molecular phenotyping of human brain samples with light-sheet. Poster. Mon.,  Nov. 14., 3:00-4:00 pm #411.11 / YY62.
  • High-throughput airy beam light-sheet tomography of brain-wide imaging at single-cell resolution. Poster. Mon., Nov. 14, Web Only. #411.12.
Other Poster Sessions
  • A common coordinate framework for quantitative cell census in developing mouse brains. Poster. Mon.,  Nov. 14., 3:00-4:00 pm #359.09 / D11.
  • Brain-wide cellular resolution mapping of GABAergic cells and microglia unveils spatially distinct developmental patterns in the early postnatal mouse brain. Poster. Mon.,  Nov. 14., 2:00-3:00 pm #350.02 / A2.

Tuesday, Nov. 15

Poster Session 498 - Computational Tools and Other Resources: Microscopy and Imaging

  • The Brain Image Library- a brain microscopy resource. Poster. Tue., Nov. 15., 11:00-12:00pm. #498.04 / YY59.
  • Nyquist Sampling Rate for Projection Neuron Reconstruction. Poster. Tue., Nov. 15., 9:00-10:00am. #498.10 / YY65.
  • A Universal Conversion Service of Digital Reconstructions into the SWC Standard Community Format.  Poster. Tue., Nov. 15., 10:00-11:00am. #498.11 / YY66.
  • at sweet 16: sharing neural reconstructions in the big data era. Poster. Tue.,  Nov. 15., 11:00-12:00 pm #498.12 / YY67.
  • Petabyte-scale image visualization and annotation on the Brain Image Library with nTracer2. Poster. Tue.,  Nov. 15., 8:00-9:00 am #498.25
  • An automated pipeline for mouse whole-brain CCF registration. Poster. Tue.,  Nov. 15., 9:00-10:00 am #498.26

Poster Session 576 - Visualizing Nerual Connectivity with High Resolution. SDCC Halls B-H.

  • Towards routine reconstruction of C. elegans connectomes, cell states, and cell types, through optimized expansion microscopy. Poster. Tue.,  Nov. 15., 1:00-5:00 pm #576.01 / XX50.
  • Ultrastructural membrane expansion microscopy (umExM) for electron microscopy-like imaging of brain circuits. Poster. Tue.,  Nov. 15., 1:00-5:00 pm #576.02 / XX51.
  • Multiplexed Expansion Revealing (multi-ExR): Development and Application to Mapping Nanostructures in Healthy and Alzheimer's Disease Brains. Poster. Tue.,  Nov. 15., 1:00-5:00 pm #576.04 / XX53.
  • Expansion Microscopy of Liquid Biopsies. Poster. Tue.,  Nov. 15., 1:00-5:00 pm #576.05 / XX54.
  • Next-generation expansion sequencing. Poster. Tue.,  Nov. 15., 1:00-5:00 pm #576.07 / XX56.
  • Scalable sets of brainbow-like protein barcodes for scalable expansion microscopy-based neural morphology measurement and connectomics. Poster. Tue.,  Nov. 15., 1:00-5:00 pm #576.09 / XX58.
  • 16-fold expansion microscopy (16exm) enables single-shot ultrahigh resolution imaging on conventional microscopes. Poster. Tue.,  Nov. 15., 1:00-5:00 pm #576.11 / XX60.

Wednesday, Nov. 16

  • v2.0 - a knowledge base enabling neuron-type specific spiking neural network simulations of hippocampal circuits. Poster. Wed.,  Nov. 16., 3:00-4:00 pm #742.11.