A unified 3D map of microscopic architecture and MRI of the human brain

Anneke Alkemade*, Pierre-Louis Bazin, Rawien Balesar, Kerrin Pine, Evgeniya Kirilina, Harald E Möller, Robert Trampel, Johan M Kros, Max C Keuken, Ronald L A W Bleys, Dick F Swaab, Andreas Herrler, Nikolaus Weiskopf, Birte U Forstmann*

*Corresponding author for this work

Research output: Contribution to journalArticleAcademicpeer-review


We present the first three-dimensional (3D) concordance maps of cyto- and fiber architecture of the human brain, combining histology, immunohistochemistry, and 7-T quantitative magnetic resonance imaging (MRI), in two individual specimens. These 3D maps each integrate data from approximately 800 microscopy sections per brain, showing neuronal and glial cell bodies, nerve fibers, and interneuronal populations, as well as ultrahigh-field quantitative MRI, all coaligned at the 200-μm scale to the stacked blockface images obtained during sectioning. These unprecedented 3D multimodal datasets are shared without any restrictions and provide a unique resource for the joint study of cell and fiber architecture of the brain, detailed anatomical atlasing, or modeling of the microscopic underpinnings of MRI contrasts.

Original languageEnglish
Article number7892
Number of pages9
JournalScience advances
Issue number17
Publication statusPublished - 29 Apr 2022


  • Brain Mapping/methods
  • Brain/diagnostic imaging
  • Humans
  • Magnetic Resonance Imaging/methods
  • Microscopy
  • Nerve Fibers

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