UCL Discovery
UCL home » Library Services » Electronic resources » UCL Discovery

Convolutional neural networks for cytoarchitectonic brain mapping at large scale

Schiffer, C; Spitzer, H; Kiwitz, K; Unger, N; Wagstyl, K; Evans, AC; Harmeling, S; ... Dickscheid, T; + view all (2021) Convolutional neural networks for cytoarchitectonic brain mapping at large scale. NeuroImage , 240 , Article 118327. 10.1016/j.neuroimage.2021.118327. Green open access

[thumbnail of Wagstyl_Convolutional neural networks for cytoarchitectonic brain mapping at large scale_VoR.pdf]
Preview
Text
Wagstyl_Convolutional neural networks for cytoarchitectonic brain mapping at large scale_VoR.pdf - Published Version

Download (4MB) | Preview

Abstract

Human brain atlases provide spatial reference systems for data characterizing brain organization at different levels, coming from different brains. Cytoarchitecture is a basic principle of the microstructural organization of the brain, as regional differences in the arrangement and composition of neuronal cells are indicators of changes in connectivity and function. Automated scanning procedures and observer-independent methods are prerequisites to reliably identify cytoarchitectonic areas, and to achieve reproducible models of brain segregation. Time becomes a key factor when moving from the analysis of single regions of interest towards high-throughput scanning of large series of whole-brain sections. Here we present a new workflow for mapping cytoarchitectonic areas in large series of cell-body stained histological sections of human postmortem brains. It is based on a Deep Convolutional Neural Network (CNN), which is trained on a pair of section images with annotations, with a large number of un-annotated sections in between. The model learns to create all missing annotations in between with high accuracy, and faster than our previous workflow based on observer-independent mapping. The new workflow does not require preceding 3D-reconstruction of sections, and is robust against histological artefacts. It processes large data sets with sizes in the order of multiple Terabytes efficiently. The workflow was integrated into a web interface, to allow access without expertise in deep learning and batch computing. Applying deep neural networks for cytoarchitectonic mapping opens new perspectives to enable high-resolution models of brain areas, introducing CNNs to identify borders of brain areas.

Type: Article
Title: Convolutional neural networks for cytoarchitectonic brain mapping at large scale
Location: United States
Open access status: An open access version is available from UCL Discovery
DOI: 10.1016/j.neuroimage.2021.118327
Publisher version: https://doi.org/10.1016/j.neuroimage.2021.118327
Language: English
Additional information: Copyright © 2021 The Authors. Published by Elsevier Inc. This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/).
Keywords: Brain mapping, Cortex, Cytoarchitecture, Deep learning, Histology, Human brain, Segmentation
UCL classification: UCL
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Brain Sciences
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Brain Sciences > UCL Queen Square Institute of Neurology
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Brain Sciences > UCL Queen Square Institute of Neurology > Imaging Neuroscience
URI: https://discovery.ucl.ac.uk/id/eprint/10132452
Downloads since deposit
76Downloads
Download activity - last month
Download activity - last 12 months
Downloads by country - last 12 months

Archive Staff Only

View Item View Item