Convolutional Neural Networks for cytoarchitectonic brain mapping at large scale

11/25/2020
by   Christian Schiffer, et al.
5

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.

READ FULL TEXT
POST COMMENT

Comments

There are no comments yet.

Authors

page 6

page 9

page 13

page 15

page 16

page 17

page 18

05/30/2017

Parcellation of Visual Cortex on high-resolution histological Brain Sections using Convolutional Neural Networks

Microscopic analysis of histological sections is considered the "gold st...
03/09/2021

2D histology meets 3D topology: Cytoarchitectonic brain mapping with Graph Neural Networks

Cytoarchitecture describes the spatial organization of neuronal cells in...
06/13/2018

Improving Cytoarchitectonic Segmentation of Human Brain Areas with Self-supervised Siamese Networks

Cytoarchitectonic parcellations of the human brain serve as anatomical r...
07/10/2018

Developing Brain Atlas through Deep Learning

To uncover the organizational principles governing the human brain, neur...
11/25/2020

Contrastive Representation Learning for Whole Brain Cytoarchitectonic Mapping in Histological Human Brain Sections

Cytoarchitectonic maps provide microstructural reference parcellations o...
09/28/2018

A Differential Degree Test for Comparing Brain Networks

Recently, graph theory has become a popular method for characterizing br...
This week in AI

Get the week's most popular data science and artificial intelligence research sent straight to your inbox every Saturday.