Jaimes, C. | Search bioRxiv

bioRxiv2025

Charting the Normal Development of Structural Brain Connectivity in Utero using Diffusion MRI

Understanding the structural connectivity of the human brain during fetal life is critical for uncovering the early foundations of neural function and vulnerability to developmental disorders. Diffusion-weighted MRI (dMRI) enables non-invasive mapping of white matter pathways and construction of the brains structural connectome, but its application to the fetal brain has been limited by data scarcity and technical difficulties in analyzing fetal dMRI data. Here, we present the largest study to date of in utero brain connectivity, analyzing high-quality dMRI data from 198 fetuses between 22 and 37 gestational weeks from the Developing Human Connectome Project. We employed advanced fetal-specific tools for brain segmentation and parcellation, and used ensemble tractography to encourage more complete reconstruction of various white matter tracts. For connection weighting, we relied on the notion of fiber bundle capacity. We reconstructed individual structural connectomes and characterized the developmental trajectories. Graph-theoretical analysis revealed consistent increases in integration and segregation metrics over gestation, while bootstrapping confirmed the robustness of nodal and edgewise developmental patterns. Furthermore, we proposed a novel method for constructing age-specific connectome templates based on aggregation of individual subject connectomes. The new method follows an optimization-based approach to ensure that the connectome templates closely represent individual subject connectomes, are temporally consistent, and proportionally preserve short and long connections. Our analysis shows that this approach is superior to spatial alignment and averaging of the data in image space, with the resulting connectome templates supporting accurate prediction of the gestational age of individual fetuses (mean error= 0.90 {+/-} 0.81 weeks). In summary, this study provides robust normative benchmarks for fetal brain structural connectivity and demonstrates that connectome-based measures capture meaningful developmental signatures, offering a framework for future studies of early brain development.

neuroscience↗

bioRxiv2024

Detailed delineation of the fetal brain in diffusion MRI via multi-task learning

Diffusion-weighted MRI is increasingly used to study the normal and abnormal development of fetal brain inutero. Recent studies have shown that dMRI can offer invaluable insights into the neurodevelopmental processes in the fetal stage. However, because of the low data quality and rapid brain development, reliable analysis of fetal dMRI data requires dedicated computational methods that are currently unavailable. The lack of automated methods for fast, accurate, and reproducible data analysis has seriously limited our ability to tap the potential of fetal brain dMRI for medical and scientific applications. In this work, we developed and validated a unified computational framework to (1) segment the brain tissue into white matter, cortical/subcortical gray matter, and cerebrospinal fluid, (2) segment 31 distinct white matter tracts, and (3) parcellate the brains cortex and delineate the deep gray nuclei and white matter structures into 96 anatomically meaningful regions. We utilized a set of manual, semi-automatic, and automatic approaches to annotate 97 fetal brains. Using these labels, we developed and validated a multi-task deep learning method to perform the three computations. Our evaluations show that the new method can accurately carry out all three tasks, achieving a mean Dice similarity coefficient of 0.865 on tissue segmentation, 0.825 on white matter tract segmentation, and 0.819 on parcellation. The proposed method can greatly advance the field of fetal neuroimaging as it can lead to substantial improvements in fetal brain tractography, tract-specific analysis, and structural connectivity assessment.

bioengineering↗