Wen Shi

Mr. Wen Shi

orcid

Research Focus & Metrics

Academic Career Length

8Years (2019-Present)

(Calculated once Scilit publication data is synced: current year − year of first publication + 1)

Representative Publications

View All Publications
1 December 2020 in NeuroImage
Verified
Journal Article
Open access
WSWen Shi
Wen Shi
GYGuohui Yan
Guohui Yan
YLYamin Li
Yamin Li
HLHaotian Li
Haotian Li
TLTingting Liu
Tingting Liu
DWDan Wu
Dan Wu
MRI-based brain age prediction has been widely used to characterize normal brain development, and deviations from the typical developmental trajectory are indications of brain abnormalities. Age prediction of the fetal brain remains unexplored, although it can be of broad interest to prenatal examination given the limited diagnostic tools available for assessment of the fetal brain. In this work, we built an attention-based deep residual network based on routine clinical T2-weighted MR images of 659 fetal brains, which achieved an overall mean absolute error of 0.767 weeks and R2 of 0.920 in fetal brain age prediction. The predictive uncertainty and estimation confidence were simultaneously quantified from the network as markers for detecting fetal brain anomalies using an ensemble method. The novel markers overcame the limitations in conventional brain age estimation and demonstrated promising diagnostic power in differentiating several types of fetal abnormalities, including small head circumference, malformations and ventriculomegaly with the area under the curve of 0.90, 0.90 and 0.67, respectively. In addition, attention maps were derived from the network, which revealed regional features that contributed to fetal age estimation at each gestational stage. The proposed attention-based deep ensembles demonstrated superior performance in fetal brain age estimation and fetal anomaly detection, which has the potential to be translated to prenatal diagnosis in clinical practice.

2 November 2022 in The Journal of Neuroscience
Verified
Journal Article
Open access
PDF file
XXXinyi Xu
Xinyi Xu
CSCong Sun
Cong Sun
JSJiwei Sun
Jiwei Sun
WSWen Shi
Wen Shi
YSYao Shen
Yao Shen
DWDan Wu
Dan Wu
The fetal brains experience rapid and complex developmentin uteroduring the second and third trimesters.In uteroMRI of the fetal brain in this period enables us to quantify normal fetal brain development in the spatiotemporal domain. In this study, we established a high-quality spatiotemporal atlas between 23 and 38 weeks gestational age (GA) from 90 healthy Chinese human fetuses of both sexes using a pairwise and groupwise registration pipeline. We quantified the fetal cortical morphology indices and characterized their spatiotemporal developmental pattern. The cortical thickness exhibited a biphasic pattern that first increased and then decreased; the curvature fitted well into the Gompertz growth model; sulcal depth increased linearly, while surface area expanded exponentially. The cortical thickness and curvature trajectories consistently pointed to a characteristic time point around GA of 31 weeks. The characteristic GA and growth rate obtained from individual cortical regions suggested a central-to-peripheral developmental gradient, with the earliest development in the parietal lobe, and we also observed a superior-to-inferior gradient within the temporal lobe. These findings may be linked to biophysical events, such as dendritic arborization and thalamocortical fibers ingrowth. The proposed atlas was also compared with an existing fetal atlas from a white/mixed population. Finally, we examined the structural asymmetry of the fetal brains and found extensive asymmetry that dynamically changed with development. The current study depicted a comprehensive profile of fetal cortical development, and the established atlas could be used as a normative reference for neurodevelopmental and diagnostic purposes, especially in the Chinese population.SIGNIFICANCE STATEMENTWe generated a high-quality 4D spatiotemporal atlas of the normal fetal brain development from 23 to 38 gestational weeks in a Chinese population and characterized the spatiotemporal developmental pattern of cortical morphology. According to the cortical development trajectories, the fetal cerebral cortex development follows a central-to-peripheral developmental gradient that may be related to the underlying cellular events. The majority of cortical regions already exhibit significant asymmetry during the fetal period.

1 March 2023 in Medical Image Analysis
Verified
Journal Article
Closed access
TZTianshu Zheng
Tianshu Zheng
GYGuohui Yan
Guohui Yan
HLHaotian Li
Haotian Li
WZWeihao Zheng
Weihao Zheng
WSWen Shi
Wen Shi
DWDan Wu
Dan Wu

23 January 2020 in International Journal of Neural Systems
Verified
Journal Article
Closed access
PDF file
WSWen Shi
Wen Shi
YLYamin Li
Yamin Li
ZLZhian Liu
Zhian Liu
JLJing Li
Jing Li
QWQiang Wang
Qiang Wang
GWGang Wang
Gang Wang

21 September 2022 in IEEE Transactions on Medical Imaging
Verified
Journal Article
Closed access
WSWen Shi
Wen Shi
HXHaoan Xu
Haoan Xu
CSCong Sun
Cong Sun
JSJiwei Sun
Jiwei Sun
YLYamin Li
Yamin Li
DWDan Wu
Dan Wu
Multi-slice magnetic resonance images of the fetal brain are usually contaminated by severe and arbitrary fetal and maternal motion. Hence, stable and robust motion correction is necessary to reconstruct high-resolution 3D fetal brain volume for clinical diagnosis and quantitative analysis. However, the conventional registration-based correction has a limited capture range and is insufficient for detecting relatively large motions. Here, we present a novel Affinity Fusion-based Framework for Iteratively Random Motion (AFFIRM) correction of the multi-slice fetal brain MRI. It learns the sequential motion from multiple stacks of slices and integrates the features between 2D slices and reconstructed 3D volume using affinity fusion, which resembles the iterations between slice-to-volume registration and volumetric reconstruction in the regular pipeline. The method accurately estimates the motion regardless of brain orientations and outperforms other state-of-the-art learning-based methods on the simulated motion-corrupted data, with a 48.4% reduction of mean absolute error for rotation and 61.3% for displacement. We then incorporated AFFIRM into the multi-resolution slice-to-volume registration and tested it on the real-world fetal MRI scans at different gestation stages. The results indicated that adding AFFIRM to the conventional pipeline improved the success rate of fetal brain super-resolution reconstruction from 77.2% to 91.9%.

8 July 2020 in IEEE Journal of Biomedical and Health Informatics
Verified
Journal Article
Closed access
YLYamin Li
Yamin Li
WSWen Shi
Wen Shi
ZLZhian Liu
Zhian Liu
JLJing Li
Jing Li
QWQiang Wang
Qiang Wang
GWGang Wang
Gang Wang
Brain states are patterns of neuronal synchrony, and the electroencephalogram (EEG) microstate provided a promising tool to non-invasively characterize and analyze the synchronous neural firing. However, the topographical spectral information for each predominate microstate is still unclear during the switch of consciousness, such as sedation, and the practical usage of the EEG microstate is worth probing. Also, the mechanism behind the anesthetic-induced alternations of brain states remains poorly understood. In this study, a novel EEG microstate spectral analysis was utilized using multivariate empirical mode decomposition in Hilbert-Huang transform. The practicability was further investigated in scalp EEG recordings during the propofol-induced transition of consciousness. The process of transition from awake to moderate sedation was accompanied by apparent increases in microstate (A, B, and F) energy, especially in the whole-brain delta band, frontal alpha band and beta band. In comparison to other effective EEG-based parameters that commonly used to measure anesthetic depth, utilizing the selected spectral features reached better performance (80% sensitivity, 90% accuracy) to estimate the brain states during sedation. The changes in microstate energy also exhibited high correlations with individual behavioral data during sedation. In a nutshell, the EEG microstate spectral analysis is an effective method to estimate brain states during propofol-induced sedation, giving great insights into the underlying mechanism. The generated spectral features can be promising markers to dynamically assess the consciousness level.