Table 2:

Dice metrics of agreement for the automated segmentations of QSM images acquired with different protocols and platforms (PhilA, PhilB and SiemB) using the QSM/T1 multi-atlas pipeline. Left three columns show comparison with manual delineation drawn on Philips protocol A. Right three columns show the inter-protocol comparison.

Dice	With Respect to Manual			Inter-protocol
ROIs	PhilA	PhilB	SiemB	PhilA&PhilB	PhilA&SiemB	PhilB&SiemB
CN	0.85±0.02	0.86±0.02	0.85±0.02	0.93±0.01	0.94±0.01	0.94±0.02
GPi	0.70±0.06	0.70±0.07	0.71±0.07	0.82±0.05	0.85±0.04	0.85±0.05
GPe	0.81±0.03	0.79±0.03	0.80±0.04	0.88±0.02	0.90±0.02	0.90±0.03
Putamen	0.83±0.03	0.83±0.04	0.82±0.04	0.92±0.02	0.93±0.02	0.93±0.02
Thalamus	0.85±0.03	0.85±0.03	0.85±0.03	0.95±0.01	0.95±0.01	0.96±0.01
Pulvinar	0.80±0.04	0.78±0.06	0.79±0.05	0.88±0.03	0.89±0.02	0.91±0.03
STN	0.60±0.10	0.60±0.09	0.60±0.11	0.81±0.04	0.84±0.05	0.82±0.06
SN	0.77±0.03	0.76±0.05	0.74±0.04	0.87±0.01	0.87±0.02	0.87±0.03
RN	0.84±0.03	0.83±0.03	0.83±0.04	0.87±0.03	0.87±0.03	0.88±0.03
DN	0.87±0.02	0.86±0.03	0.86±0.02	0.89±0.02	0.88±0.01	0.89±0.03

Dice metrics are presented as mean ± standard deviation (subject n=6). CN: caudate nucleus, GPi/GPe: globus pallidus externus/internus, STN: subthalamic nucleus, SN: substantia nigra, RN: red nucleus, DN: dentate nucleus

PhilA: Philips protocol A; PhilB: Philips protocol B; SiemB: Siemens protocol B