The first step is to analyze the global characteristics of the graphs representing the M1 networks. The approximate number of grey matter voxels belonging to the left M1 region was ~470. Before and after tDCS, we found that the mean connectivity degree monotonically decreases as the threshold is incremented, which is typical for brain networks
[41]. Additionally, the ratio of the clustering coefficient in the M1 experimental networks compared to random networks is
gamma
1, meaning that local M1 networks efficiently communicate at the local level. On the other hand, when the characteristic path lengths where compared, the ratio between real and random networks (
lambda) showed to be approximately 1, suggesting that M1 has an efficient segregated functional connectivity. With these results, it is not surprising that the ratio
sigma
=
gamma/lambda to be much larger than 1, suggesting that M1 has small-world properties (). Afterwards, all studied global network parameters (mean connectivity degree
K, and the small-world parameters
gamma,
lambda and
sigma) were compared by performing paired t-tests. Here no significant differences were found (P>0.05) at all the studied thresholds
T (). For visualization purposes we show in
figure S2 the left BA4 connectivity matrices for one of the subjects in all of the six resting state conditions (time*stimulation).
The second step was to perform an analysis at the nodal level. Therefore, a threshold common for all subjects was selected as described in detail in the
methods section. The maximum
T that included at least 95% of the nodes in the largest cluster across all of the subjects was
T
=
0.352. Therefore, we used this threshold to build the undirected graphs and subsequently generate volume/surface maps with each network metric (
K,
C and
L) for all of the resting state data-sets before and after tDCS. For visualization purposes, the undirected graph representation for one of the correlation matrices thresholded at
T
=
0.352 is shown in
Figures S3 and
S4. The ANOVAs calculated in the surface space revealed a significant interaction effect (stimulation*time) for the clustering coefficient (Talairach x

=

−40,y

=

−9,z

=

57, peak F-value

=

5.1, p<0.005; cluster size 439 mm
2; ) and the characteristic path length (Talairach x

=

−39,y

=

−11,z

=

55, peak F-value

=

5.9, p<0.005; cluster size 392 mm
2; ). These significant clusters are located in the dorsolateral BA4 and approximately belonging to the arm/hand area according to an fMRI M1 mapping carried out by Meier et al.
[43]. With regard to the connectivity degree, we did not find any interaction effect (). After Monte-Carlo cluster correction (P<0.05) to the paired t-tests statistical clustering coefficient maps after-before of each stimulation condition, we identified one positive cluster in the cathodal stimulation condition (Talairach x

=

−39,y

=

−11,z

=

56, peak t-value

=

5.2, P<0.001; cluster size 499 mm
2; ). The After – Before contrasts applied to anodal and sham conditions did not show any significant cluster. A re-test paired t-test analysis to the contrast After
Cathodal – After
Sham also revealed a positive cluster located at approximately the same location of the ANOVA test (Talairach x

=

−39,y

=

−11,z

=

57, peak t-value

=

5.2, p<0.005; cluster size 468 mm
2; ). T-tests applied to the baselines between conditions did not reveal any significant cluster. The same analysis was repeated for the paired t-tests on the characteristic path length maps. The After
Anodal – Before
Anodal contrast revealed a positive cluster (Talairach x

=

−37,y

=

−13,z

=

53, peak t-value

=

4.7, p<0.005; cluster size 520 mm
2; ). The After – Before contrasts applied to cathodal and sham conditions did not show any significant cluster. A retest paired t-test analysis to the contrast After
Anodal – After
Sham also revealed a positive cluster located at approximately the same location of the ANOVA test (Talairach x

=

−40,y

=

−9,z

=

55, peak t-value

=

4.9, p<0.005; cluster size 451 mm
2; ). T-tests applied to the baselines between conditions did not reveal any significant cluster.
In an exploratory analysis, we investigated whether tDCS applied over the left M1 may have resulted in functional connectivity changes of the contralateral M1. Thus, we repeated the whole analysis (MRI-fMRI pre-processing and graph theory) using the right BA4. However we did not find any significant alterations of functional connectivity with regard to this area (no significant cluster showed up using ANOVA and evaluating the interaction group(anodal, cathodal, sham) * time(pre- and post-tDCS) for any of the nodal network parameters used in the present study (nodal connectivity degree, characteristic path length and clustering coefficient)). This lack of tDCS-induced functional reorganization in the contralateral hemisphere might correlate with a study of Lang and colleagues
[44], where exactly the same electrode size (5×7 cm), stimulation intensity (1 mA) and duration (10 min) were applied; however the investigators failed to find changes of cortical excitability in the opposite hemisphere (also the right M1) – the authors only observed some weak effect in interhemispheric inhibition. One possible explanation for this is that interhemispheric connections have higher thresholds than local cortico-cortical and cortico-spinal connections
[45], hence a lack of contralateral excitability. Additionally, it might be also possible that the intensity of 1 mA is too weak to modulate transcallosal activity. These are important points that should be examined in future studies by combining functional reorganization evaluated with graph theory accompanied by electrophysiological measures.
In a
post-hoc analysis, we investigated whether the tDCS-induced functional connectivity alterations observed in the
C and
L maps depended on the initial functional network metric of each subject. The average of the effect within the cluster (after-before within tDCS) was computed for each subject and then these values were linearly regressed against the baseline value of its respective network metric, e.g. the after-before mean values of the significant cluster found in the
C Maps in the cathodal tDCS condition were regressed against the before cathodal
C maps. The effect of a clustering coefficient increase following cathodal tDCS strongly correlated with the baseline
C (P

=

0.0051; R
2
=

0.46) (). The negative increase in the characteristic path length that was found after anodal tDCS also correlated positively with the baseline metric (P

=

0.002; R
2
=

0.51) (). Regressions applied to the same clusters in the sham condition did not result in any significant correlation.
In a second
post hoc analysis we investigated the reason to have such localized effect of tDCS in the dorsolateral BA4 region (). We hypothesized that the reason for the arm/hand region to be significantly altered by tDCS during rest is that this is the M1 region with the most efficient dynamic architecture. We mapped the nodes that communicate more efficiently independently from stimulation (i.e. before tDCS intervention) within the M1 network. To this end, the average
L maps for all subjects and all before-tDCS fMRI scans were averaged. Nodes with the highest
Lrand/Li values (i.e. nodes that communicate more efficiently within M1) were mapped over the flattened BA4. As an exploratory threshold we used the 15% of the voxels that showed the highest
Lrand/Li values. The largest hub was located at the centre of the flattened BA4 area, which approximately represents the arm/hand area according to an fMRI M1 mapping carried out by Meier et al.
[43] (peak value at Talairach x

=

−36,y

=

−15,z

=

55). Two additional smaller hubs were identified: one belonging to approximately the leg area (cluster at the top of the flattened BA4 (medial BA4); Talairach x

=

−36,y

=

−15,z

=

55); and a second cluster belonging approximately to the face/tongue area (cluster at the bottom-tight of the flattened BA4 (most lateral BA4); Talairach x

=

−36,y

=

−15,z

=

55) according to an fMRI M1 mapping carried out by Meier et al.
[43] ().