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Brain Multiphysics
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a r t i c l e i n f o a b s t r a c t
Keywords: The estimation of functional connectivity (FC) from noninvasive electrophysiological data recorded from sensors
Functional connectivity outside the skull requires transforming these data into a source space. As the number of sensors is much lower
Multivariate phase synchronization than the number of electrophysiological sources, the brain activity is usually parcellated into anatomical regions,
Source reconstruction
and the FC between each pair of regions is then estimated.
In this work, we generate a set of simulated scenarios with different configurations and coupling levels between
synthetic time series. Then, this simulated brain activity is converted into simulated MEG sensor-space data and
reconstructed back into the source space. Last, we estimated the FC between different regions using different
approaches commonly used in the literature and compared them with a novel approach.
Our results show that this novel approach, based on using all the information in each region, clearly outperforms
classical approaches based on a representative time series. The proposed approach is more sensitive to the level
of coupling and the extent of the area synchronized, and the resulting estimate better reflects the underlying FC.
Based on these results, we strongly discourage using a representative time series to summarize large brain areas’
activity when calculating FC.
Statement of significance
Functional connectivity is the current framework for understanding brain function. EEG and MEG are acquired
from outside the head, and when estimating source-level activity, the number of sources is much higher than
the number of sensors. As such, the source-level data is highly redundant, hampering the proper estimation of
functional connectivity. Using predefined brain areas instead of individual sources bypasses this problem, but
the leap from the former to the latter is far from trivial. Here we propose a novel approach that, according to
our simulations, correctly estimates the level of functional connectivity between predefined brain areas in several
scenarios. At the cost of a slight increase in computational burden, this solution can help unravel how the healthy
and pathological brain communicates.
1. Introduction resolution [3], allowing for the direct study of neural activations. It
is thus possible, under the hypothesis of phase synchronization (PS)
Electroencephalography (EEG) and magnetoencephalography [4], to look for brain areas whose patterns of neural activation and
(MEG) are two widespread techniques to measure electrophysiological deactivation are phase-locked, resulting in an estimate of functional
brain activity non-invasively [1]. While their spatial resolution is connectivity (FC) [5].
lower than other neuroimaging techniques such as functional mag- To go from the recording sensors to the brain generators, we need to
netic resonance [2], they provide a high millisecond-scale temporal perform some source reconstruction [6]. Initial attempts were based on
∗
Corresponding author at: Department of Experimental Psychology, School of Psychology, Complutense University of Madrid, Pozuelo de Alarcón, Madrid, Spain
E-mail addresses: ricardo.bruna@ctb.upm.es (R. Bruña), eperdepa@ull.edu.es (E. Pereda).
https://doi.org/10.1016/j.brain.2021.100021
Received 30 September 2020; Received in revised form 17 December 2020; Accepted 8 January 2021
2666-5220/© 2021 The Author(s). Published by Elsevier Ltd. This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/)
R. Bruña and E. Pereda Brain Multiphysics 2 (2021) 100021
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R. Bruña and E. Pereda Brain Multiphysics 2 (2021) 100021
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R. Bruña and E. Pereda Brain Multiphysics 2 (2021) 100021
2.6. Multivariate PS approaches In this work, we will evaluate the performance of two multivariate
methods: the average of all the bivariate PS values; and the root-mean-
A second family of approaches base on the algebraic properties of the square of all the bivariate PS values.
pairwise synchronization matrix. If one area contains 𝑀 sources, and the
other contains 𝑁 sources, all the relations between one source from one
3. Results
area and one source from the other can be expressed as an 𝑀 × 𝑁 matrix
of bivariate PS. Operations over this matrix have been used, for example,
As indicated in the Materials and methods section, we have evaluated
to extend the Phase Slope Index [39] into its multivariate counterpart
seven different scenarios with different connectivity profiles, each of
[22].
the scenarios with eleven different real connectivity levels. Each pair of
A straightforward approach to account for all the possible interac-
scenarios and the level of coupling was evaluated using seven different
tions between both areas is to get a single value equal to the average of
approaches. The results obtained using the KHT were identical to those
all the links connecting the areas. That is the average of the entries in
obtained using the PCA and are not displayed here (see Supplementary
the bivariate PS matrix [40,41]. We will term this approach PS-AVG.
Methods for a possible explanation). Here we will only report the most
In the last years, several authors have developed methods to esti-
significant results, but all seven scenarios are depicted, in full, in the
mate the overall intra-area PS from the symmetrical 𝐿 × 𝐿 bivariate
Supplementary Results.
PS matrix describing all the possible pairwise interactions in one area
The first scenario consisted of only two clusters of sources, located
with 𝐿 sources. Using cluster analysis over the PS matrix, it is possi-
bilaterally in the temporal poles and connected with different coupling
ble to identify the clusters of synchronized sources in the area and each
levels. The results for the six different approaches are depicted in Fig. 3.
source’s participation coefficient in each cluster [42]. A straightforward
When only the inter-hemispheric material connection is present, all the
approach to identify this cluster is the eigendecomposition of the matrix,
metrics behave adequately. Fig. 3(a) shows the resulting synchroniza-
where the eigenvectors indicate the participation coefficients of each
tion matrices for the RMS of the bivariate PS (PS-RMS), and Fig. 3(b)
source in each cluster, and the eigenvalues indicate the global variance
shows the inter-area synchronization between temporal lobes for each
explained by the cluster [43,44]. We can then define a global PS (GPS)
approach and coupling. In the bottom part of the Figure (and, in the
measure as the squared summation of the normalized eigenvalues:
same fashion, in the following Figures), the x-axis represents the cou-
√ √ pling level between the simulated signals, ranging from 0 to 100%, while
√ 𝐿 ( )2 √𝐿
√∑ 𝜆 1√∑
𝐺𝑃 𝑆 = √ 𝑖
= √ 𝜆𝑖 2 (5)
the y-axis represents the estimated FC between both temporal poles. We
𝑖=1
𝐿 𝐿 𝑖=1 would expect a straight line for an "ideal" metric, starting at a value
of zero and going up to the maximal PS value between the areas. This
In (5), 𝜆𝑖 is the 𝑖-th eigenvalue of the pairwise PS matrix. maximal value might be one or lower, depending on how we interpret
From this definition, GPS is equal to the normalized Frobenius norm the number of synchronized sources in the area. We will discuss this
of the pairwise PS matrix. As the Frobenius norm can be calculated for interpretation in the Discussion section.
rectangular nonsymmetrical matrices, it is possible to extend the GPS The increase of the measured synchronization with the coupling is al-
definition to get an index of inter-area PS: most linear in all cases. It is possible to observe three groups of metrics:
√ the average PS (PS-AVG), the RMS of the PS (PS-RMS), and the syn-
√ chronization between centroids increase up to synchronization values
√ 𝑁𝐴 𝑁𝐵
∑ ∑
√ 1
𝐺𝑃 𝑆𝐴−𝐵 =√ 𝑃 𝑆𝐵𝑗 −𝐴𝑖 2 (6) of around 0.3; the synchronization of the principal components (PCA)
𝑁𝐴 𝑁𝐵 𝑖=1 𝑗=1 increases up to around 0.5, and the synchronization between the aver-
age time series increases up to around 0.8. The synchronization of the
In (6), 𝑁𝐴 is the number of sources in area 𝐴, and 𝐴𝑖 is the 𝑖-th source sources with the higher power has a behavior similar to PCA, but its
of area 𝐴. As the result is equal to the root-mean-square (RMS) of all the variability is much higher, suggesting this approach might be unreli-
elements in the bivariate PS matrix, we will term this approach PS-RMS. able. Note that, while only the variability (represented as a shadowed
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R. Bruña and E. Pereda Brain Multiphysics 2 (2021) 100021
area) of this approach is visible to the naked eye, this area is represented the synchronization of the centroids drops when the right temporo-
for all the approaches, but its value is much smaller. occipital connection is active, implying that this approach could be un-
The second scenario includes secondary foci of activity in the tem- reliable in some scenarios.
poral poles but not connected to any other region of the brain. This Finally, Fig. 7 shows the value of inter-temporal synchronization
new model’s interest is that the temporal poles have sets of sources with in the seven analyzed scenarios for intermediate (50%) and complete
different activities, simulating heterogeneous brain regions. The results (100%) couplings. It is noteworthy that the approaches based on the
are depicted in Fig. 4, where two different issues arise. First, the repre- root-mean-squared and the average of the bivariate PLV matrix are sta-
sentative time series results using the source with higher power behave ble across the scenarios, while other approaches vary in their estima-
inconsistently and with high variability. We decided to this approach as tions. The approach based on the average time series of the area gives
unreliable from the first and second scenarios and excluded it from the very different results for the first scenario than for the rest.
analysis. Secondly, the approach based on PCA fails to detect the con-
nectivity between the two temporal lobes. As the activity at the tem-
4. Discussion
poral lobes is composed of two different clusters, the first PCA seems
to capture the non-connected activity (likely due to a higher power on
The current source reconstruction methods from EEG and MEG pro-
those sources, as their position is more in-depth into the brain [34]) and
vide detailed spatial information, at the scale of a few millimeters, of
discard the activity related to the coupled sources.
electromagnetic brain activity. Such sources, whose activities are highly
It is possible to avoid this problem by taking several components in-
redundant, are naturally grouped into regions of interest, most often us-
stead of only the first one. Fig. 5(b) shows the measured inter-temporal
ing anatomical landmarks. The reduction of the problem’s dimension-
synchronization using the first component, the RMS of the first two com-
ality is usually accomplished by taking a single time series per region,
ponents (2PCA), and the RMS of the components explaining up to 95%
for example, using an anatomical atlas. However, this popular approach
of the variance of the area (PCA95). In this case, the two first compo-
overlooks that these regions are very different in size, shape, or number
nents explain more than 95% of the brain area’s variance, so the second
of sources. Logically, this heterogeneity suggests that using the same
and third approaches give the same result. In a more general scenario,
method to generate the representative time series for each region (or
the use of a threshold in variance would be superior, as it does not re-
the very idea itself of reducing the dimensionality in this way) may not
quire any a priori knowledge of the number of signals of interest in each
be the best approach to, for example, estimate the FC between two re-
area. Fig. 5(c) depicts the inter-temporal synchronization as measured
gions. In this framework, multivariate FC estimators are a natural al-
using each approach for each level of coupling, after replacing the PCA
ternative as, by definition, they incorporate the information from all
approach for the PCA95 and removing the representative time series
sources within each region. Moreover, these approaches can be applied
with the largest amount of power. PCA95 and RMS behave closely to
reasonably, given the current computational capabilities of a standard
the first scenario, while the rest of the approaches present a drop in the
neuroimaging lab.
measured synchronization.
In this work, and using simulated data, we have analyzed the per-
The next scenarios include one or both temporo-occipital links.
formance of two of such multivariate approaches for different scenarios
Fig. 6(a) to Fig. 6(c) shows the inter-temporal synchronization with the
and coupling levels and then compared them with bivariate estimators
coupling in scenarios 3, 5, and 7. It is important to note that, to reduce
that calculate PS from different versions of representative time series.
the simulated data’s dimensionality, the value of the coupling for the
The simulation results for the basic scenario show that, in the naïve case
temporo-occipital connection was the same that for the inter-temporal
of areas perfectly homogeneous in their activity, all the approaches eval-
one.
uated perform adequately. However, the PS calculated using the source
The behavior of the average and RMS PS are similar in all the scenar-
with the greatest power as a representative of the whole area showed
ios. The methods based on PCA95 and the average time series give sim-
inconsistent results. This result suggests that the selection of this repre-
ilar results when either temporo-occipital connections are present but
sentative time series is strongly affected by noise, and should thus be
drop when both connections appear simultaneously. On the other hand,
avoided.
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R. Bruña and E. Pereda Brain Multiphysics 2 (2021) 100021
The average time series choice shows a behavior slightly different virtually identical, indicate that the approach might be unreliable and
from the rest of the approaches when increasing coupling. While, in highly dependent on the details (likely the location of the activity inside
general, all the approaches steadily increment their estimation with in- the area).
creasing coupling, this approach seems to reach a plateau at around Last, both multivariate approaches (average and RMS of the bivariate
80%. The approach seems, thus, unable to distinguish between differ- PS matrix) show similar behavior, with the average estimating lower
ent values of high coupling. However, this plateau never takes place for connectivity than the RMS. This effect is mathematically congruent, as
the first scenario, where only the coupled activity is present. This be- in the root mean square of a set of numbers the larger numbers dominate
havior is evident in Fig. 7 and could be interpreted as an inconsistency. more than in the average. Both approaches show a steady linear increase
While this approach is not very commonly used for the study of PS, we with coupling, and their behavior is consistent across scenarios, showing
strongly discourage it. high stability in their estimates. While both approaches are similar, the
The (commonly chosen) use of the first PCA as representative time properties of the PS metrics used here (PLV and ciPLV), similarly to
series for the whole area behaves correctly for the basic scenario but coherence, behave more consistently with the squared value than with
fails when the brain areas show a more complex mixture of activities. the original one. For example, PLV is, as all the sample-based estimates,
This result is to be expected, as the first PCA successfully extracts only biased up with small sample sizes, and this bias is proportional to the
one of the region’s activities, ignoring the rest. This limitation can be squared value of PLV [45]. In this light, it makes sense to use the root
overcome using the root-mean-squared value of several components, mean square of the bivariate PLV values to obtain the between-areas
but this approach requires selecting an arbitrary threshold (e.g., 95% PLV value, or even work directly with the squared PLV instead of the
of the total variance, in our case). In the extreme case where we take all raw value (as it is common to work with the squared value of coherence
the components, the result should converge to the bivariate PS matrix’s [46]).
RMS. Analyzing each scenario individually, all the approaches (except for
As representative time series, the centroid shows attractive advan- the source with the greatest power) show a high correlation with the
tages, being one of the most important the simplified source model. As coupling (i.e., a straight increase in estimated PS with increasing cou-
in the first PCA case, this approach behaves correctly in simple sce- pling). However, when comparing the same coupling in different sce-
narios, where only the coupled activity is present. However, in more narios, the calculated synchronization varies considerably for the ap-
complex scenarios, where that amount of information increases, the es- proaches based on representative sources. On the other hand, both the
timated connectivity decreases. Indeed, the centroid gives the lowest PS mean and the RMS of the bivariate PS matrix show high consistency
values of all the approaches in all the scenarios, except for the third one. across scenarios. This consistency might be desired or not, depending on
Moreover, the diverging results in scenarios three and five, which are the interpretation assigned to multivariate PS. If multivariate PS should
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R. Bruña and E. Pereda Brain Multiphysics 2 (2021) 100021
represent the net amount of synchronization between both areas, simi- den introduced by them is an essential factor to consider. The AAL atlas
lar couplings in different scenarios should give the same synchronization used in this work comprises 80 cortical regions and 1210 source po-
levels, as in the case of the mean or the RMS of the bivariate PS matrix. sitions. This configuration gives rise to 3160 pairs of areas and over
On the other hand, if multivariate PS should represent the fraction of 730,000 pairs of sources. The multivariate approaches require the cal-
activity of an area synchronized with other areas, its value should vary culation of all the source-to-source PS, dramatically increasing the re-
in different scenarios, as in the synchronization between average time quired computational power. However, the new computationally algo-
series. Both interpretations are equally valid, but we will take part in rithms for calculating PS allows for estimating whole-brain source to
the first one. source FC in only a few minutes using an average computer [31].
Another property of the multivariate approaches open to interpre- In fairness, some limitations of this work must be highlighted. First,
tation is the amount of synchronized activity in each of the simulated the source model used here is straightforward, with only six sets of
scenarios. In our case, we selected two areas (both temporal poles) with sources generating measurable activity (and the rest of the sources gen-
nine sources each, and defined a cluster of activity comprising three con- erating low-level noise). In a realistic scenario the number of sources
tiguous sources in each area. When the coupling was set to the maximum is much higher, in the order of thousands, and the limited number of
value, it could be argued that the expected synchronization should be sensors is usually unable to disentangle all of them. The selected simu-
one third, as one-third of the sources of one brain area is connected to lations also include a set of chaotic oscillators that, although nonlinear,
one-third of the sources in the other. The RMS of the bivariate PS ma- produce clear phase synchronizations (see the Supplementary Materials
trix seems to give a result close to that. On the other hand, PCA95 cal- for a thorough evaluation of these couplings). In a real-world scenario,
culates the root-mean-squared of a reduced bivariate PS matrix, where the couplings between different parts of the brain will be more involved,
each element represents the synchronization between components, and and the PS algorithms might be unable to capture them correctly. Last, in
the information of how many sources take part in this component is re- our simulations we used a single orientation per source position, namely
moved, giving as a result a higher synchronization value. Again, both the higher signal-to-noise ratio in the forward model, so the source ori-
interpretations are valid, but we will take part in the first one. entation is determined. In a realistic scenario the sources’ orientation
While our interpretation of area to area FC favors the estimations ob- is unknown, and FC estimations should not be affected by the selected
tained using the purely multivariate scenarios, the computational bur- coordinate system (this is, should be insensitive to rotations of the coor-
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R. Bruña and E. Pereda Brain Multiphysics 2 (2021) 100021
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