WM Report 161122
WM Report 161122
WM Report 161122
Mengli Feng
University of Amsterdam
Nov, 2022
©Copyright by Mengli Feng 2022
All Rights Reserved
Abstract
Recent scientific development has led to opportunities to study the computational
mechanisms of cognitive functions which involve multiple interacting brain areas.
One of the cognitive functions brought to the centre of the stage by this trend of
research is working memory. Evidence from neural recordings has shown co-occurrent
activities of different brain regions during working memory. To better determine the
role of the coordination of different brain areas in working memory and its underlying
mechanism, a computational model of the human cortical network was built. The
model is constrained by anatomical data in both long-range connections and local
circuitry. By adding gradient excitation across cortical hierarchy, attractor states were
observed within the large-scale cortical model, which explains distributed working
memory. The model opens up opportunity for future research of working memory
mechanisms in human brain and clinical applications.
Acknowledgments
I would like thank Dr. Abhirup Bandyopadhyay for working with me on this
project, and members of CSN lab for their support and help.
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Contents
1 Introduction 1
1.1 Prior research . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1
1.2 Objectives . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2
1.3 Research Questions/ Hypothesis/ Intended Results . . . . . . . . . . 3
2 Method 5
2.1 Concepts . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5
2.1.1 Cortical Hierarchy . . . . . . . . . . . . . . . . . . . . . . . . 5
2.1.2 Feedforward/Feedback Projections . . . . . . . . . . . . . . . 6
2.1.3 Spine Counts . . . . . . . . . . . . . . . . . . . . . . . . . . . 6
2.1.4 FLN . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6
2.1.5 SLN . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6
2.1.6 CIB . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6
2.1.7 Gradient . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6
2.1.8 Receptor Density . . . . . . . . . . . . . . . . . . . . . . . . . 7
2.2 anatomical data . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 7
2.2.1 connectivity strength . . . . . . . . . . . . . . . . . . . . . . . 7
2.2.2 hierarchy . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 7
2.2.3 feedforward/feedback projections . . . . . . . . . . . . . . . . 7
2.2.4 Gradient . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 8
2.3 Model overview . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 9
2.4 Simulations and analysis . . . . . . . . . . . . . . . . . . . . . . . . . 11
2.4.1 Sensory input . . . . . . . . . . . . . . . . . . . . . . . . . . . 11
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2.4.2 working memory tasks . . . . . . . . . . . . . . . . . . . . . . 13
2.4.3 Hierarchy linearity . . . . . . . . . . . . . . . . . . . . . . . . 13
2.4.4 functional connectivity . . . . . . . . . . . . . . . . . . . . . . 13
2.4.5 macaque model . . . . . . . . . . . . . . . . . . . . . . . . . . 14
2.5 Model Specification . . . . . . . . . . . . . . . . . . . . . . . . . . . . 14
2.5.1 Local Circuit . . . . . . . . . . . . . . . . . . . . . . . . . . . 14
2.5.2 Gradient . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 16
2.5.3 Interareal connection . . . . . . . . . . . . . . . . . . . . . . . 16
2.5.4 Hemodynamic transformation . . . . . . . . . . . . . . . . . . 18
3 Results 19
3.1 Distributed working memory in human brain . . . . . . . . . . . . . . 19
3.2 𝐺 − 𝛼 parameter space . . . . . . . . . . . . . . . . . . . . . . . . . . 20
3.3 Robust working memory to distractors . . . . . . . . . . . . . . . . . 22
3.4 Stronger functional connectivity in higher areas . . . . . . . . . . . . 22
3.5 Comparison to macaque model . . . . . . . . . . . . . . . . . . . . . 24
3.6 Effect of hierarchy linearity . . . . . . . . . . . . . . . . . . . . . . . 25
4 Discussion 29
4.1 Limitation . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 30
4.2 Future Directions . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 31
A Appendix 33
B Appendix 35
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List of Figures
2-2 Model Schematics for human model and demonstration of neural dy-
namics from previous macaque model. A. Local Circuit with two ex-
citatory and one inhibitory population B. Interareal connections with
excitation-dominated feedforward projections and inhibition-dominated
feedback projections. C. Bifurcation diagram for local circuit plotted
against different 𝐽𝑆 values and the neural dynamics of the circuit for a
𝐽𝑆 value above the bifurcation point. D. Firing rates temporal dynam-
ics across cortical areas (Macaque model). E. Macaque cortical areas.
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 11
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2-3 Anatomical Data for human model. A. T1:T2 ratio. B. NMDA recep-
tor density. left panel shows the map for parcellation in [14]. Right
panel shows the map we generated for the parcellation we are using
in the current study [7]. C. parcellation used for current study. D.
Correlation between T1:T2 ratio and NMDA receptor density. E. con-
nectivity strength for 180 human cortical areas. . . . . . . . . . . . . 12
3-2 Activity spatial map across parameter space. A. activity map with
different 𝛼 (0 - 1) and 𝐺 (0.5 - 1) values. B. number of areas in
working memory states during delay period across parameter space
(𝐺0.6 = 1.2, 𝛼 = 0 − 1). C. map of experimental evidence. . . . . . . 21
3-3 Working memory tasks with distractors. A. working memory task with
an auditory-go-signal. B. working memory task with a visual distrac-
tor. The top panel shows the scheme of the task. The middle panel
shows the temporal dynamics of the input areas (A1 and V1). The
bottom panel shows the temporal dynamics of the higher areas (PGS) 23
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3-5 Comparison between macaque and human data. A. macaque anatomi-
cal data. B. human anatomical data. From left to right are: 1) connec-
tivity strength matrix, 2) FF strength matrix, 3) FF strength plotted
against hierarchy values of the target areas, 4) Hierarchy values sorted
from low to high . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 25
3-6 Comparison between macaque and human simulation results. A. sim-
ulation results for macaque model. B. simulation results for human
model. C. box-plot of firing rates in five cortical lobes from the simula-
tions results of the two models. PRE: prefrontal, FON: frontal, PAR:
parietal, TEM: temporal, OCC: occipital . . . . . . . . . . . . . . . . 26
3-7 Effect of hierarchy linearity on simulation results. A. hierarchy without
nonlinear transformation. B. hierarchy with non-linear transformation
(𝐻 = 𝑙𝑜𝑔10(ℎ + 𝑏) for 𝑏 = 0.1). C. hierarchy with non-linear transfor-
mation (𝑏 = 0.05) . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 27
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List of Tables
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Chapter 1
Introduction
1
rent project aims at building a large-scale cortical network model to simulate human
working memory.
1.2 Objectives
The fist objective of the project is to build the human brain model using biological
data to constrain it. For basic elements of the model, such as local circuit dynamics,
we follow the steps of a previous model of distributed working memory in macaques
[19]. However, the different nature of the data in other aspects, such as the large-scale
connectivity, leads to several challenges in the model building compare to the case of
the macaque. To begin with, there is no direct data on gradient of excitatory synap-
tic strength across cortical areas for human. One possibility is to use the hierarchy
inferred by T1/T2 weighted MRI data [7], which was proven to be an accurate proxy
to anatomical hierarchy in primate’s brain [3], and then assume that this anatomical
hierarchy is a good proxy for the gradient of excitatory strength [4, 19]. Another op-
tion is to approximate the gradient using recently measured NMDA densities cortical
across areas [14]. Second, there are much more areas in human brain compared to
macaque brain, with very different topology, which may require different treatment
to the model. In the end, we expect the model to be adjusted to a working regime,
where distributed working memory patterns emerge. The second objective is to ap-
proach the experimental evidence of fMRI patterns during working memory tasks,
which may requires further treatment of the data and tuning of the parameters. The
third objective is to use the model to explore the mechanism of how working memory
of an object can be decoded from activity of early visual areas. Previous experimen-
tal study showed late enhancement of the sensory response after receiving a stimuli
[27]. Specifically, we would like to see how long-range feedback from higher areas
contribute to this phenomenon.
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1.3 Research Questions/ Hypothesis/ Intended Re-
sults
The main research question in the project is whether and how a large-scale cortical
model can account for distributed working memory in human brain. This leads to the
following sub-questions: 1. how human data affect the model behaviour and whether
the model would behave similarly to the macaque model. 2. Do the same hypothesis
in macaque model hold for human model?
It is hypothesized that with hierarchical inter-areal and local connections based
on neuroimaging data, the model can simulate distributed neural activities during
working memory tasks. The expectation is that the simulations from the model should
be able to produce results that are comparable to experimental results, although
we also expect some discrepancies because of limitations in knowledge of human
connectomes.
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Chapter 2
Method
2.1 Concepts
Before introducing the model, I would like to define some key concepts to lay a
foundation for explaining the model.
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2.1.2 Feedforward/Feedback Projections
Following the idea of cortical hierarchy, the projections from lower to higher areas
is conceptualized as feedforward (FF), while the projections from higher to lower
areas is considered feedback (FB).
Spine counts are the measurement of the number of apical dendritic spines.
2.1.4 FLN
In macaque model, the connectivity strengths are adopted from track tracing data,
which measure the fraction of neurons in the target area labeled by retrograde tracer
injected at the source area, or in short, the fraction of labeled neurons (FLN) [19].
2.1.5 SLN
In macaque model, the feedforward connection strengths were derived from the
measurement of the number of labeled neurons located on the supragranular layer
of a given source area in a tract tracing study. Dividing this number over the total
number of labeled neurons from a source area, we can define the supragranular layered
neurons (SLN) as the feedforward strength from that source area to the target area.
2.1.6 CIB
CIB stands for counter-stream inhibitory bias, which refers to gradual preferential
targeting onto inhibitory neurons by top-down (feedback) projections. In the macaque
model, CIB is expressed in 1 − 𝑆𝐿𝑁 .
2.1.7 Gradient
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model, the gradient is taken from direct measurement of spine counts, supplemented
by hierarchy value when spine counts data is not available.
The overall connection strengths between areas are established upon white matter
connectome data measured from diffusion imaging. [7]. Since it is diffusion imaging
data, it is unidirectional, which is different from bidirectional macaque connectivity
data.
2.2.2 hierarchy
Unfortunately, there is no tract tracing data like SLN available for human brain.
Prior research shows an negative correlation between T1w/T2w MRI map values and
cortical hierarchy in macaque [3]. In the current study, we used the hierarchy values
derived from T1w/T2w map by Demirtas et al [7] as an estimation of hierarchy.
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Specifically, we make the following assumptions: 1. when the target area are at
the same hierarchy as the source area, the FF strength from source to target is 0.5.
2. as the hierarchical distance between target and source areas increases, depend-
ing on whether source area is lower/higher than the target area, the FF strength
increases/decreases from 0.5.
Based on those two basic assumptions, we derived two versions of FF and FB
maps. The first one further assumes that for source areas at different hierarchies, the
relationship between hierarchical distance and FF strength is always linear. This leads
to a double convergence scheme as shown in . For the second version, we allow step-
wise nonlinear relationship between hierarchical distance and FF strength when source
area in not at 0.5 hierarchy. In this scheme, when source area moves up hierarchy
from 0.5, the FF strength drops/increases faster with increasing hierarchical distance,
leading to increasing areas with FF strengths of 0/1. This goes in the opposite way
when source area moves down hierarchy from 0.5. Intuitively, it means when an area
moves up hierarchy, it gives increasingly less FF inputs to target areas. As as shown
in , such scheme behaves in a double-divergent way.
To choose a more appropriate scheme, we made a comparison between the hier-
archy - FF strength relation defined here and that for macaque, shown in fig. The
idea is to find a scheme that approximates the relation used in macaque model. To
avoid the influence of hierarchy linearity, we made a non-linear transformation to the
human cortical hierarchy so that it resembles macaque cortical hierarchy. As can be
seen, the second scheme is more close to the relation for macaque, we therefore decide
to use it in the current model.
2.2.4 Gradient
For human brain, there is no spine counts data available for approximating the
gradient. Recently, Hansen et al. [14] measured NMDA receptor density in human
brain. Since glutamate binds to NMDA receptors to produce excitatory responses,
we can use NMDA receptor density as a proxy for gradient.
The NMDA receptor density map for parcellation with 34 areas [14] (Fig 2-3 B)
8
A
FF
B
FF FF
C FF
Figure 2-1: FF ratio derivation process. A. macaque FF strength. The left panel
shows the ratio of FF projections for all macaque cortical areas, sorted by hierarchy
values. The right panel plots FF ratio against the hierarchy values for each target
areas. color coding indicating the hierarchy values of for different source areas (red-
green-purple: low to high) B. different FF derivation scheme from human T1:T2
data. The first pair shows the convergent scheme with a linear hierarchy. The second
pair shows the convergent scheme with a non-linear hierarchy. The third pair shows
the divergent scheme with a nonlinear hierarchy. C. final FF derivation, which is a
divergent scheme with linear hierarchy
.
is mapped to the 180 area parcellation for hierarchy values [7] (Fig 2-3 A).
9
The local circuit comes from a firing rate model is based on a firing rate model for
working memory and decision making [32], which includes two excitatory population
and one inhibitory population. During a task, the stimulus goes to the excitatory
populations and the one which received stronger input will win and reach high activity
while the other population will be silent, as shown in fig. The high firing activity of
the winning population will persist in the delay period after the input is gone, which
resembles working memory states. Three important ingredient for working memory in
the local circuit are: 1. Shared inhibition. The two excitatory populations competes
through the common inhibition, resulting in one winner population having sustained
firing activity which gives rise to working memory. 2. Slow recurrent dynamics. The
dynamics is slow enough so that evidence accumulation can be account for, meaning
if the input is too short, the working memory state is not reached. 3. Recurrent
excitation. Only if 𝐽𝑠 /𝐽𝑐 is large enough that the excitation is stronger than the
feedback inhibition. When 𝐽𝑠 exceeds a certain threshold, the winner-take-all decision
making and the follow-up working memory state emerge. This can be understood as
the system reaching bifurcation point, as show in fig. In the macaque model, the
bifurcation occurs once 𝐽𝑆 exceeds around 0.46.
10
A Background input
C Input period Delay period
Js
Js
E I E
External Input Jc
D E
B
Figure 2-2: Model Schematics for human model and demonstration of neural dy-
namics from previous macaque model. A. Local Circuit with two excitatory and
one inhibitory population B. Interareal connections with excitation-dominated feed-
forward projections and inhibition-dominated feedback projections. C. Bifurcation
diagram for local circuit plotted against different 𝐽𝑆 values and the neural dynamics
of the circuit for a 𝐽𝑆 value above the bifurcation point. D. Firing rates temporal
dynamics across cortical areas (Macaque model). E. Macaque cortical areas.
.
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A B
C D E
Figure 2-3: Anatomical Data for human model. A. T1:T2 ratio. B. NMDA receptor
density. left panel shows the map for parcellation in [14]. Right panel shows the
map we generated for the parcellation we are using in the current study [7]. C.
parcellation used for current study. D. Correlation between T1:T2 ratio and NMDA
receptor density. E. connectivity strength for 180 human cortical areas.
.
population of the local circuit in those areas with an intensity of 0.3 nA for 0.5 second.
See appendix Fig A-1
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2.4.2 working memory tasks
A simple visual delayed response task task is used to test the model performance,
where a transient (0.5 second) excitation is given to a selective neural pool of the
chosen visual areas and observations are made on the delay period. To further eval-
uate the robustness of the model, we also simulated two more complicated working
memory tasks that are comparable to real experiments, shown in fig. For both tasks,
a participant is asked to remember the position (left or right) of a triangle shown on
a screen. After a fixation period, the stimulus is shown on the screen for a brief time
(0.5 second) and disappears. There is a delay period of 5 seconds, then the participant
is either cued by a brief (0.1 second) binaural auditory stimulus (auditory go-signal)
or distracted by a visual stimulus shown on the opposite side of the screen (distrac-
tor) before asked to report the position of the visual stimuli they originally see. For
the auditory-go-signal, we give inputs (c = 0.3 nA) to both excitatory populations
of seven auditory areas (‘A1’, ’RI’, ’TA2’, ’PBelt’, ’MBelt’, ’LBelt’, ’A4’). For the
visual distractor, we give inputs (c = 0.3 nA) to the opposing excitatory population
of the visual areas.
The functional connectivity is calculated from cross correlations between time se-
ries of BOLD signals derived from that of conductance for each pair of areas. See
2.5.4 for description of the balloon model for hemodynamic transformation from con-
ductance to BOLD signals.
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2.4.5 macaque model
The macaque model is taken from the recent study by Mejias and Wang to compare
with the human model [19]. It includes 30 areas in macaque neocortex. The local
circuit and interareal connection rules are identical with the ones used in human.
Ratio of feedforward and feedback projection strength are determined by SLN 2.1.5.
The connectome is taken from tract-tracing data (see FLN 2.1.4). Hierarchy is based
on spine counts 2.1.3 data. For areas where spine counts data are not available,
hierarchy values derived from SLN are used. For simulations, inputs go to V1 with
same length and strength as in human model.
The local circuit is based on the Wong and Wang’s decision making model [32].
The three variable version is adopted with one inhibitory population and two selec-
tive excitatory populations (2-2 A). The three populations are fully connected and
with self-recurrent connections. The interactions of the populations are described as
follows:
𝑑𝑆𝐴 𝑆𝐴
=− + 𝛾 (1 − 𝑆𝐴 ) 𝑟𝐴 (2.1)
𝑑𝑡 𝜏𝑁
𝑑𝑆𝐵 𝑆𝐵
=− + 𝛾 (1 − 𝑆𝐵 ) 𝑟𝐵 (2.2)
𝑑𝑡 𝜏𝑁
𝑑𝑆𝐶 𝑆𝐶
=− + 𝛾𝐼 𝑟𝐶 (2.3)
𝑑𝑡 𝜏𝐺
𝑆𝐴 , 𝑆𝐵 and 𝑆𝐶 are the NMDA conductance of selective excitatory populations and
GABA conductance of the inhibitory population respectively. The time constants are
𝜏𝑁 = 60𝑚𝑠, 𝜏𝐺 = 5𝑚𝑠, 𝛾 = 1.282 and 𝛾𝐼 = 2. 𝑟𝐴 , 𝑟𝐵 and 𝑟𝐶 are mean firing rates of
excitatory and inhibitory populations, given as follows:
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𝑑𝑟𝑖
𝜏𝑟 = −𝑟𝑖 + 𝜑𝑖 (𝐼𝑖 ) (2.4)
𝑑𝑡
The time contant 𝑡𝑎𝑢𝑟 = 2𝑚𝑠. The currents 𝐼𝑖 are given by:
𝐴
𝐼𝐴 = 𝐽𝑆 𝑆𝐴 + 𝐽𝐶 𝑆𝐵 + 𝐽𝐸𝐼 𝑆𝐶 + 𝐼0𝐴 + 𝐼𝑛𝑒𝑡 + 𝑥𝐴 (𝑡) (2.5)
𝐵
𝐼𝐵 = 𝐽𝐶 𝑆𝐴 + 𝐽𝑆 𝑆𝐵 + 𝐽𝐸𝐼 𝑆𝐶 + 𝐼0𝐵 + 𝐼𝑛𝑒𝑡 + 𝑥𝐵 (𝑡) (2.6)
𝐶
𝐼𝐶 = 𝐽𝐼𝐸 𝑆𝐴 + 𝐽𝐼𝐸 𝑆𝐵 + 𝐽𝐼𝐼 𝑆𝐶 + 𝐼0𝐶 + 𝐼𝑛𝑒𝑡 + 𝑥𝐶 (𝑡) (2.7)
𝑑𝑥𝑖 √
𝜏𝑛𝑜𝑖𝑠𝑒 = −𝑥𝑖 + 𝜏𝑛𝑜𝑖𝑠𝑒 𝜎𝑖 𝜉𝑖 (𝑡) (2.8)
𝑑𝑡
𝜎𝑖 , 𝜎𝐵 and 𝜎𝐶 are the noise strength for population A, B and C. Parameter values
are 𝜏𝑛𝑜𝑖𝑠𝑒 = 2𝑚𝑠, 𝜎𝐴,𝐵 = 0.005𝑛𝐴, 𝜎𝐶 = 0.
The transfer functions 𝜑𝑖 for the currents of different populations are given as
follows:
1 𝑎𝐼 − 𝑏
𝜑𝐴,𝐵 (𝐼) = (2.9)
2 1 − exp[−𝑑(𝑎𝐼 − 𝑏)]
15
[︃ ]︃
1
𝜑𝐶 (𝐼) = (𝑐1 𝐼 − 𝑐0 ) + 𝑟0 (2.10)
𝑔𝐼 +
The parameter values for equation 2.9 are 𝑎 = 135𝐻𝑧/𝑛𝐴, 𝑏 = 54𝐻𝑧 and 𝑑 =
0.308𝑠. The parameter values for equation 2.10 are 𝑔𝐼 = 4, 𝑐1 = 615𝐻𝑧/𝑛𝐴, 𝑐0 =
177𝐻𝑧 and 𝑟0 = 5.5𝐻𝑧. The notation [𝑥]+ denotes rectification.
2.5.2 Gradient
The synaptic strength 𝐽𝑠 for different cortical areas are regulated by hierarchy
values (ℎ𝑖 ) as follows:
𝐽𝑆 (𝑖) = 𝐽min + (𝐽max − 𝐽min ) ℎ𝑖 (2.11)
Here, 𝐽𝑚𝑖𝑛 is set to 0.205. To maintain the excitatory input (and therefore the
spontaneous activity level S) constant while varying Js across areas, we have to keep
the quantity 𝐽𝑆 + 𝐽𝐶 + 2𝐽𝐸𝐼 𝐽𝐼𝐸 𝜁 ≡ 𝐽0 constant, from which we derived the following
relationship between the synaptic strength from excitatory population to inhibitory
population (𝐽𝐼𝐸 ) and the recurrent excitatory synaptic strength (J𝑆 ).
1
𝐽𝐼𝐸 = (𝐽0 − 𝐽𝑆 − 𝐽𝐶 ) (2.12)
2𝐽𝐸𝐼 𝜁
𝜏𝐺 𝛾𝐼 𝑐1
𝜁= (2.13)
𝑔𝐼 − 𝐽𝐼𝐼 𝜏𝐺 𝛾𝐼 𝑐1
16
of each source area, which are the product of connectivity strength from source area 𝑦
to target area 𝑥 (𝑊 𝑥𝑦 ), ratio of feedforward strength from source area to target area
𝑦
(𝐹 𝐹 𝑥𝑦 ) and the conductance of the source area (𝑆𝐴/𝐵 ). This sum of inputs is then
multiplied by the global coupling strength 𝐺. For the inhibitory population in an
𝑥
target area, the current input 𝐼𝐶,𝑛𝑒𝑡 is a sum of the product of connectivity strength
between source area and each target area, the feedback ratio ((1 − 𝐹 𝐹 𝑥𝑦 ) between
source area and each target area, and the sum of the conductance of the excitatory
populations of each target area (𝑆𝐴𝑦 + 𝑆𝐵𝑦 ). This is regulated by global coupling
strength, the E-I balancing factor 𝑧 and the counterstream inhibitory strength, 𝛼.
𝑥
𝑊 𝑥𝑦 𝐹 𝐹 𝑥𝑦 𝑆𝐴𝑦
∑︁
𝐼𝐴,𝑛𝑒𝑡 =𝐺 (2.14)
𝑦
𝑥
𝑊 𝑥𝑦 𝐹 𝐹 𝑥𝑦 𝑆𝐵𝑦
∑︁
𝐼𝐵,𝑛𝑒𝑡 =𝐺 (2.15)
𝑦
𝐺 ∑︁ 𝑥𝑦
𝑥
𝐼𝐶,𝑛𝑒𝑡 =𝛼 𝑊 (1 − 𝐹 𝐹 𝑥𝑦 ) (𝑆𝐴𝑦 + 𝑆𝐵𝑦 ) (2.16)
𝑧 𝑦
2𝑐1 𝜏𝐺 𝛾𝐼 𝐽𝐸𝐼
𝑍= (2.17)
𝑐1 𝜏𝐺 𝛾𝐼 𝐽𝐼𝐼 − 𝑔𝐼
17
2.5.4 Hemodynamic transformation
𝑑𝑥(𝑡)
= 𝑆 𝐸 (𝑡) − 𝑘𝑥(𝑡) − 𝛾(𝑓 (𝑡) − 1) (2.19)
𝑑𝑡
𝑑𝑓 (𝑡)
= 𝑥(𝑡) (2.20)
𝑑𝑡
𝑑𝑣(𝑡) 1
𝜏 = 𝑓 (𝑡) − 𝑣 𝛼 (𝑡) (2.21)
𝑑𝑡
𝑑𝑞(𝑡) 𝑓 (𝑡)
[︂ (︂ )︂]︂
1 (︁ 1
)︁
𝜏 = 1 − (1 − 𝜌) 𝑓 (𝑡) − 𝑞 𝑣 𝛼 −1 (𝑡) (2.22)
𝑑𝑡 𝜌
[︃ (︃ )︃ ]︃
𝑞(𝑡)
𝑦(𝑡) = 𝑉0 𝑘1 (1 − 𝑞(𝑡)) + 𝑘2 1− + 𝑘3 (1 − 𝑣(𝑡)) (2.23)
𝑣(𝑡)
18
Chapter 3
Results
Our first goal is to simulate a visual stimulation task to determine whether per-
sistent firing rate activity emerges in our human brain model (see Methods), and
whether such activity is local or distributed. Our simulations show that, for certain
combinations of parameters, our simulation results show distributed working mem-
ory in the human brain. With 𝐺 = 0.72 and 𝛼 = 0.5, most of the brain areas reach
bistable states in the delay period of the visual response task when 𝐽𝑆 for all areas are
below bifurcation point (𝐽𝑚 𝑎𝑥 = 0.28). The resultant firing rates are quasi-linearly
distributed across a range from 0 to 57 spikes/second, which is consistent with the
cortical hierarchy and gradient we applied to the model. Fig 3-1 A shows the firing
rate patterns across cortical areas during input period (left) and delay period (right),
from which we can see that the areas higher in the hierarchy are able to maintain
a certain level of persistent activity while the early visual areas go silent during the
delay period. In fig, we can see that there are differences among the firing patterns in
different functional networks. Specifically, cinguo-opercular network (CON), dorsal
attention network (DAN) and frontoparietal network (FPN) show higher activities
than the other networks.
19
A B C
Figure 3-1: Distributed working memory in human brain. A. spatial activity map
during visual stimulation (left) and delay period (right). B. Firing rates across areas
sorted by hierarchy. C. Activity of selected areas during working memory tasks. D.
Activity of areas in eight different functional network, including three sensory (AUD,
auditory; VIS, visual; and SOM, somatomotor) and five association (DAN, dorsal
attention; FPN, frontoparietal; VAN, ventral attention; DMN, default mode; and
CON, cingulo-opercular) networks.
.
To find a working regime of the model, we tried adjusting three parameters: the
global coupling strength (𝐺), the counterstream inhibition strength (𝛼), and the
maximum value of the gradient, 𝐽𝑚 𝑎𝑥. After finding a parameter sets that worked,
we explored the parameter space over 𝐺 and 𝛼 to find out how those two parameters
affect the firing rate patterns and in which regime the system behaviour most similar
to experimental evidence. Fig 3-2 A and B shows the firing rate patterns across the
20
parameter space of 𝐺 and 𝛼. In general, the firing rates and the number of areas
reaching working memory states increase with increasing 𝐺 and decreasing 𝛼, which
is consistent with what was observed in macaque model. There are two unexpected
observations. 1. when there is no counterstream inhibition (𝛼 = 0), there is a sudden
drop of FR activity, which might be a result of the gradient taking over control the
system. 2. there is narrow regime in the middle of the parameter space where there
is a sudden drop of FR activity. We suspect it might because of the deactivation
of some key hubs within the network caused by the anti-correlation between global
property (T1:T2 ratio) and cellular property (NMDA receptor density), which awaits
for further investigation.
Fig 3-2 C shows the experimental evidence map, with color coding representing
the number of evidence (normalized to 0-1) found for each area. We can see that there
are a lot of overlaps between the evidence map and our simulation results, especially
around temporal, frontal and prefrontal lobes. Details of literature can be found in
Appendix B-1.
A B
Alpha: strength of inhibition
G: global coupling
Figure 3-2: Activity spatial map across parameter space. A. activity map with dif-
ferent 𝛼 (0 - 1) and 𝐺 (0.5 - 1) values. B. number of areas in working memory states
during delay period across parameter space (𝐺0.6 = 1.2, 𝛼 = 0 − 1). C. map of
experimental evidence.
.
21
3.3 Robust working memory to distractors
While a piece of information is held in mind before being used for execution of
cognitive tasks, the brain has to maintain it against internal noises and distraction of
other irrelevant incoming information. To test the robustness of working memory in
our model, we designed two tasks, one with an auditory-go-signal and another with
a visual distractor. In a working memory task, an auditory-go-signal is usually a
short tone presented after the delay period to cue the participants to record what
they remembered. A visual distractor, on the other hand, gives a short presentation
of a different visual stimuli from the original one. We would like to make sure such
signals would not drag the system out of attractor state. Our simulations show that
higher cortical areas can sustain its working memory state even with the distractors.
As can be seen in Fig 3-3, after a small and brief perturbation, the neural activity of
the population receiving the original inputs went back to the same level before the
perturbation. The results confirmed the robustness of the model.
22
A B
Go
L R L R L R L R
Visual cue Auditory go signal Visual cue Visual Distractor
Figure 3-3: Working memory tasks with distractors. A. working memory task with
an auditory-go-signal. B. working memory task with a visual distractor. The top
panel shows the scheme of the task. The middle panel shows the temporal dynamics
of the input areas (A1 and V1). The bottom panel shows the temporal dynamics of
the higher areas (PGS)
.
23
A
Conductance BOLD signal
Ballon model
B C
Resting state Working memory state
Figure 3-4: Functional connectivity for resting and working memory states. A. scheme
of hemodynamic transformation. B. functional connectivity in resting state. C. func-
tional connectivity iin working memory state
.
By comparing macaque and human data (Fig 3-5), we can found following dif-
ferences. To begin with, there are much more areas included in the human model
(n = 180) than macaque (n = 30). For connectivity, interareal connections (density
= 0.99) are denser than that for macaque (density = 0.65). For hierarchy values,
those for human are more linear than for macaque. For FF/FB ratio, human data
are derived from hierarchy and do not contain noise compared to macaque data. We
also made a preliminary comparison between the firing patterns for the two models.
As can be seen in Fig 3-6, two simulations share similar patterns, with higher activity
24
around temporal lobe, frontal lobe and parietal lobe. In frontal and temporal lobe,
the firing activity is significantly lower for human than macaque model.
Figure 3-5: Comparison between macaque and human data. A. macaque anatomical
data. B. human anatomical data. From left to right are: 1) connectivity strength
matrix, 2) FF strength matrix, 3) FF strength plotted against hierarchy values of the
target areas, 4) Hierarchy values sorted from low to high
.
25
A B C
0 40
Figure 3-6: Comparison between macaque and human simulation results. A. simula-
tion results for macaque model. B. simulation results for human model. C. box-plot
of firing rates in five cortical lobes from the simulations results of the two models.
PRE: prefrontal, FON: frontal, PAR: parietal, TEM: temporal, OCC: occipital
.
26
A B C
27
28
Chapter 4
Discussion
Recent evidence has shown activation of multiple cortical areas in working memory
tasks [17] [5] [28], which calls for computational models that promote understanding
of the underlying mechanism. Within the current study, we build a cortical net-
work model which can give arise to distributed working memory states in human
brain, where multiple cortical areas maintain sustained activity in the delay period of
working memory tasks. Constrained by human anatomical data, the activity map ap-
proximate the experimental evidence. We showed that the system is robust to noises
and distractors, and the firing patterns across areas is similar to that for macaque
model. Those results provide further evidence to the underlying mechanisms of dis-
tributed working memory we assumed, including interareal connections, cortical hier-
archy, gradient and feedback inhibition. Interareal connectivity provides a foundation
for the neural activity started in sensory areas to propagate across the brain. The
cortical hierarchy and gradient allow the firing activity to accumulate along the hi-
erarchy which lead to working memory sates emerging in higher areas. The feedback
inhibition suppresses firing activity in lower areas, to maintain a hierarchical activity
pattern, avoiding overflow of energy and information. The current model extends pre-
vious small cortical models [21] into a large-scale model which enables much stronger
explanatory power.
The model provides possibility of further investigation of working memory mecha-
nisms, the cognitive abilities that supported by working memory and facilitate clinical
29
interventions. By replicating a wide range of working memory tasks and finding the
discrepancies between simulation results and evidence, we can pose new hypothesis
to the model and further improve the understanding of neural mechanism of working
memory. As an executive function, working memory supports many other cognitive
functions, ranging from reasoning, learning and language comprehension [6]. With our
model, we may probe how working memory affects those functions by analysing activ-
ities of different functional networks. To study learning and cognitive development,
we may also integrate learning rules for the local connections and the developmen-
tal change of the global connectivity. There are neurological pathologies which are
linked to working memory. For example, studies have shown reduced working mem-
ory performance in schizophrenia. More importantly, such deficit are found to start
from a early course [16]. By using human working memory cortical model to find out
the underlying neural mechanism of working memory deficit, we can potentially make
predictions of the development of schizophrenia and help with targeting cortical areas
during treatment in the early phase.
4.1 Limitation
There are also a few limitations we need to consider. First is that there are certain
constraints to the anatomical data we are using. The connectome data is measured
from diffusion imaging, therefore do not indicate directionality. The hierarchy data
is not a direct measurement of FF and FB projection and may lack of accuracy. The
NMDA receptor density data used here can be a mixed measurement for receptors
that is on both inhibitory population and excitatory population, therefore may not
accurately approximate the gradient of local recurrent excitation strength. With more
informed and accurate data in the future, we can make further improvement to the
model to make it more biologically realistic.
We also need to consider that the model is not incorporating functional hetero-
geneity of different brain areas. In reality, some functional network may not function
to perform working memory tasks [29]. Furthermore, attention plays a role in encod-
30
ing, maintaining and manipulating information in working memory [1]. The effect of
attention is not incorporated in the current model, which may change how different
area respond to the tasks.
The model only include cortical areas. However, some sub-cortical areas such as
thalamus can play an important role in working memory [22]. This should be noted
when interpreting the simulation results.
Finally, the current theoretical framework proposes an essential role of attractor
states for maintaining working memory, which cannot explain activity-silent working
memory [25] [31], where brain activity during working memory varies with predictabil-
ity of the temporal structure of the tasks or attention. This poses challenges to the
importance of sustained activity from the attractor framework. We may alleviate this
in the future by incorporating short term plasticity [19].
Recent study of working memory in mice suggested that working memory rep-
resentations are embeded in high-dimensional population activity [28]. For future
research, we may start to investigate working memory states in a higher dimensional
space, by incorporating network of single neurons, such as spiking neurons network
[33], into the model. This would allow us to distinguish the role of neural populations
with different firing frequencies in coding working memory.
Studies show that dysfunction of network hubs can explain working memory deficit
[10]. Simulations from the macaque model [19] shows that by silencing key areas in
the network, the working memory activity for the whole network can be shut down.
To identify key areas/sub-networks for distributed working memory in human brain,
we can study the topology of cortical network and test hypothesis by applying lesions
to identified areas/sub-networks.
On top of that, we can study the information coding during working memory. Pre-
vious studies show that objects can be decoded from the late response enhancement
in early visual areas and it was hypothesized that inter-areal connections account for
31
it. We would like to use our model to test this hypothesis.
32
Appendix A
Appendix
33
A B
Figure A-1: Input to V1 or multiple visual areas. A. Input to V1. B. Input to multiple
visual areas. From top to bottom: 1. location of the input areas, 2. hierarchy of the
input areas, 3. temporal dynamics across areas with inputs.
.
34
Appendix B
Appendix
35
Table-1
Brain area Description Literature
Prefrontal cortex-PFC Osaka et al. 2003, Chein et al.,
2011, Vartanian et al., 2013,
Buschman et al., 2011, Jacob et
al., 2014, Bourbon-Teles et al.,
2019, Mendoza-Halliday et al.,
2014, Vergara et al., 2016,
Cavanagh et al., 2018, Rigotti et
al., 2013, Parthasarathy et al.,
2017, Sarma et al., 2015
anterior PFC Vartanian et al., 2013, Jimura et
al., 2017
Dorsolateral prefrontal cortex- Jimura et al., 2017, Kim et al.,
DLPFC 2015, Moore et al., 2013, Murty
et al., 2011, Vartanian et al., 2013
Ventrolateral prefrontal cortex- Vartanian et al., 2013
VLPFC
lateral prefrontal cortex-LPFC Mendoza-Halliday et al., 2014
left dorsal frontal cortex-lDFC Bourbon-Teles et al., 2019
Posterior parietal cortex-PPC Chein et al., 2011, Jimura et al.,
2017, Christophel et al., 2012,
Sarma et al., 2015
Anterior cingulate cortex-ACC Osaka et al. 2003, Chein et al.,
2011, Kamiński et al., 2017
Dorsal Anterior cingulate Kamiński et al., 2017
cortex-dACC
Orbitofrontal cortex-OFC Vartanian et al., 2013, Cavanagh
et al., 2018
Frontopolar cortex-FPC Kim et al., 2015
frontal eye field-FEF Buschman et al., 2011,
Parthasarathy et al., 2017,
Armstrong et al., 2009; Clark et
al., 2012; Rezayat et al., 2021
Primary visual cortex-V1 Van Kerkoerle et al., 2017
Middle frontal gyrus-MFG Moore et al., 2013, Kim et al.,
2015
Inferior frontal gyrus-IFG Kim et al., 2015
Superior temporal gyrus-STG Osaka et al., 2003
Inferior frontal sulcus-IFS Moore et al., 2013
Inferior frontal junctions-IFJ Jimura et al., 2017
tempo-parietal junction-TPJ Jimura et al., 2017
Supplementary motor area- Vartanian et al., 2013
SMA
Pre Supplementary motor area- Jimura et al., 2017, Kamiński et
pSMA al., 2017, Vergara et al., 2016
Anterior insula-AI Jimura et al., 2017
Medial temporal lobe-MTL Chein et al., 2011, Kornblith et
al., 2017
medial superior temporal-MST Mendoza-Halliday et al., 2014
parietal and cingulate regions Moore et al., 2013, Murty et al.,
2011
36
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