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Network Thermodynamics: A Powerful Tool for Understanding Complex Biological Systems, Apuntes de Ingeniería

This paper explores the history and application of network thermodynamics in biophysics. It highlights the use of network theory to model and analyze complex thermodynamic systems, particularly in the context of biological processes. The paper discusses the key concepts, postulates, and applications of network thermodynamics, emphasizing its ability to provide insights into the dynamics of reaction and transport systems. It also explores the potential of network thermodynamics for future research in biophysics and related fields.

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NETWORK
THERMODYNAMICS
AN
OVERVIEW
ALAN
S.
PERELSON
From
the
Theoretical
Division,
University
of
Caiforia
Los
Alamos
Scientific
Laboratory,
Los
Alamos,
New
Mexico
87544
INTRODUCTION
Thermodynamics
was
one
of
Aharon
Katzir-Katchalsky's
great
loves.
To
the
physi-
cists
of
the
late
nineteenth
and
early
twentieth
centuries
thermodynamics
epitomized
the
simplicity,
generality,
and
symmetry
one
expected
from
a
physical
theory.
Aharon,
however,
was
well
aware
of
its
limitations
when
applied
in
the
biological
realm.
He
saw
a
need
to
extend
the
scope
of
thermodynamics
in
a
new
direction,
in
hopes
of
addressing
the
puzzle
of
biological
organization
and
complexity
from
a
phenomeno-
logical
viewpoint.
George
Oster
and
I
had
the
great
privilege
of
collaborating
with
Aharon
on
this,
his
last
major
research
effort.
In
this
memorial
symposium
on
thermo-
dynamics
and
life
it
seems
particularly
appropriate
to
recount
the
history
of
what
Aharon
christened
"network
thermodynamics,"
and
to
discuss
its
relevance
and
potential
in
modern
biophysics.
In
1968
Aharon
brought
to
Berkeley
news
of
Prigogine's
work
on
dissipative
struc-
tures
(Prigogine,
1969).
His
enthusiasm
for
discovering
the
basis
of
life
in
temporal
and
spatial
structuring
was,
as
many
of
you
know,
quite
contagious;
George
Oster,
then
a
postdoctoral
student,
and
I,
then
a
graduate
student,
became
infected.
We
understood
how
temporal
oscillations
in
electrical
and
mechanical
systems
worked.
If
one
had
two
energy
storage
devices,
such
as
an
inductor
and
capacitor,
one
could
transfer
energy
between
the
devices
periodically.
Therefore,
we
began
looking
for
chemical
analogs
of
capacitors
and
inductors.
We
also
realized
that
the
mere
presence
of
capacitors
and
inductors
was
not
enough;
their
interconnection
had
to
be
precisely
right.
Thus,
we
also
began
searching
for
ways
to
quantitate
the
notion
of
topology
in
chemical
systems.
Graphical
and
network
techniques
naturally
came
to
mind.
The
idea
of
applying
concepts
in
electrical
network
theory
to
thermodynamics
was
not
new,
Meixner
(1963,
1964,
1965,
1966
a,b)
had
already
proposed
a
nonequilibrium
thermo-
dynamic
theory
based
on
the
general
theory
of
linear
passive
systems.
Out
of
a
syn-
thesis
of
concepts
from
thermodynamics,
circuit
theory,
graph
theory,
and
differential
geometry,
network
thermodynamics
was
developed.
Unfortunately,
Katchalsky
did
not
live
to
see
the
work
grow
to
fruition.
During
his
lifetime
we
spent
much
time
"putting
old
wine
in
new
bottles"
so
to
speak;
much
of
nonequilibrium
thermodynamics
as
applied
to
biophysics
was
reformulated
in
terms
of
BIOPHYSICAL
JOURNAL
VOLUME
15
1975
667
pf3
pf4
pf5
pf8
pf9
pfa
pfd
pfe
pff
pf12
pf13

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NETWORK THERMODYNAMICS

AN OVERVIEW

ALAN S. PERELSON

From the Theoretical Division, University ofCaiforia Los Alamos

Scientific Laboratory,^ Los^ Alamos,^ New^ Mexico^87544

INTRODUCTION

Thermodynamics was one of Aharon Katzir-Katchalsky's great loves. To^ the^ physi-

cists of the late nineteenth and early twentieth centuries thermodynamics epitomized

the simplicity, generality, and symmetry one expected from a physical theory. Aharon,

however, was well aware of its limitations when applied in the biological realm. He

saw a need to extend the scope of thermodynamics in a new direction, in hopes of

addressing the puzzle of biological organization and complexity from a phenomeno-

logical viewpoint. George Oster and I had the great privilege of collaborating with

Aharon on this, his last^ major research effort. In this memorial symposium on thermo-

dynamics and^ life^ it^ seems^ particularly appropriate^ to^ recount^ the^ history^ of what

Aharon christened "network thermodynamics," and to discuss its relevance and

potential in modern biophysics.

In 1968 Aharon brought to Berkeley news of Prigogine's work on dissipative struc-

tures (Prigogine, 1969). His enthusiasm for discovering the basis of life in temporal

and spatial structuring was, as many of you know, quite contagious; George Oster,

then a postdoctoral student, and I, then a graduate student, became infected. We

understood how temporal oscillations in electrical and mechanical systems worked. If

one had two energy storage devices, such as an inductor and capacitor, one could

transfer energy between the devices periodically. Therefore, we began looking for

chemical analogs of^ capacitors and inductors. We also realized that the mere presence

of capacitors and inductors was not enough; their interconnection had to be precisely

right. Thus, we also began searching for ways to quantitate the notion of topology in

chemical systems. Graphical and network techniques naturally came to mind. The

idea of applying concepts in electrical network theory to thermodynamics was not new,

Meixner (1963, 1964, 1965, 1966 a,b) had already proposed a nonequilibrium thermo-

dynamic theory based on the general theory of linear passive systems. Out of a syn-

thesis of concepts from thermodynamics, circuit theory, graph theory, and differential

geometry, network thermodynamics was developed.

Unfortunately, Katchalsky did^ not^ live^ to see^ the^ work^ grow to^ fruition.^ During his

lifetime we spent much time "putting old wine in new bottles" so to speak; much of

nonequilibrium thermodynamics as applied to biophysics was^ reformulated^ in^ terms^ of

BIOPHYSICAL JOURNAL VOLUME 15 1975 667

network thermodynamics, theoretical results such as the Glansdorff-Prigogine dx P in-

equality and b,P stability criterion were given rigorous and elegant network formula-

tions (Glansdorff and Prigogine, 1971; Oster and Desoer, 1971), and the framework for

a nonlinear far-from-equilibrium theory of thermodynamic processes was created

(Oster et al., 1971). Frankly, however, this period produced no significant new results.

Before discussing more recent work it is first worthwhile to explain in some detail

what network thermodynamics is and why Aharon thought it worthwhile to translate known results into network thermodynamic terms.

WHAT IS NETWORK THERMODYNAMICS?

Great progress had been made in understanding simple thermodynamic systems using

equilibrium thermodynamics, and nonequilibrium thermodynamics as developed by

Onsager, Prigogine, deGroot, and^ Meixner. However, Aharon could see clearly that

the conventional tools of irreversible thermodynamics were not suitable for treating

the complex nonlinear biological processes which occur far from thermodynamic

equilibrium. As an analogy consider the problem of analyzing or designing a radio.

The basic physics is completely summarized in Maxwell's equations. One could, in

principle, integrate these equations to obtain an overall system description. In prac-

tice, however, too^ much irrelevant^ information^ is^ required to^ integrate the^ equations

over such a complex object. As the engineers have discovered, a lumped parameter

approximation to Maxwell's equations-network theory is the most convenient tool

to use. Since the complexity of a biological organelle such as a membrane or chloro-

plast is more akin to a radio than an isotropic continuum, a lumped parameter ap-

proximation to the field equations or irreversible thermodynamics and continuum

mechanics would seem to be the preferred description. Network thermodynamics is

precisely such^ an^ approximation. By establishing an^ isomorphorism between the

underlying mathematical structure of network theory and thermodynamics, problems

in thermodynamics can be formulated and solved using network methods.

The advantages of a network approach are numerous. Engineering experience and

network methods of solving large nonlinear systems can be brought to bear on thermo-

dynamic problems. For example, complex systems can commonly be thought of as

composite systems made up of interconnected subsystems. In many instances such

systems can be "torn" or decomposed into their subsystems, the subsystems solved,

and these solutions used to generate the solution to the whole system. Such a de-

composition technique can be applied to network models of diffusion-reaction systems.

Besides (^) specific method of (^) analysis, there are (^) many network theorems that can be used

to solve thermodynamic problems. One of the most important is Tellegen's theorem.

This is a powerful theorem whose generality derives from the fact that it is independent

of the nature of the network elements-that is, whether they are linear or nonlinear,

reciprocal or (^) nonreciprocal. All that matters is the network topology; that is, the way in which the elements are interconnected (Penfield et al., 1970).

Graphical representations similar to engineering circuit diagrams can be constructed

for thermodynamic systems. Although the proverb that a picture is worth a thousand

668 BIOPHYSICAL JOURNAL VOLUME 15 1975

however, we assume that one can conceptually separate these processes into dissipative

and nondissipative parts.

EQUILIBRIUM THERMODYNAMICS

In order to demonstrate the application of network thermodynamics we consider some

examples. Let us start with equilibrium thermodynamics. Equilibrium thermo-

dynamics regards a (^) system as a (^) "black box" that can be described by a finite number of

external measurements. For example, the piston and cylinder shown in Fig. 1 a can

interact with the environment through the mechanical movement of the piston or by

exchanging mass and heat. We can represent this system schematically as shown in

Fig. 1 b, where each mode of interaction has been represented by a line called a port.

In circuit parlance this object is called an n-port. In classical thermodynamics one

usually postulates the existence of a real valued function, the internal energy U, which

depends on a set of thermodynamic displacements q, which include the entropy, S, the

volume, V, and the mole numbers, Ni. Then one usually defines a set of conjugate

thermodynamic potentials by differentiating U. For example the chemical potential

Ai a^ U/ONi. We^ shall^ denote thermodynamic potentials^ e1^ and^ call^ them efforts. In

network thermodynamics we follow an approach to thermodynamics initiated by

Bronsted in the 1930s. We focus on measureable quantities not on energy functions

for reasons which become apparent when we treat irreversible processes. Thus e1 and

qi are^ taken^ as^ primitive^ variables^ in^ network^ thermodynamics^ and^ we^ postulate^ that

the properties of any n-port can be described by relations between these port variables,

called constitutive relations or "equations of state" (i.e., the local equilibrium postu-

late). An example is the relation g - g,(T,p,N,, * * N.). In general, a constitutive

Diathermol

Semi - pormeable

Adiabotic (a)

T Is

N V

(b) FIGURE 1 (a) Piston and cylinder. (b) Its n-port representation.

670 BIOPHYSICAL JOURNAL VOLUME 15 1975

relation is a map F which assigns to a set of independent port variables the set of con-

jugate port variables:

F: RXR^ RI

x ry (1)

where x and y are vectors of port variables.

Next, consider two simple thermodynamic systems surrounded by rigid adiabatic

walls and separated by a rigid semipermeable membrane as shown in Fig. 2. Conven-

tionally, the equilibrium of this composite system is found by minimizing the total

energy of the system subject to the constraint N1 + N2 = constant. One finds U is a

minimumwhenA^1 =^ js2-

In network theory equilibrium is generally calculated by imposing the requirements

of Kirchhoffs laws at the interconnection of two systems. This method, which does

not require the introduction of an energy function, is equivalent to the usual thermo-

dynamic method. The continuity of potential at system boundaries is Kirchhoff's

voltage law (KVL). Conservation of thermodynamic displacements is a form of

Kirchhoff's current law (KCL). For the system illustrated in Fig. 2

Al =^ M2 (2)

is KVL, while

N, + N2 =^ constant, (3A)

or

NI+N2=0 (3B)

is KCL. Since S and V are constant for systems 1 and 2

dU =^ AIMdN + A2dN2- (4)

Eqs. 2 and 3 imply

dU = (Al - A2)dNI = 0, (5)

i.e., the system energy is at a minimum. In general, utilizing Kirchhoff's laws one can

obtain all of the standard equilibrium conditions and, in fact, one can always show

T (^) I.0 T (^) SSO

PI Al I~~~~jL2 _P V1-O N (^) I N 2 V2.

FIGURE 2 Two (^) thermodynamic systems surrounded (^) by rigid adiabatic walls and (^) separated by a semipermeable membrane.

ALAN S. PERELSON Network Thermodynamics 671

J

  • _b

JI~ ~ ~ ~ ~ ~ A

n JI +^ _ J,l

J4LJ

J2 (^) M J? L J" 2 (b) FIGURE 3 (a) The steady-state transport of a single species across a^ membrane^ viewed as a 1-port. (b) The steady-state transport of two species.

Irreversible thermodynamics is generally concerned with coupled flow phenomena.

The obvious generalization is an n-port resistor defined by a constitutive relation

between the flows of n solutes and the set of n chemical potential differences (Fig. 3 b).

We postulate that, whatever its internal transport mechanism, the observed behavior

of the membrane in steady state can be completely characterized^ by^ a^ finite^ set^ of^ port

variables. If this is not the case we^ must^ look^ for^ additional^ variables^ or^ assume^ that

the membrane has^ not^ yet reach^ steady^ state.^ (This^ is^ the^ nonequilibrium equivalent

of the "local state" postulate.)

We place no restriction on the form of resistive constitutive relations; they may be

linear or nonlinear. Analogous to equilibrium systems we say that an n-port is recipro-

cal if the Jacobian matrix of its constitutive equation is^ symmetric. For^ linear^ constitu-

tive equations this is the usual Onsager reciprocity.^ In^ the nonlinear^ case^ it^ is the

obvious generalization. However,^ in^ general,^ we^ need^ make^ no^ assumption^ of

reciprocity.

If all the resistors in the systems are 1-ports then it is easy to show that the system

must be reciprocal (Brayton, 1971). Thus as we whall see in order to^ model the^ non-

reciprocal nature of far-from-equilibrium chemical reactions one^ cannot^ use^ 1-ports.

In cases where the^ system is^ reciprocal,^ there^ always exists^ a^ potential^ function from

which the constitutive relation^ can^ be derived and^ which^ is extremal^ at^ a^ steady^ state

(Brayton and Moser, 1964, Stern, 1971; Oster and Desoer, 1971). For^ linear^ systems the (^) potential is simply the entropy productions, while for nonlinear systems the poten-

tial function is called the "content" (Millar, 1951).

ALAN (^) S. PERELSON Network Thermodyanmics 673

(a)

B 2~~~~

+_ ~~~~~~~~~~~~~~~~~~~~(b) FIGURE 4 FIGURE (^5) FIGURE 4 Transport across a composite membrane. FIGURE 5 (a) 0-junction. (b) 1-junction.

INTERCONNECTION OF RESISTIVE AND CAPACITIVE N-PORTS

Reaction and transport processes involve only resistive and (^) capacitive n-ports. Thus all that remains is to specify how to interconnect these devices. As before, at points of interconnection thermodynamic potentials are continuous and there is no loss of

flow. These restrictions are just generalized statements of Kirchhoff's laws. What is

needed is some systematic way of writing these laws for complex interconnections. For example, consider the composite membrane shown in Fig. 4. At point p the membranes A, B, and C are interconnected. Observe that since the membranes are all in contact the chemical potential of the substrate must be the same at the right- most surface of A and the left surfaces of B and C, and whatever flows out of A must flow into B and C. This type of (^) parallel interconnection can be represented by a

special graphical symbol, the 0-junction or parallel junction, shown in Fig. 5 a. The

lines incident on the junction are called bonds and represent perfect lossless con-

nectors. Denoting generalized thermodynamic potentials or efforts by e, and flows

by f, a parallel junction is defined by

* e, = e2* *= = eN ~~(8)

N E u,f1 =0O (9) A-I

where

674 BIOPHYSICAL JOURNAL VOLUME 15 1975

(a)

R R C C R (^) h%000ft I I (^0)

(b)

R2 C4 R6rC 2 4 6 E, _ 3 5 7 I- _0^ - -I _E (c) FIGURE 6 (a) Membrane transport system. (b) Network representation.

A CA A

XA J^ A rXA

TD( (^) r) ( rB)TD

TD(r) TD^ B

El A _-A 1 _ 0 O1 -^ - E2A

FIGuRE 7 COUPled nonstationary transport of two species.

676 BIOPHYSICAL^ JOURNAL^ VOLUME 15^1975

CES

(+1) (+1) (+1) 2 (+1)

CY CS,TD-1TD^ R^ ITD^ --^ RR TD^ CpI T

TD( +1) (^) TD 1 (TD I (+1) (+2) CX_1- TD^ R^ R^ RR^ TD1 E1I

FIGURE 8 FIGURE 9 FIGURE 8 The autocatalytic reaction X^ + Y^ 2X. FIGURE (^9) AnenzymicreactionS + E L ES 2 E + P.

where Di, 1Ji, and c, are the diffusion coefficient, diffusive flux, and concentra-

tion of species i, respectively.

Fig. 7 shows the^ coupled transport of^ two^ species. The^ chemical^ potential difference

that causes a flow ofA also influences B and can cause its transport.

Chemical reactions can also be represented in network terms. Here we assume that

the isothermal reaction mixture is well mixed and maintained homogeneous so that

spatial considerations are unimportant. The network represents purely topological

relationships between the dissipative and storage aspects of a reaction. Fig. 8 shows

the representation of an autocatalytic reaction. The stoichiometry of a reaction repre-

sent various scalings that are occurring e.g., 2 mol of X must appear every time 1 mol

of X and 1 mol of Y (^) combine. In (^) mechanical systems this type of scaling is performed

by gears, while in electrical systems transformers are used. Thus, in representing reac-

tions one must use scaling transducers to represent stoichiometry. Observe that Fig. 8

contains a positive feedback loop, indicating that autocatalytic reactions could con-

tribute to the instability of a reaction system. Fig. 9 represents an enzymic reaction.

Notice that the network diagram clearly illustrates that the enzyme cycles back and

forth between free and combined forms. Although these diagrams look complex they

can be generated algorithmically from conventional biochemical diagrams as shown in

Fig. 10 (Morowitz, 1973). Other workers have used standard network representa-

tions for reactions (Hess et al., 1972; Busse and Hess, 1973).

Reaction networks contain only resistors, capacitors, and transducers, making the

prediction of oscillations a difficult task. However, Atlan and Weisbuch (1973) have

shown that the effects of time delays in the reaction process can be approximated by

adding inductors.

It should be apparent that the network representations for reaction and transport

processes can be combined to form complex models of chemico-diffusional systems.

2Network analogs of chemical systems based on kinetic rather than thermodynamic models have been devel-

oped by Seelig(1970, 1971), Seelig and Gobber (1971), (^) Seelig and Denzel (^) (1972), and (^) Rossler(1974, 1975).

ALAN S. PERELSON Network Thermodynamics 677

C1 RR, c2C.

R1. cl^ C2^ R, TD(1) (1)TD^ C lils (1)^ (1)^12 E1._ 1 TD_^1 1-TD^ B _O^1 E^.

A:1 RR^ J JR iR 2 2 TD(1) (1)TD

o 1 _ C2,

FIGURE 1 Facilitated transport.

cesses governing the operation of the system. The model thus totally reflects the

thermodynamic description.

CHEMICAL REACTION NETWORKS

Besides extending the range of linear irreversible thermodynamics, network ideas can

be applied to^ theoretical^ problems in^ chemistry to^ provide new^ insights into^ the^ struc-

ture of large chemical systems.

Chemical kinetics deals with the problem of determining rates of chemical reac-

tions. Assuming temperature and pressure are maintained constant, and that the

volume change due to reaction is negligible, the "state" of a chemical system is deter-

mined by the number of moles of each component. The equations of chemical kinetics

describe the vector field that propels the state point through concentration space.

One frequently assumes that this vector field is given by the law of mass action. Thus

one is faced with the very difficult problem of solving large systems of nonlinear dif-

ferential equations. In each set of reactions a different system of equations results and

thus it has been very difficult to establish any general properties for reaction systems.

I like to think of this approach as analogous to using Newton's equations in mechan-

ics-a given problem may be easy to^ solve but general theorems are difficult to come by.

By using network thermodynamic methods one can formulate a generic set of differ-

ential equations to describe reactioh dynamics that are in some sense analogous to

Hamilton's (^) equations in mechanics. (^) Although these (^) equations are valid for nonlinear

far-from-equilibrium reactions I shall illustrate how they are derived by examining

the simpler near equilibrium case.

For each reaction we can define an extent or advancement of reaction, tk. If we

ALAN (^) S. PERELSON Network (^) Thermodynamics 679

can determine how the reaction extents change with time then the law of definite proportions

n,(t) =^ n,(0) +^ E (^) VPkik (15) k

determines how^ the mole numbers^ of^ each^ species^ change^ in time. Thus^ it suffices^ to find a differential equation in the extents.

For a set of M chemical reactions occurring among N^ chemical species, let^91 =^ RN

be the species space and let 911 =^ RM be the reaction space. (In Oster and^ Perelson

[1974 a, b], a more general treatment is^ given in^ which^91 and^9 can^ be^ nonlinear

spaces; i.e. differentiable manifolds.) The^ mole numbers^ n,, n2,^ ...^ nN^ can^ be^ assem-

bled into^ a^ vector^ n^ e 91, and the^ reaction^ extents^ {,, 422 ...^ 4M collected into^ a^ vec-

tor t E M. The law of definite proportions provides a map between the species and

reaction spaces. Let v^ be the N x^ M stoichiometric matrix, then

v: M l-91 (16)

t(t) H+n(O) +^ vt(t) =^ n(t). (17)

By differentiating this map we obtain a^ relation between^ the^ rate^ of^ change of^ mole

numbers, n(t), and the rate^ of reaction^ j =^ d4/dt^ -^ given^ by

n(t) =^ vi(t) =^ vj. (18)

To construct the equations of motion on the reaction space 9am^ we^ must^ introduce

the constitutive equations for the^ species capacitors and^ reaction^ resistors.^ The^ former

are defined by the^ map

n > A(n) (19)

on 1, where g(n) =^ [g (n), s2(n),. .,N(n)]A is the^ vector^ of chemical^ potentials. The

reactions are characterized by a^ nonlinear constitutive^ map A^ defined^ on^9

a I->A(a) = j, (20)

where a is the vector of chemical affinities (a =^ -iTj) and^ j is the^ reaction^ rate^ vec-

tor. The driving forces in species space g and the^ driving forces^ in^ reaction^ space a

are related by the law of definite proportions. In fact a is uniquely determined, given

.u and the^ law^ of definite^ proportions,^ by^ the^ operation^ of^ pulling^ back^ a^ covector

field along a map (see Oster and Perelson, 1974 b for the^ details of this^ technical^ point).

By composing the constitutive relation and law of definite proportion maps the

equations of motion can be constructed. The law^ of^ definite^ proportions (Eq. 15)

determines n as a function of t. The capacitive constitutive relation (Eq. 19) assigns

a unique chemical potential vector (^) ;s to n, and then as indicated above the law of

680 BIoPHYSICAL^ JOURNAL^ VOLUME 15^1975

CN TD^ R'm

FIGURE 12 Generalized bond graph representation of a reaction system.

gradient of the Gibbs free energy, G, the equations of motion of a chemical system can

be written

= (^) AV+)(t), (23)

where (t) - G[n(O) + vt] is a scalar potential defined on C, i.e., 4: = --+R.

The form of the two sets of equations is superficially similar. They are identical only

if 9= is even dimensional and A = J.

The generic equations (21) can be given a network interpretation (Perelson and

Oster, 1974). Fig. 12 shows a general bond graph representation of^ any reaction

system. With^ the capacitor constitutive relation^ given by^ ,u()^ and the^ resistor^ con-

stitutive relation^ A(.),^ the^ equations describing^ this network^ are^ precisely^ Eqs.^ 21.

The capacitors represent species space, the resistors represent reaction space and the

set ofjunctions and transformers representing the network topology correspond to the

reaction stoichiometry v (Oster and Perelson, 1974a).

Using the network representation as a guide the equations of chemical dynamics

can be extended in^ many ways. First, the^ generalization to^ open reaction^ systems can

be derived^ by simply adding sources to^ the^ network^ (Perelson and^ Oster, 1974).^ Next,

the biologically interesting situation in which there are a collection of cells com-

municating with each other and their environment via the transport of material across

their outer boundaries can be modeled by a network which is formally identical to a

reaction network. Here however, the resistors exhibit the dissipation due to transport

and the capacitors represent the storage of chemical species in^ N^ cells instead of the

storage of^ N^ species in^ one^ cell. This model^ can^ then be further^ generalized to^ include

multiple species undergoing chemical reaction within each^ cell.^ The^ generic^ differential

equations for this^ complex transport-reaction system^ can^ be^ easily^ derived^ from^ the

network (Perelson and Oster, 1974); they are a generalization of the equations dealt

with by Othmer and Scriven (1971) in studying instabilities and dynamic patterns in

cellular networks.

FUTURE OF NETWORK THERMODYNAMICS

The analysis of large chemical systems is far from complete. Eq. 21 which described

the dynamics of reaction systems needs to be thoroughly examined under a variety

682 BIOPHYSICAL JOURNAL VOLUME 15 1975

of constitutive assumptions. For example, by fixing the capacitive and resistive

constitutive equations one can study the effects of changes in reaction topology. Are

there certain topologies such as the positive feedback loop of autocatalytic reactions

that make oscillations more probable? Alternatively, one can hold the topology and

the reaction constitutive relation fixed and vary the capacitance. (^) Some effects of

capacitance variation on system stability and bifurcations to periodic solutions have

been investigated (Luss, 1974).3 Given a system of known reactions and equilibrium

properties one can study the qualitative behavior of systems in which the non- linearity of the reaction constitutive relations are (^) restricted. For example monotone, passive, or quasi-linear (Duffin, 1946), resistive constitutive relations (^) can be studied. Also the asymptotic behavior and the number of maxima or minima in the constitutive relation (^) can be specified. Perelson and Oster (1974) consider the reciprocal, passive, and locally passive (^) cases.

The graphical techniques developed to represent thermodynamic systems need to

be exploited. Since the graphs are just another notation for the dynamic equations

one may be able to find graphical criteria for stability and oscillations. The decompo-

sition or "tearing" of a complex system into subsystems has been utilized in treating

one reaction-transport system (Perelson and Oster, 1974). This technique should prove

useful in analyzing a variety of large systems.

The ease of interfacing bond graph models with computer systems can be exploited

in a classroom situation. Experience at Berkeley in teaching both undergraduates

and graduates bas shown that students with no previous computer experience can

formulate and solve complex physiological modeling problems. Thus an intuitive

understanding of complex system behavior can quickly be attained by students with

little or no experience in nonlinear systems. The biophysics can be emphasized while

submerging the^ formal^ mathematics.

Let me end by mentioning an area in which I foresee future growth of network

thermodynamics. The goal of biophysics is to understand how biological systems

work. Traditionally we have approached (^) this problem through reductionist analyses. However, when we have isolated every enzyme and catalogued every reaction that occurs in a cell will we understand how the system (^) works? I think not, for there are

complex dynamic interactions that impart to matter the property that we call life.

However, if (^) we can design and synthesize systems which have these dynamic charac-

teristics we will have made significant progress towards understanding them. Engi-

neers have enormous experience in synthesis and design, and it is my hope that through

network thermodynamics, these techniques can be applied to synthesize chemical net-

works with prescribed behaviors.

Network thermodynamics is based upon an idea of great simplicity-that the logical

foundation of finite-dimensional thermodynamic models is formally identical to that

of (^) network theory. It was Aharon's hope that this similarity could be exploited to

3Perelson, A.^ 1975. A^ note on the qualitative theory of lumped parameter systems. Chem. Eng. Sci. In press.

ALAN S. (^) PERELSON Network Thermodynamics 683

OSTER, G. and A. PERELSON. 1974 b. Chemical reaction dynamics: geometric structure.^ Arch.^ Rational Mech. Anal. 55:230. OSTER, G., A. PERELSON, and A. KATCHALSKY. 1971.^ Network^ thermodynamics.^ Nature^ (Lond.).^ 234:393. OSTER, G., A. PERELSON, and A. KATCHALSKY. 1973. Network thermodynamics: dynamic modelling of bio- physical systems. Q. Rev. Biophys. 6:1. OTHMER, H. G., and L. E. SCRIVEN. 1971. Instability and^ dynamic pattern^ in^ cellular^ networks.^ J.^ Theor. Biol. 32:502. PENFIELD, P., R. SPENCE, and S. DUINKER. 1970. Tellegen's Theorem and Electrical Networks. MIT Press, Cambridge, Mass. PERELSON, A., and G. OSTER. 1974. Chemical reaction dynamics: network structure. Arch. Rational Mech. Anal. 57:31. PRIGOGINE, I. 1969. Structure, Dissipation, and Life. In Theoretical Physics and Biology,^ Proceedings of^ the First International Conference, Versailles, 1967.^ M.^ Marios,^ editor.^ North-Holland^ Publishing^ Co.,^ Am- sterdam. ROSENBERG, R. C.,^ and^ D.^ C. KARNOPP.^ 1972.^ A^ definition^ of the bond^ graph^ language.^ J.^ Dynamic Sys- tems, Measurement and Control. Trans. ASME. 94:179. ROSSLER, 0. E. 1974. A synthetic approach to exotic kinetics (with examples). Lecture Notes in Biomathe- matics, Vol. 4. Physics and Mathematics of the Nervous System. M. Conrad, W. Guttinger, and M. Dal Cin, editors. Springer-Verlag, Berlin. ROSSLER, 0. E. 1975. A multivibrating switching network in homogeneous^ kinetics.^ Bull.^ Math.^ Biol.^ In press. SEELIG, F. F. 1970. Undamped sinusoidal oscillations in linear chemical reaction systems. J. 7heor. Biol. 27:197. SEELIG, F. F. 1971. Activated enzyme catalysis as a possible realization of the stable^ linear chemical^ oscilla- tor model. J.^ Theor. Biol.^ 30:497. SEEUG, F. F., and^ B. DENZEL. 1972.^ Hysteresis^ with^ autocatalysis:^ simple^ enzyme^ systems^ as^ possible^ binary memory elements. FEBS Lett. 24:283. SEELIG, F. F., and F. GOBBER. 1971. Stable linear reaction oscillator. J. Theor. Biol. 30:485. SMALE, S. 1972. On the mathematical foundations ofcircuit theory. J. Differ. Geom. 7:193. STERN, T. E. 1971. On reciprocity in nonlinear networks. In Aspects of Network and Systems^ Theory. R. E. Kalman and N. DeClaris, editors. Holt, Rinehart and Winston, Inc., New York.

ALAN S. PERELSON Network Thermodynamics 685