Towards Robust Bio-Inspired Circuits: The Embryonics Approach

Daniel Mange

ECAL99, Lausanne September 15, 1999

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Caenorhabditis Elegans

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11 December 1998
Daniel Mange Towards Robust Bio-Inspired Circuits: The Embryonics Approach ECAL99: Sept. 15

Caenorhabditis Elegans

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From S.F. Gilbert, Developmental Biology, Sinauer, 1991

Daniel Mange Towards Robust Bio-Inspired Circuits: The Embryonics Approach ECAL99: Sept. 15

Multicellular Organization

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959 somatic cells

Daniel Mange Towards Robust Bio-Inspired Circuits: The Embryonics Approach ECAL99: Sept. 15

Cellular Division

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mother cell

daughter cell

daughter cell

Daniel Mange

Towards Robust Bio-Inspired Circuits: The Embryonics Approach

ECAL99: Sept. 15

Cellular Differentiation

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Pharynx

Intestine
Daniel Mange Towards Robust Bio-Inspired Circuits: The Embryonics Approach ECAL99: Sept. 15

Embryonics: Why?

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Design of robust integrated circuits able to: self-repair (healing) self-replicate (cloning)

Daniel Mange

Towards Robust Bio-Inspired Circuits: The Embryonics Approach

ECAL99: Sept. 15

Embryonics: How?

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Iterative electronic circuit based on 3 features:

multicellular organization
cellular division cellular differentiation
Daniel Mange Towards Robust Bio-Inspired Circuits: The Embryonics Approach ECAL99: Sept. 15

Electronic Implementation
CELL SB BDM SB BDM CELL SB BDM CELL

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X,Y OG
RAM

X,Y OG
RAM

X,Y OG
RAM

CELL
SB SB

CELL
SB

CELL

BDM

BDM

BDM

X,Y OG
RAM

X,Y OG
RAM

X,Y OG
RAM

Daniel Mange

Towards Robust Bio-Inspired Circuits: The Embryonics Approach

ECAL99: Sept. 15

Multicellular Organization

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Daniel Mange

Towards Robust Bio-Inspired Circuits: The Embryonics Approach

ECAL99: Sept. 15

Embryonics Landscape
ORG ORG ORG ORG

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Population level (population = organisms)

B A C

D E

Organismic level (organism = cells)

ORG OG: ope r ativ e ge nome c b a d e f

Cellular level (cell = molecules)

CELL RG: ribos omic ge nome PG: polyme ras e ge nome COMP M UX M UX d M OLCODE

Molecular level (basic FPGA's element)

ECAL99: Sept. 15

M OLECULE

Daniel Mange

Towards Robust Bio-Inspired Circuits: The Embryonics Approach

StopWatch

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START STOP

RESET

MIN

SEC

Daniel Mange

Towards Robust Bio-Inspired Circuits: The Embryonics Approach

ECAL99: Sept. 15

StopWatch

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MIN

SEC

Daniel Mange

Towards Robust Bio-Inspired Circuits: The Embryonics Approach

ECAL99: Sept. 15

StopWatch

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ORG
1 Y X Count mod 6

CELL gene

Count Count StopWatch mod10 mod 6

Count mod10

Daniel Mange

Towards Robust Bio-Inspired Circuits: The Embryonics Approach

ECAL99: Sept. 15

StopWatch

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OG: operative genome gene

6 10 6 10 1 2 3 4

Daniel Mange

Towards Robust Bio-Inspired Circuits: The Embryonics Approach

ECAL99: Sept. 15

StopWatch

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OG: operative genome

X = (WX+1) mod 4 case of X: X = 1: Countmod X = 2: Countmod X = 3: Countmod X = 4: Countmod

6 10 6 10

(10 minutes) (minutes) (10 seconds) (seconds)

Daniel Mange

Towards Robust Bio-Inspired Circuits: The Embryonics Approach

ECAL99: Sept. 15

StopWatch

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X=(WX+1)mod4 case of X: X = ...

HOX genes switch genes functional genes

operative genome (OG)

Daniel Mange

Towards Robust Bio-Inspired Circuits: The Embryonics Approach

ECAL99: Sept. 15

Cellular Differentiation

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Daniel Mange

Towards Robust Bio-Inspired Circuits: The Embryonics Approach

ECAL99: Sept. 15

Self-Replication

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t2 6 10 6 10 6 10 6 10

t3 6 10 6 10 6 10 6 10

t1

t1 1 Y

t2

t3

6 10 6 10

6 10 6 10

6 10 6 10

6 10 6 10

MOTHER ORG X 1 2 3 4

Daniel Mange

Towards Robust Bio-Inspired Circuits: The Embryonics Approach

ECAL99: Sept. 15

Self-Replication

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t2 6 10 6 10 6 10 6 10

t3 6 10 6 10

t4 6 10 6 10

t5 6 10 6 10

t6 6 10 6 10

t7 6 10 6 10 6 10 6 10

t1
t1 1 Y 6 10 6 10

DAUGHTER ORG # 1

t2 6 10 6 10 6 10 6 10

t3 6 10 6 10

t4 6 10 6 10

t5 6 10 6 10

t6 6 10 6 10

t7 6 10 6 10

M OTHER ORG X 1 2 3 4 1

DAUGHTER ORG # 2 2 3 4

Daniel Mange

Towards Robust Bio-Inspired Circuits: The Embryonics Approach

ECAL99: Sept. 15

Self-Repair

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Direction of self-repair

1
Y

6 10 6 10

6 10 6 10

6KILL=1 10 6 10

6 10 6 10

6 10 6 10

6 10 6 10

NEW ORG ORIGINAL ORG SCAR 1 2 3

CELLS NEW ORG SPARE SPARE CELL 4 1 2 3 4 1

Daniel Mange

Towards Robust Bio-Inspired Circuits: The Embryonics Approach

ECAL99: Sept. 15

BioWatch

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Modulo-24 counter

StopWatch

Y
X

mod 3

mod 10/4

mod 6

mod 10

mod 6

mod 10

Daniel Mange

Towards Robust Bio-Inspired Circuits: The Embryonics Approach

ECAL99: Sept. 15

BioWatch

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Daniel Mange

Towards Robust Bio-Inspired Circuits: The Embryonics Approach

ECAL99: Sept. 15

Embryonics Landscape

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Daniel Mange

Towards Robust Bio-Inspired Circuits: The Embryonics Approach

ECAL99: Sept. 15

MUXTREE Molecule

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Daniel Mange

Towards Robust Bio-Inspired Circuits: The Embryonics Approach

ECAL99: Sept. 15

Space Divider

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X=1
PG

Daniel Mange

Towards Robust Bio-Inspired Circuits: The Embryonics Approach

ECAL99: Sept. 15

Space Divider

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3
PG

Daniel Mange

Towards Robust Bio-Inspired Circuits: The Embryonics Approach

ECAL99: Sept. 15

Cellular Self-Replication

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Daniel Mange

Towards Robust Bio-Inspired Circuits: The Embryonics Approach

ECAL99: Sept. 15

Cellular Self-Repair

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faulty molecule

X=1 RG+OG

SPARE CELL

Daniel Mange

Towards Robust Bio-Inspired Circuits: The Embryonics Approach

ECAL99: Sept. 15

Cellular Self-Repair

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X=1 RG+OG

SPARE CELL

Daniel Mange

Towards Robust Bio-Inspired Circuits: The Embryonics Approach

ECAL99: Sept. 15

The MUXTREE Molecule

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Daniel Mange

Towards Robust Bio-Inspired Circuits: The Embryonics Approach

ECAL99: Sept. 15

Molecular Implementation

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Daniel Mange

Towards Robust Bio-Inspired Circuits: The Embryonics Approach

ECAL99: Sept. 15

Embryonics Landscape

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Daniel Mange

Towards Robust Bio-Inspired Circuits: The Embryonics Approach

ECAL99: Sept. 15

Artificial Genome

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space divider programming data

molecular codes

polymerase genome (PG) ribosomic genome (RG)

X=(WX+1)mod4 case of X: X = ...

HOX genes switch genes functional genes

operative genome (OG)

Daniel Mange

Towards Robust Bio-Inspired Circuits: The Embryonics Approach

ECAL99: Sept. 15

The Future of Embryonics

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Daniel Mange

Towards Robust Bio-Inspired Circuits: The Embryonics Approach

ECAL99: Sept. 15

COL PO TEC QU E LY HNI F AL D L USA DR E E A NN

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Daniel Mange

Towards Robust Bio-Inspired Circuits: The Embryonics Approach

ECAL99: Sept. 15