Networks of Programmable Biological Systems

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Networks of Programmable Biological Systems?

• Jehoshua (Shuki) Bruck

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A Fly on the Wall
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Communication Relay
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B2B
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Bio-signal Reception
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Signal Transduction
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Why Programmable Biology?
Intelligent sensors and actuators Moving,
flying, swimming, landing Autonomous, low power
The challenges has mind of its own
Interface and Control ?
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Challenges in Programmable Biology
Interfaces micro-surgery, MEMs, molecules
injectors, DNA structure, neural interfaces, nano
sensors/actuators, . . .
Control gene regulation, signal transduction,
neural coding and systems, robust control,
fault-tolerant systems, communication networks, .
. .
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C. Elegans Saleem Mukhtar, Paul Sternberg
highly accurate development process total of 959
cells, 302 nerve cells
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C. Elegans Lineage
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Tracking of C. Elegans
VCR for recording
Microscope
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Automated Tracking of C. Elegans
Microscope fitted with camera and xy-positioning
table
Computer locates worm and positions the table
VCR for recording
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Recordings Using The Automatic Tracker
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C. Elegans Has an Engine!
Velocity
Time
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Where is the Engine? Understand the circuit
responsible for locomotion
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Possible Perturbations

• Mutations
• Ablations of Cells

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Automated Ablation System
Microscope fitted with camera, laser
and x-y-z-positioning table
Computer locates neurons, positions the table
and zaps them
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Programmable C. Elegans

• Build tools for analysis of movement
• Build automated ablation system
• Understand the the circuit for locomotion
• Program C. Elegans to move at a given
  velocity, direction

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Network Infrastructure for PBAs? Programmable
Biological Agents
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Current Internet Infrastructure
Storage Computing on the Edge
Fixed Networks Base stations
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The Internet will be Soon Dominated by (thin)
Mobile Clients
Lost Signal!
Lost Signal!
Lost Signal!
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The Idea-Mobile Gateways
Dynamic bandwidth allocation
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Mobile Gateways Balloons
A balloon is an abstraction of a broadcast
domain The collection of balloons forms the
backbone
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MANGO Mobile Array of Network Gateways

• Covering algorithms
• Routing algorithms
• Broadcasting protocols
• Distributed storage schemes

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PBAs why DARPA? why Caltech?
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Why DARPA?
Get Biological
Get Real
Get Physical
Get Out
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Program in Information Networks and
Biological Systems
Physics, Mathematics Astronomy
Biology Bio Initiative
Eng. App Science options APH, AMA, CDS, CNS,
CNS, CS, EE, ME, ... centers Advanced
Networking Neuromorphic System Eng.
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The Programmable Cat
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Caltech is uniquely positioned for
Multidisciplinary Eng./Science Research
Physics Mabuchi..
Biology Koch Laurent Sternberg
EAS CDS Doyle, Murray... CNS Bruck,
Burdick, Koch, Laurent, Perona, Winfree... CS
Chandy, deHon, Winfree.. EE Bruck, Doyle,
Effros, Perona.. ME Burdick, Murray.