Simulation of Bio-molecular Microsystems {Simbiosys} "" • .) r· \.. '- + ___ .... --. ... Anantha Krishnan .-=:------, Goal Develop and demon1trate the capabtllty to almulate and design high performance Integrated Develop phenomenological models, scaling laws and design rules for Bio-Microdevices DEVICE MODELS Challenges ExperlmentalfTheoretlcal Charaeterlu.tlon of the elements of a System : - Molecular Rec;ognltlon Elements (aenaltlvlty, aelec11vlty and speed) - Signal Transduction Elementa (Signal Arnpllcatlon with High SNR) - Blo-Fiuldlc Transport Elements (High Efftclency, Low Power Pumping, Valvlng and Mixing Methode) Dernonstratlon ot device moct.ls on design ot Slo-Microaystems SIMBIOSYS Anantha Krishnan • Motivation for Program Lack of Quantitative Characterization of the Interface Between Biology and Micro/NanoTechnology is the Single Biggest Roadblock in Designing High Performance Bio-Chips ,.. Current practice of cut-and-try approach is unable to transform good ideas into reliable/robust bio-chips within a reasonable amount of time • Military Impacts Program will develop the Device Models (Scaling Rules and Phenomenological Models) to enable the design of A high performance, re-configurable, portable bio-molecular for sensing and detection applications
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Simulation of Bio-molecular Microsystems {Simbiosys}
/"'·~ "" • .) r· \.. '-+ ___....--. ...
Anantha Krishnan .-=:------, Goal
Develop and demon1trate the capabtllty to almulate and design high performance Integrated Blo-Mole~ular Ml~roayatems
Develop phenomenological models, scaling laws and design rules for Bio-Microdevices
DEVICE MODELS
Challenges ExperlmentalfTheoretlcal Charaeterlu.tlon of the elements of a Blo-Mole~ular System :
- Molecular Rec;ognltlon Elements (aenaltlvlty, aelec11vlty and speed)
- Signal Transduction Elementa (Signal Arnpllcatlon with High SNR)
- Blo-Fiuldlc Transport Elements (High Efftclency, Low Power Pumping, Valvlng and Mixing Methode)
Dernonstratlon ot device moct.ls on design ot Slo-Microaystems
SIMBIOSYS Anantha Krishnan
• Motivation for Program ~ Lack of Quantitative Characterization of the Interface
Between Biology and Micro/NanoTechnology is the Single Biggest Roadblock in Designing High Performance Bio-Chips
,.. Current practice of cut-and-try approach is unable to transform good ideas into reliable/robust bio-chips within a reasonable amount of time
• Military Impacts ~ Program will develop the Device Models (Scaling Rules
and Phenomenological Models) to enable the design of A high performance, re-configurable, portable bio-molecular
1-..::..:~:ms for sensing and detection applications
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SIMBIOSYS Anantha Krishnan
Start Date: FY01
Program Status: New Start
End Date: FY04
- BAA 01-07 released Oct. 2000, Closed Feb. 2001 - 80 Proposal abstracts received, 16 recommended for full proposals - 30 Full proposals received, 15 selected for awards - Joint BioFiips/Simbiosys Kick-off Meeting was Held 8-10 August, 2001
Manaaement Issues: - DAR~AIAFRL/SPAWAR!AFOSR Program Management Team - Close collaboration with DARPA/BioFiips program, several jointly funded
projects
Interactions with other DARPA Offices: - Focus 2000 workshop with DSO & ITO on the future of interfacing
~ BIQ..INFO-Physical Systems
#... .. _, __
SIMBIOSYS Anantha Krishnan
Programmatics
Task 1: Molecular Recognition • Northwestern University ·Stanford University • University of Washington
FY01 FY02
• Purdue University •IRIS- Swinburne Derailed Simulations of I
Device Perform~nce I
Task 2: Signal Transduction ·Rush Medical College • U. of CA- Berkeley ·Harvard University
• Caltech ~r-----,
Experimental Methods/
Observations
Theoretical Models and
Computational Algorithms
FY03 FY04
----
Programmatics
Task 3: Bio-Fiuidic Transport • U. of Pennsylvania • SRI International • Northwestern University • Ohio State University •LLNL ·Johns Hopkins University
Task 4: Design of LoC Systems • SRI International •Coventor ·Carnegie-Mellon University • U. of Wisconsin (w/BioFiips) • U. of Cincinnati (w/BioFiips) • U. of Texas (w/BioFiips)
FY01 FY02
Detailed Simulation• Of Device Performance I
FY03
l I I I I
Snling Rules and 1 Phennmenologlc•l Mudel~ 1
FY04
L Technology Transfer through Coventor, CFDRC, SRI, Cleveland Clinic Foundation and BioFiips Members (Aclara, Motorola, Honeywell, ... )
SIMBIOSYS Anantha Krishnan
Device Models for Probe Surfaces, Quantification of Surface Probe Sensitivity and Selectivity on Molecular Scale Properties; Enable Design of Optimal Surface Probes
(a~) p,,..., (b.) "
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Pt:O Surface Probe Sensitivity/Selectivity= F(Target Molecule Properties, Probe Molecule Orientation/Distribution on Surface, Probe Molecule Properties)
SIMBIO·SYS Anantha Krishnan
Device Models of Micro-Cantilevers for High SNR Transduction of Molecular Signals; Enable Signal Processing Based on Micro-Cantilevers
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nme(s)
Cantilever Deflection = F( Surface Coverage, Molecular Binding, Molecular Properties, Cantilever Properties/Dimensions)
SIMBIOSYS Anantha Krishnan
Current voltage r.lltlons Device Models for lon Channel Behavior; Quantify Sensitivity and Selectivity of lon Channels; Enable Engineering of Channels
Gramicidin lon Channel lDI'N'-0(00 __ _
Ur--~--~-~-----,
/ Specific Binding
11~]· -0pen Kt.: CloMd
Ions Flow through Open Channels
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ff.d 101l.d fM.CI -·-(IIIV) -· lon Channel Transduction Spectral Element POE Solver Device Model for Channel
lon Channel Sensitivity, Selectivity and Amplification = 1 F(lon Properties, Channel Charge Distribution/Electric Field, ~ Channel Properties, Molecular Binding/Properties}
~ .,,._,.,_ ,....,.._ 0 _ Rush Medical Collage
j i
SIMBIOSYS Anantha Krishnan
Device Models for Micro and Nano Flow Channels, Enable Optimization of Fluidic Transport in Mlcrofluldic Systems 1.6
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Flow Rate Reaches Maximum as Edges of the EOL Merge
Pumping Power= F(Channel Size and Properties, Fluid Properties, Applied Pressure and/or Electric Fields)
A'/' Early Results: Electrically Driven Flow Leads to Significant Power Reduction Below 1 micron channel size 11
,..,.,... r.ch_...,. o.. Ohio State Unlyersttv
SIMBIOSYS Anantha Krishnan
Device Models for Dielectrophoresis in Microfluidic Systems for Particle Sorting and Trapping
Electrode width and gap = 30 llm Applied voltage = S Vrms Particle radius = 3 llm
O.M
0.7
0.6
o.s 0.4
0.3
0.2
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Ph11se Sp11ce for P.rth:le C11pture LB Simulation Resulh
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1.2
f. ! 32
• lli 30 0.8
I!; ~ 28 o.6 1
!l ~ 26 0.4 If. 1 24
'Ill ... 0.2 >< 22
Reynolds Number from 0.31 to 1.0
~~--~----~--~----~--~
LOO ISO 200 250 Joo 0
Fo= (Pico-Ncwtons)
Particle Trajectory Control = F(Eiectrode Size/Position, ~1. Applied Field, Particle Size/Density, Flaw Properties)
~ Early Results : Scaling Rules for Particle Trapping Using DEP
QilJ ~·- '-"""" Lawrenco L!yeanore Natlpnal L aboratpcy
25
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Program Manager Introduction Anantha Krishnan
• Vice-President, Advanced Technology Group, CFD Research Corporation
• Sc.D., MIT, Mechanical Engineering, 1989
M.S., Marquette University/Medical College of Wisconsin, Bio-Medical Engineering, 1986
• Technical Interests :
Intersection of Biology and Engineering at the Molecular Scale
Computer Aided Design (CAD) Tools for Mixed Technology Systems (MEMS, Microfluidics, Mixed
ignal Electronics and Photonics, ... )
Mlcrosystems Technology Office
(
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