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Education and Research in theUCSD Bioengineering Department
Andrew D. McCulloch, Ph.D.Professor and Chair of Bioengineering
BENG 1 Introd uct ion to Bioeng ineer ing
January 10th, 2007
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The Field of Bioengineering
Bioengineeringis a matur ing
disc ip l inein which the principlesand tools of engineering areapplied to biomedical problemsfrom basic life science researchto advances in biotechnology and
improvement of health caredelivery.
Bioengineer ing is bro adandrequires a foundation in thephysical, mathematical andengineering sciences as well asin the life sciences.
Bioengineering is integrat iveandhelps to translate basic science
to clinical application.
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History of Bioengineering at UCSD
1966 Program founded
offers BS, MS, PhD
in Dept of AMES, w/School of Medicine
Founding faculty
Y-C Fung
Marcos Intaglietta
Benjamin Zweifach
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#2 Bioengineering
#6 Bioinformatics
#9 Computer Systems
#13 Computer Science
#16 Electrical
#16 Mechanical
#18 - Structural (Civil)
#19 - Aerospace
Jacobs School Ranks#11 in the Nation
6th among public
universities
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Bioengineering Department
17Faculty 160Graduate Students 800Undergrads
Systems BiologyUCSD leading new field showinghow networks of interactions withincells affect the whole organism.
Cardiovascular Disease:New treatment for shockGeert-Schmid Schoenbeinhas developed way toreduce inflammatoryreactions that occur inshock.
Metabolic Disease:Glucose Sensor for DiabetesMedtronic total implant withtelemetry system transmitsblood glucose values to abeeper. Currently in clinicaltrials. Based on UCSDtechnology.
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18 CoreFaculty
10 AffiliateFaculty (Other departments at UCSD)
11 AdjunctProfessors
15 ResearchScientists
30 PostdoctoralFellows
115 Ph.D.Students
38 M.S.Students
9 M. Eng.Students
800 UndergraduateStudents in 4 Majors
The Whitaker Institute for Biomedical Engineering
An inter-departmental Organized Research Unit for
interdisciplinary research, with >100 scientists in UCSD
and neighboring institutions.
Faculty, Scientists and Students
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Bioengineering Degree Programs
BS Bioengineering (ABET) BS Bioengineering: Premedical
BS Bioengineering: Biotechnology (ABET)
BS Bioengineering: Bioinformatics
BS/MS Bioengineering
MS Bioengineering
MEng Bioengineering
MD/MS
PhD Bioengineering
PhD Bioinformatics (interdepartmental)
MD/PhD (MSTP, PSP)
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Four Undergraduate Majors
# grad / yr careerBioengineer ing(BENG)* 40
Bioengineer ing: Industry,
Biotechnology (BTEC)* 40 MEng, MSc, PhDBioengineer ing:
Bio informat ics (BINF) 40
Bioengineer ing: MD, DDS, PharmD,
Premedical (PMED) 40 Industry
* accredited by EAC/ABET
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Undergraduate Studies
Committee: Faculty
RobertSah
(Chair)JeffreyOmens
GeertSchmid-
Schnbein
TreyIdeker Andrew
McCulloch
L. AmySung
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Academic Enrichment
Industrial Internship
~80 new positions and extensions / year
~42% BENG undergraduate participation consistent with career plans
40% industry
50% graduate / professional school
10% other
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Bioengineering Industrial
Internship Office
Imani Tyus
PFBH 131, 822-4769
juniors & seniors
volunteer, BE196/197, $
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Bioengineering Careers Wide array of professional career opportunities
Many graduates are now leaders in academia and industry Universities, hospitals and academic research institutes
Biomedical device, biotechnology and pharmaceutical
companies
Business and entrepreneurism including law andmanagement
Federal and state government agencies
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Bioengineering Careers
Career choice of BME undergraduates
UCSD, JHU and USC
0
10
20
30
40
50
Industry Govt. Grad Sch Uni&Res Entrep. MD&LLD
CareerInterest,
%
After Graduation
10~20 Years After
From a study by J-S Lee (2006)
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Bioengineering at UCSD: Milestones
1966 Joint Program: AMES Department & School of Medicine1975 NIH Training Grant
1991 Instituteof Biomedical Engineering
1993 Whitaker Foundation Development Award ($5M)
1993 IndustrialLiaison Program
1994 Departmentof Bioengineering
1998 Powell FoundationGift for New Building ($8M)
1998 Whitaker FoundationLeadership Award ($18M)
1999 Whitaker Institutefor Biomedical Engineering
2001 von Liebig Foundation: Center for Entrepreneurism ($10M)
2002 Powell-Focht BioengineeringHall Dedication and Move-In
2007 Planned Engineering Center forRegenerative Medicin e
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Powell-Focht Bioengineering HallGroundbreaking: Summer 2000
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Powell-Focht Bioengineering Hall
Space: 104,000 ft2
Teaching Laboratories Multimedia Laboratory Y-C Fung Auditorium Graduate Student Lounge Research Laboratories Core Research Facilities
Vivarium and In-VivoCore Information Technology Biotechnology Core
Imaging & bio-fabrication Industrial Internship Office Von Liebig Center for
Entrepreneurism The Whitaker Institute for
Biomedical Engineering
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Instructional and ComputingFacilities
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Teaching Laboratories
Biotechnology Laboratory:biochemical processes, cell culture,
tissue engineering Bioengineering Laboratory:medical
instrumentation, physiologicalmeasurement, biomechanics
Bioengineering Design:Hands-onsenior design projects
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Research Laboratories
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To improve health and quality of life by
app ly ing engineer ing p rinc ip les to
sc ient i f ic d iscovery and techno logyinnovat ion,
and
to train futu re leaders in B ioengineer ing
through insp i r ing educat ion and
dedicated mentorship.
Our Mission
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Our Vision:Integrat iveBioengineering
Bioengineering integrates:
engineering with biological and medical science
complex biomedical data into systematic models
biological properties across physical scales
research and education with technology transfer &healthcare
Engineering
MedicineBiology
Industry Government
Academia Healthcare
Education
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Integrative Bioengineering:Thematic Areas
Multi-Scale Bioengineering:Integration from molecular to cellular, tissue, organand systems levels. Measurement, analysis andmanipulation from nano- to micro-, meso- and macro-
scales.Systems Biology, Bioinformatics and Bioengineering:
Integration of biological components into interactionnetworks and predictive models for understanding thedynamic emergent function of living systems.
Regenerative Medicine:Engineering of cells and their microenvironment torepair, replace or regenerate injured and diseasedtissues.
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Regenerative Medicine
Hepatic Tissue Engineering
Neural Engineering
Cartilage Tissue engineering
Muscle Repair Bioengineering
Cardiovascular Gene Therapy
Blood substitutes
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Neural EngineeringDr. Gabriel Silv a,
Bioengineer ing and Ophthalmolog y
(www.silva.ucsd.edu)
Stem Cell Biology Bionanotechnology
Computational SystemsNeuroscience
Clinical Neural Regeneration ofthe Central Nervous System
and Neural Retina
Adult derived mesenchymal stem cellsinduced to express rhodopsin (red), aprotein specific to photoreceptor retinalneurons. (Diana Yu and Mai Ho, Silva
Research Group)
NetworkMap software developed to mapthe architecture of cell-cell signaling.(Brad Culp, Silva Research Group)
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Cartilage Tissue EngineeringDr. Robert Sah, Vice-Chair, B ioengin eering
Seedcells
Induceintegration 1 week
In-vitroengineeredcartilage tissue
10 mm
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Photodiode Array
Laser Device
Diffraction Pattern
nl= dsinq
Muscle RepairDr. Richard L ieber, Bio engineering & Orthopedics
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Vascular BioengineeringDr. Shu Chien, Director, Wh itaker Ins ti tu te
Balloon injured &Ad-RasN17 treated
ControlBalloon injured
without Ad-RasN17
Ad-RasN17* Prevented Restenosis in Balloon Injured Rat Carotid Artery.*A negative mutant of the signaling molecule Ras, which causes
proliferation.
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Hemospan, blood substituteDept. of Bioengineering & Sangart Inc.
Blood SubstitutesDr. Marcos Intagl ietta
Hemospan is designed for use in lieu of blood transfusions. It is does not
require blood typing, is free of viral contamination, has long shelf life, andis more effective than stored blood in shock resuscitation.
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Functional MRI
Multi-scale Brain Imaging
Molecular Biomechanics
Cardiac Biomechanics
Cardiac Electrophysiology
Biosensors
Multi-Scale Bioengineering
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Functional MRIDr. Rick Buxton, Radiology and Bioeng ineer ing
Direc to r, UCSD fMRI Center
fMRICerebral Blood
Flow Diffusion Anatomy
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Scales of NS data from Maryann Martone
Multi-Scale BrainImaging
Dr. Mark Ell isman,Neuros ciences and
Bioengineering,
Directo r National Center
for Microscopy and
Imaging Research
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Molecular BiomechanicsDr. L. Am y Sung
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MicrocirculationDr. Geert Schm id -Schnbein
Fundamental mechanism for transport in lymphatics
Mechanotransduction in cell of the circulation Organ injury mechanisms and apoptosis in hypertension Trigger mechanisms for inflammation in the blood circulation
Leukocyte Fluid Shear Responses
In vitro
In vivo
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Cardiac MechanicsDr. Jeff Omens , Medic ine and B ioengin eering
2 possible mechanisms of a defect:
Direct
structural
Biomechanical
Signaling
0
1
2
3
4
5
0.00 0.05 0.10 0.15 0.20 0.25
Strain
DiastolicStress[kPa]
Wildtype
MLPKO
stretch stretch ET
Heart failure
?
C di Bi i i
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High-throughputfunctional genomics
Multi-scale structural models
In-vitro measurements
Functionally integrated cellsystems models
Whole heart models
Clinical applications
Cardiac BioengineeringDr. Andrew McCul loch, Chair, Bio engineering
In-vivo validation
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BiosensorsDr. David Gough
http://be-web.ucsd.edu/faculty/area/biosens/public_html/publications.htmhttp://be-web.ucsd.edu/faculty/area/biosens/public_html/publications.htm7/22/2019 BENG MATH SCIENCE
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Systems Biology
Bioinformatics
Biological network reconstruction
Genetic Circuits
Systems Biodynamics
Bioinformatics
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http://www.signaling-gateway.org
BioinformaticsDr. Shankar Subramaniam,
Directo r, B ioinfo rmatics Graduate Prog ram
S Bi l
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iologicalSciences SystemsSciencesS v = 0
vmin,i vi vmax,i
Proteomics
TranscriptomicsGenomics
Phenomics
Genome-scale
interactionnetworks
Systems BiologyDr. Bernhard Palsson
http://pages.nyu.edu/~jql1346/Scientific.htmlhttp://www.sciam.com/1998/0398issue/0398levybox2.html7/22/2019 BENG MATH SCIENCE
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Systems BiodynamicsDr. Jeff Hasty
cI
PRM
cI RscA
PRM
PRM
Proteins [#]
cI [#]
Time (Minutes)
0
100
200
300
0 20 40 60
cI
RcsA
Proteins
[#]
ComputationalModeling of Genetic
Modules
Fabricated Microchambers and
Scanning Cytometry
MolecularBiology
Engineered Gene Circuits
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Integrative Network BiologyDr. Trey Ideker
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International Activities
Highly international faculty and researchers Numerous international research collaborations
Visiting undergraduates and scholars
International exchange programs, e.g. Thailand,Netherlands, Korea, Mexico
PRIME Summer Program for UndergraduateResearch in Pacific Rim Countries