2009-2010 Bulletin – PDF - SEAS Bulletin - Columbia University

80
EEBM E6020y Methods of computational
neuroscience
Lecture: 3. 4.5 pts. Instructor to be announced.
Prerequisite: BMEB W4011 or the instructor’s permission.
Formal methods in computational neuroscience,
including methods of signal processing,
communications theory, information theory, systems
and control, system identification and
machine learning. Molecular models of transduction
pathways. Robust adaptation and integral
feedback. Stimulus representation and groups.
Stochastic and dynamical systems models of
spike generation. Neural diversity and ensemble
encoding. Time encoding machines and neural
codes. Stimulus recovery with time decoding
machines. MIMO models of neural computation.
Synaptic plasticity and learning algorithms. Major
project(s) in Matlab.
BMEE E6030y Neural modeling and
neuroengineering
Lect: 3. 3 pts. Professor Sajda.
Prerequisites: APMA E3101, ELEN 3202, and
ELEN-BMEN E4011, or the equivalent, or the
instructor’s permission. Engineering perspective
on the study of multiple levels of brain organization,
from single neurons to cortical modules and
systems. Mathematical models of spiking neurons,
neural dynamics, neural coding, and biologically
based computational learning. Architectures
and learning principles underlying both artificial
and biological neural networks. Computational
models of cortical processing, with an emphasis
on the visual system. Applications of principles in
neuroengineering; neural prostheses, neuromorphic
systems, and biomimetics. Course will
include a computer simulation laboratory.
EEBM E6090x or y, E6099x Topics in computational
neuroscience and neuroengineering
Lect: 2. 3 pts. Not given in 2009–2010.
Prerequisite: The instructor’s permission.
Selected advanced topics in computational neuroscience
and neuroengineering. Content varies
from year to year, and different topics rotate
through the course numbers 6090-6099.
BMEN E6301y Modeling of biological tissues
with finite elements
Lect: 3. 3 pts. Not given in 2009–2010.
Prerequisite: MECE E6422 or ENME E6315, or
the equivalent. Structure-function relations and
linear/ nonlinear constitutive models of biological
tissues: anisotropic elasticity, viscoelasticity,
porous media theories, mechano-electrochemical
models, infinitesimal and large deformations.
Emphasis on the application and implementation
of constitutive models for biological tissues into
existing finite-element software packages. Model
generation from biomedical images by extraction
of tissue geometry, inhomogeneity, and anisotropy.
Element-by-element finite element solver for
large-scale image-based models of trabecular
bone. Implementation of tissue remodeling simulations
in finite element models.
MEBM E6310x–E6311y Mixture theories for
biological tissues, I and II
Lect: 3. 3 pts. Professor Arteshian.
Prerequisites: MECE E6422 and APMA E4200
or the equivalent. Development of governing equations
for mixtures with solid matrix, interstitial fluid,
and ion constituents. Formulation of constitutive
models for biological tissues. Linear and nonlinear
models of fibrillar and viscoelastic porous matrices.
Solutions to special problems, such as confined
and unconfined compression, permeation, indentation
and contact, and swelling experiments.
BMEN E6400x Analysis and quantification of
medical images
Lect: 3. 3 pts. Professor Laine.
Novel methods of mathematical analysis applied
to problems in medical imaging. Design requirements
for screening protocols, treatment therapies,
and surgical planning. Sensitivity and specificity in
screening mammography and chest radiographs,
computer- aided diagnosis systems, surgical planning
in orthopaedics, analysis of cardiac performance,
functional magnetic resonance imaging,
positron emission tomography, and echocardiography
data.
BMEN E6420y Advanced microscopy:
fundamentals and applications
Lect: 3. 3 pts. Professor Hilliman.
Prerequisites: PHYS C1401, C1402, C1403 or
C1601, C1602, C2601 or C2801, C2802, or the
equivalent (general physics sequence). Fundamentals
of techniques including confocal, two
photon, atomic force, and electron microscopy.
Application of methods to modern biomedical
imaging targets. Analysis and interpretation of
microscopy data.
BMEN E6500x Tissue and molecular engineering
laboratory
Lect: 4. 4 pts. Professor Huang.
Prerequisites: BIOL C2005 and C2006, or the
instructor’s permission. Hands-on experiments in
molecular and cellular techniques, including fabrication
of living engineered tissues. Covers sterile
technique, culture of mammalian cells, microscopy,
basic subcloning and gel electrophoresis, creation
of cell-seeded scaffolds, and the effects of
mechanical loading on the metabolism of living
cells or tissues. Theory, background, and practical
demonstration for each technique will be
presented. Lab required.
EEBM E9070x or y Seminar in computational
neuroscience and neuroengineering
Lect: 3. 3 pts. Not given in 2009–2010.
Prerequisite: Open to doctoral candidates and
qualified M.S. candidates with the instructor’s permission.
Study of recent developments in computational
neuroscience and neuroengineering.
BMEN E9100x or y, or s Master’s research
1 to 6 pts. Professors Anastassiou, Ateshian,
Brown, Das, Guo, Hess, Hielscher, Hillman,
Homma, Huang, Hung, Jacobs, Kam, Konofagou,
Laine, Leonard, H. H. Lu, Mao, Morrison, Mow,
Sajda, Sheetz, Sia, and Vunjak-Novakovic.
Candidates for the M.S. degree and candidates for
the M.S. degree leading to the doctoral degree
may conduct an investigation of some problem in
biomedical engineering. No more than 6 points in
this course may be counted for graduate credit,
and this credit is contingent upon the submission
of an acceptable term report.
BMEN E9500x or y, or s Doctoral research
1 to 6 pts. Professors Anastassiou, Ateshian,
Brown, Das, Guo, Hess, Hielscher, Hillman,
Homma, Huang, Hung, Jacobs, Kam, Konofagou,
Laine, Leonard, H. H. Lu, Mao, Morrison, Mow,
Sajda, Sheetz, Sia, and Vunjak-Novakovic.
All doctoral candidates (Ph.D., Eng.Sc.D., and
M.D./Ph.D.) are required to make an original
investigation of a problem in biomedical engineering,
the results of which are presented in the
dissertation. No more than 12 points of credit in
this course may be granted toward the degree.
Doctoral candidates admitted as M.S. candidates
leading to the doctoral degree should not register
for this course.
BMEN E9700x or y Biomedical engineering
seminar
Sem: 1. 0 pt. Professor Sia.
All matriculated graduate students are required to
attend the seminar as long as they are in residence.
No degree credit is granted. The seminar is a
principal medium of communication among those
with biomedical engineering interests within the
University. Guest speakers from other institutions,
Columbia faculty, and students within the
Department who are advanced in their studies
frequently offer sessions.
BMEN E9800x or y, or s Doctoral research
instruction
3, 6, 9, or 12 pts. Professors Anastassiou, Ateshian,
Brown, Das, Guo, Hess, Hielscher, Hillman,
Homma, Huang, Hung, Jacobs, Kam, Konofagou,
Laine, Leonard, H. H. Lu, Mao, Morrison, Mow,
Sajda, Sheetz, Sia, and Vunjak-Novakovic.
Only candidates for the Eng.Sc.D. degree in
biomedical engineering must register for 12 points
of doctoral research instruction. Registration may
not be used to satisfy the minimum residence
requirement for the degree. Not for Ph.D. candidates.
BMEN E9900x or y, or s Doctoral dissertation
0 pts. Professors Anastassiou, Ateshian, Brown,
Das, Guo, Hess, Hielscher, Hillman, Homma,
Huang, Hung, Jacobs, Kam, Konofagou, Laine,
Leonard, H. H. Lu, Mao, Morrison, Mow, Sajda,
Sheetz, Sia, and Vunjak-Novakovic.
A candidate for the doctorate in biomedical
engineering is required to register for this course
in every term after the student’s course work has
been completed and until the dissertation has
been accepted.
SEAS 2009–2010