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NEW CLASS ROOM/SCHEDULE:
ROOM NCE: 302
NCE is located just above the bookstore
TUESDAY 8-9:30
FRIDAY 3-4:30
HANDOUTS:
Course Description ECE 491c
Structure of Paper Critiques
Structure of Review Papers
CRITIQUE PRESENTATION SCHEDULE
I. MICROFLUIDICS
Wednesday January 10:
Carolina Tropini:
Thorsen T, Maerkl
SJ, Quake SR, Microfluidic Large - Scale Integration (2002), Science 298
(5593): 580-584
Unger MA, Chou
HP, Thorsen T, Scherer A, Quake SR, Monolithic microfabricated valves
and pumps by multilayer soft lithography (2000), Science 288 (5463): 113-116
power
point presentation
Friday January 12:
Veronique Lecault:
Balagadde
FK, You LC, Hansen CL, et al., Long-term monitoring of bacteria undergoing
programmed population control in a microchemostat (2005), Science
309 (5731): 137-140
supplemental material
power
point presentation
Tuesday January 16:
Gabriel Man:
Beebe DJ, Moore JS, Bauer JM, Yu Q, Liu RH, Devadoss C, Jo BH, Functional
hydrogel structures for autonomous flow control inside microfluidic channels
(2000), Nature 404 (6778)
power
point presentation
Wenjia Pan:
Song
H, Tice JD, Ismagilov RF, A microfluidic system for controlling reaction
networks in time (2000), ANGEWANDTE CHEMIE-INTERNATIONAL EDITION 42 (7):
768-772 2003
power
point presentation
II. MICROARRAYS
Friday Jan 19:
Carl Hansen
MacBeath
G and Schreiber SL, Printing Proteins as Microarrays for High-Throughput
Function Determination (2000), Science 289: 1760-1763
Ramachandran
N, Hainsworth E, Bhullar B, Eisenstein S, Rosen B, Lau AY, Walter JC,
LaBaer J, Self-assembling protein microarrays (2004), Science 305 (5680):
86-90 JUL 2 2004
power
point presentation
Tuesday January 23:
Tim Ren:
Maerkl SA, Quake SR,
A Systems Approach to Measuring the Binding Energy Landscapes of Transcription
Factors
(2007), Science 315: 233-237
power
point presentation
Class Discussion:
Ouyang
Z, et al., Preparing Protein Microarrays by Soft-Landing of Mass-Selected
Ions (2003), Science 301: 1351-1354
III. DNA SEQUENCING TECHNOLOGIES:
Friday January 26:
Colin Russel
Margulies
M et al., Genome sequencing in microfabricated high-density picolitre
reactors (2005), NATURE 437 (7057)
power
point presentation
Payam Mousavi:
Brenner
S et al., Gene expression analysis by massively parallel signature sequencing
(MPSS) on microbead arrays (2000), Nature Biotechnology NATURE BIOTECHNOLOGY
18 (6): 630-634 JUN 2000
power point presentation
Tuesday January 30:
Veronique Lecault
Braslavsky
I, Hebert B, Kartalov E, Quake SR, Sequence information can be obtained
from single DNA molecules (2003). PNAS 100 (7): 3960-3964 APR 1 2003
power
point presentation
Gabriel Man:
Levene
MJ, et al., Zero-Mode Waveguides for Single-Molecule Analysis at High
Concentrations (2003). Science (299)
power
point presentation
IV. SINGLE CELL ANALYSIS:
Friday February 2: Visiting Insructor, Didier Falconnet
Nahid Jetha:
Cai
L, Friedman N, Xie XS Stochastic protein expression in individual cells
at the single molecule level
NATURE 440 (7082): 358-362 MAR 16 2006
power
point presentation
Wen Pan:
Huang
B, Wu HK, Bhaya D, et al. Counting low-copy number proteins in a single
cell
SCIENCE 315 (5808): 81-84 JAN 5 2007
power point presentation
Tuesday February 6:
Carolina Tropini:
Elowitz
MB, Leibler S A synthetic oscillatory network of transcriptional regulators
NATURE 403 (6767): 335-338 JAN 20 2000
power point presentation
Tim Ren:
Ottesen
EA, Hong JW, Quake SR, et al. Microfluidic digital PCR enables multigene
analysis of individual environmental bacteria SCIENCE 314 (5804): 1464-1467
DEC 1 2006
power point presentation
V. NANOPARTICLES:
Friday February 9:
Colin Russel:
Chan WCW,
Nie SM Quantum dot bioconjugates for ultrasensitive nonisotopic detection
SCIENCE 281 (5385): 2016-2018 SEP 25 1998
power
point presentation
Payam Mousavi:
Han
MY, Gao XH, Su JZ, et al. Quantum-dot-tagged microbeads for multiplexed
optical coding of biomolecules
NATURE BIOTECHNOLOGY 19 (7): 631-635 JUL 2001
power point presentation
Tuesday February 13 - *** CLASS 8:30 - 9:30 ****: Visiting Instructor
Jamie Piret
Nahid Jetha:
Cao YWC, Jin
RC, Mirkin CA Nanoparticles with Raman spectroscopic fingerprints for
DNA and RNA detection
SCIENCE 297 (5586): 1536-1540 AUG 30 2002
power point presentation
VI. MASS SPECTROMETRY:
Friday February 16: Visiting Instructor Leonard Foster, UBC Proteomics
Colin Russel:
Shao-En
Ong, Irina Kratchmarova, and Matthias Mann, Properties of 13C-Substituted
Arginine in Stable Isotope Labeling by Amino Acids in Cell Culture (SILAC),
Journal of Proteome Research (2003), 2, 173- 181
Friday February 16:
Carolina Tropini:
Olsen et
al., Parts per Million Mass Accuracy on an Orbitrap Mass Spectrometer
via LockMass Injection into a C-trap, (2005) Molecular & Cellular
Proteomics 4 (12)
VII. NEMS
Tuesday February 27:
Gabriel Man:
Cui
Y, Wei QQ, Park HK, et al. Nanowire nanosensors for highly sensitive and
selective detection of biological and chemical species SCIENCE 293 (5533):
1289-1292 AUG 17 2001
Wen Pan:
Fritz
J, Baller MK, Lang HP, et al. Translating biomolecular recognition into
nanomechanics
SCIENCE 288 (5464): 316-318 APR 14 2000
Friday March 2:
Nahid Jetha:
Melosh
NA, Boukai A, Diana F, et al. Ultrahigh-density nanowire lattices and
circuits
SCIENCE 300 (5616): 112-115 APR 4 2003
Payam Mousavi:
Wang
WU, Chen C, Lin KH, et al. Label-free detection of small-molecule-protein
interactions by using nanowire nanosensors PROCEEDINGS OF THE NATIONAL
ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 102 (9): 3208-3212
MAR 1 2005
VIII. SELF ASSEMBLY AND BIOMIMETIC DEVICES
Tuesday March 6:
Tim Ren:
Rothemund
PWK Folding DNA to create nanoscale shapes and patterns
NATURE 440 (7082): 297-302 MAR 16 2006
Nahid Jetha:
Gracias
DH, Tien J, Breen TL, et al. Forming electrical networks in three dimensions
by self-assembly
SCIENCE 289 (5482): 1170-1172 AUG 18 2000
Friday March 9:
Veronique Lecault:
Jeong
KH, Kim J, Lee LP Biologically inspired artificial compound eyes
SCIENCE 312 (5773): 557-561 APR 28 2006
Gabriel Man:
Mao
CB, Solis DJ, Reiss BD, et al. Virus-based toolkit for the directed synthesis
of magnetic and semiconducting nanowires SCIENCE 303 (5655): 213-217 JAN
9 2004
IX. Single Molecule
Techniques
Tuesday MArch 13:
Tim Ren:
Ando
T, Kodera N, Takai E, et al.A high-speed atomic force microscope for studying
biological macromolecules
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF
AMERICA 98 (22): 12468-12472 OCT 23 2001
Colin Russel:
Visscher
K, Schnitzer MJ, Block SM Single kinesin molecules studied with a molecular
force clamp
NATURE 400 (6740): 184-189 JUL 8 1999
Friday March 16:
Carolina Tropini:
Warren
L, Bryder D, Weissman IL, et al. Transcription factor profiling in individual
hernatopoietic progenitors by digital RT-PCR PROCEEDINGS OF THE NATIONAL
ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 103 (47): 17807-17812
NOV 21 2006
Wen Pan:
Yu
J, Xiao J, Ren XJ, et al. Probing gene expression in live cells, one protein
molecule at a time
SCIENCE 311 (5767): 1600-1603 MAR 17 2006
Tuesday March 20:
Payam Mousavi:
Ionescu-Zanetti
C, Shaw RM, Seo JG, et al.Mammalian electrophysiology on a microfluidic
platform
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF
AMERICA 102 (26): 9112-9117 JUN 28 2005
Veronique Lecault:
Nam
JM, Thaxton CS, Mirkin CA Nanoparticle-based bio-bar codes for the ultrasensitive
detection of proteins
SCIENCE 301 (5641): 1884-1886 SEP 26 2003
Friday March 23:
Colin Russel: Nanoscale Technologies in Cancer Treatment
Gabriel Man: Applications of Inkjet Printing to Tissue Engineering and
Bio-Microarray Fabrication
Tuesday March 27:
Tim Ren: Methods and Application of Nano-Devices in Drug Delivery
Nahid Jetha: Single Molecules Analysis Using Nanometer-Scael Pores
Tuesday April 3:
Veronique Lecault: Applications of Microfluidics in Mammalian Cell Culture
Wenjia Pan: BioMEMS Technologies for Neural Signal Control
Tuesday April 10:
Payam Mousavi: BioMEMS Applications to Electrophysiology
FRIDAY MARCH 23 - FRIDAY APRIL 6: STUDENT REVIEW PRESENTATIONS
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