querying next generation sequencing data for insight into the ion channel transcriptome (channelome)...

1
slightly higher pressures, MACS can greatly slow down the movement of cytoplasmic molecules, likely due to increasing the volume fraction of macro- molecules. Aside from being a merely biophysical observation, this phenome- non practically enables digital counting of low-abundance proteins via standard total internal reflection microscopy since the molecules diffuse marginally dur- ing a 30-milisecond exposure time and appear as diffraction limited spots. 3) Capturing rare events. Operating MACS in a mode where cells flow continu- ously as a single-layer enables the user to monitor up to 10 million cells per hour. On-the-fly image analysis then allows the device to instantaneously stop the flow as a cell of interest flows through, to acquire a detailed snapshot. 2572-Pos Board B591 Electro-Optofluidicis: Achieving Dynamic Control On-Chip Mohammad Soltani 1,2 , James Inman 1 , Michal Lipson 3 , Michelle D. Wang 1,2 . 1 Department of Physics, Cornell University, Ithaca, NY, USA, 2 Howard Hughes Medical Institute, Cornell University, Ithaca, NY, USA, 3 Kavli Insitute at Cornell University, Ithaca, NY, USA. Integrated optofluidics holds abundant promise for high throughput detection, study, and analysis of biochemical molecules and nanoparticles on chip. A vital element in integrated optofluidics is dynamic tuning and precise control of photonic devices, especially when employing electronic techniques which are challenging to utilize in an aqueous environment. We overcome this challenge by introducing a new platform in which the photonic device is controlled using electro-optical phase tuning. The phase tuning is generated by the thermo-optic effect using an on-chip electric microheater located outside the fluidic channel, and is transmitted to the optofluidic device through optical waveguides. The microheater is compact, high-speed (> 18 kHz), and consumes low power (~ mW). We demonstrate dynamic optical trapping control of nanoparticles by an optofluidic resonator. This novel electro-optofluidic platform allows the realization of high throughput optofluidic devices with switching, tuning, and reconfiguration capability, and promises new directions in optofluidics. 2573-Pos Board B592 Real-Time, Label-Free Sensing of Epidermal Growth Factor-Induced Changes of Cell Adhesion Jennifer Y. Chen 1 , Marcela P. Garcia 1 , Ruiguo Yang 2 , Ammar Shahid 1 , Ning Xi 2 , Jun Xi 1 . 1 Drexel University, Philadelphia, PA, USA, 2 Michigan State University, East Lansing, MI, USA. Conventional approaches for assessing changes in cell adhesion often lack of time resolution and require invasive force or nonnative label. To circumvent such problems, we have developed an innovative approach of using quartz crys- tal microbalance with dissipation monitoring (QCM-D) to track real-time changes in cell adhesion. We have experimentally and computationally estab- lished a correlation between time-dependent changes in energy dissipation factor (DD) measured from the QCM-D and the level of cell adhesion complex (i.e., focal adhesions). Based on this correlation, we have been able to investigate the epidermal growth factor-induced change in cell adhesion and its regulation. We have also been able to evaluate the effects of various pharmacological interventions of this dynamic change in cell adhesion. The results of our study suggest that this QCM-D-based approach can potentially be exploited for fundamental study of cellular processes such as cell signaling, trafficking, and mechanotransduction, as well as for biomedical research on drug and biomarker screening. 2574-Pos Board B593 Using Hydrodynamic Forces to Trap and Study Membrane-Associated Molecules in Lipid Bilayers Peter Jo ¨nsson 1 , Bengt Jo ¨nsson 2 , Veronica T. Chang 3 , Simon J. Davis 3 , David Klenerman 1 . 1 University of Cambridge, Cambridge, United Kingdom, 2 Lund University, Lund, Sweden, 3 University of Oxford, Oxford, United Kingdom. In this presentation I show how hydrodynamic forces can be used to locally trap and move membrane-associated molecules in lipid bilayers. We use the liquid flow through a ~1 mm pipette to create a lo- calized force field that acts on molecules protruding from the lipid bilayer (see Fig. 1). In addition to introducing the hydrody- namic trap and some of the possibilities and challenges of using this technique on living cells, I will also present examples of using this technique to: (i) vary the concentration of molecules in lipid bilayers, (ii) study in- termolecular interactions between different membrane-bound proteins as a function of surface coverage and (iii) induce and study pore formation in lipid bilayers. In particular, I show how the hydrodynamic trap can be used to obtain informa- tion about the orientation and mechanical properties of the extracellular domain of the tyrosine phosphatase CD45 involved in the early stages of T-cell immune response. 2575-Pos Board B594 Superresolution Inter-Surface Interaction Energy Mapping using Particle Tracking Microscopy (PTE) Dimitrios Stamou, Andreas Kunding, Emil Pedersen. University Copenhagen, Copenhagen, Denmark. In biology, binding reactions taking place between apposing surfaces, in contrast to reactions in solution, are controlling a plethora of critical processes including cell adhesion and motility, immunological signaling, neurotransmis- sion etc. However he techniques developed to quantitatively characterize interfacial reactions (e.g. the surface force apparatus, surface plasmon reso- nance and quartz crystal microbalance) are either not at all amenable to imag- ing or have at best a resolution of tens of micrometers. Here, we monitored the transient interaction of diffusing particles with a surface to measure quantita- tively and under equilibrium conditions, inter-surface on-rates, off-rates and energies for binding reactions (1, 2). These interactions could then be laterally resolved to produce an energy map with sub-diffraction-limited resolution. This novel method was termed Particle Tracking Microscopy. References: 1. Kunding, A.H., M.W. Mortensen, S.M. Christensen, V.K. Bhatia, I. Makarov, et al. 2011. Intermembrane Docking Reactions are Regulated by Membrane Curvature. Biophysical Journal. 101: 2693-2703. 2. Christensen, S.M., M.W. Mortensen, and D.G. Stamou. 2011. Single vesicle assaying of SNARE-synaptotagmin-driven fusion reveals fast and slow modes of both docking and fusion and intrasample heterogeneity. Biophysical Journal. 100: 957-967. 2576-Pos Board B595 Querying Next Generation Sequencing Data for Insight into the Ion Channel Transcriptome (Channelome) of Cultured Human Astrocytes V. Bleu Knight, Elba Serrano. New Mexico State University, Las Cruces, NM, USA. In vitro culture systems are useful for investigations of cellular function and molecular interactions in a controlled environment. The experimental utility of a cell culture system is heightened by genetic characterization of the cell population under study and by knowledge of the extent to which the culture population resembles the tissue of origin. Here we report outcomes of Next Generation Sequencing (NGS) efforts to acquire a comprehensive view of the cadre of ion channels expressed in cultures of normal human astrocytes (NHA; Lonza). Experiments were undertaken with the goals of identifying novel ion channel candidates for glial function, and of assessing whether the cell culture population expressed ion channels with an established role in astro- cyte function. Total RNA isolated from normal human astrocytes that were cultured for 5 days after passage was sequenced with Illumina-Solexa technol- ogy at the National Center for Genome Resources (NCGR). Approximately 23 million reads mapped to 18,470 genes on the human reference genome (HUGO nomenclature; build 37). Analysis revealed the expression of genes representa- tive of glial and neural lineages. Genes characteristic of astrocytes were more prevalent than genes that typify oligodendrocytes. The NHA ion channel tran- scriptome comprised over 200 genes for voltage-gated and ligand-gated ion channels and represented 0.24% of the unique RNA Seq reads. Of particular interest were the many expected and novel genes for potassium channels (KCN-x), calcium channels (CACNA-x), and glutamate receptors (GRI-x) that were represented in the NHA channelome. Results provide a rich resource for further investigations of ion channel function, signaling pathways, and gene networks in the normal human astrocyte cell population. Supported by NIH (P50GM068762, P20RR016480). Computational Methods I 2577-Pos Board B596 Coarse Grained Molecular Dynamics Simulation of the Interaction of Cytochrome C with Lipid Bilayers Dariush Mohammadyani, Valerian E. Kagan, Judith Klein-Seetharaman. University of Pittsburgh, Pittsburgh, PA, USA. In addition to a well-characterized role of cytochrome c (cyt c) as a pro- apoptotic factor acting after its release from mitochondria into the cytosol, a new pro-apoptotic function of the intra-mitochondrial pool of cyt c has been recently identified. Early in apoptosis, cyt c interacts with a mitochon- dria-unique phospholipid, cardiolipin (CL), that massively transmigrates from the inner to the outer mitochondrial membrane. In the complexes thus Fig. 1. Liquid flow through a conical pipette is used to locally trap mole- cules in lipid bilayers. Tuesday, February 5, 2013 503a

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Tuesday, February 5, 2013 503a

slightly higher pressures, MACS can greatly slow down the movement ofcytoplasmic molecules, likely due to increasing the volume fraction of macro-molecules. Aside from being a merely biophysical observation, this phenome-non practically enables digital counting of low-abundance proteins via standardtotal internal reflection microscopy since the molecules diffuse marginally dur-ing a 30-milisecond exposure time and appear as diffraction limited spots. 3)Capturing rare events. Operating MACS in a mode where cells flow continu-ously as a single-layer enables the user to monitor up to 10 million cells perhour. On-the-fly image analysis then allows the device to instantaneouslystop the flow as a cell of interest flows through, to acquire a detailed snapshot.

2572-Pos Board B591Electro-Optofluidicis: Achieving Dynamic Control On-ChipMohammad Soltani1,2, James Inman1, Michal Lipson3,Michelle D. Wang1,2.1Department of Physics, Cornell University, Ithaca, NY, USA, 2HowardHughes Medical Institute, Cornell University, Ithaca, NY, USA, 3KavliInsitute at Cornell University, Ithaca, NY, USA.Integrated optofluidics holds abundant promise for high throughput detection,study, and analysis of biochemical molecules and nanoparticles on chip. A vitalelement in integrated optofluidics is dynamic tuning and precise control ofphotonic devices, especially when employing electronic techniques which arechallenging to utilize in an aqueous environment. We overcome this challengeby introducing a new platform in which the photonic device is controlled usingelectro-optical phase tuning. The phase tuning is generated by the thermo-opticeffect using an on-chip electric microheater located outside the fluidic channel,and is transmitted to the optofluidic device through optical waveguides. Themicroheater is compact, high-speed (> 18 kHz), and consumes low power(~ mW). We demonstrate dynamic optical trapping control of nanoparticles byan optofluidic resonator. This novel electro-optofluidic platform allows therealization of high throughput optofluidic devices with switching, tuning, andreconfiguration capability, and promises new directions in optofluidics.

2573-Pos Board B592Real-Time, Label-Free Sensing of Epidermal Growth Factor-InducedChanges of Cell AdhesionJennifer Y. Chen1, Marcela P. Garcia1, Ruiguo Yang2, Ammar Shahid1,Ning Xi2, Jun Xi1.1Drexel University, Philadelphia, PA, USA, 2Michigan State University,East Lansing, MI, USA.Conventional approaches for assessing changes in cell adhesion often lack oftime resolution and require invasive force or nonnative label. To circumventsuch problems, we have developed an innovative approach of using quartz crys-tal microbalance with dissipation monitoring (QCM-D) to track real-timechanges in cell adhesion. We have experimentally and computationally estab-lished a correlation between time-dependent changes in energy dissipationfactor (DD) measured from the QCM-D and the level of cell adhesion complex(i.e., focal adhesions). Based on this correlation, we have been able toinvestigate the epidermal growth factor-induced change in cell adhesion andits regulation. We have also been able to evaluate the effects of variouspharmacological interventions of this dynamic change in cell adhesion. Theresults of our study suggest that this QCM-D-based approach can potentiallybe exploited for fundamental study of cellular processes such as cell signaling,trafficking, and mechanotransduction, as well as for biomedical research ondrug and biomarker screening.

2574-Pos Board B593Using Hydrodynamic Forces to Trap and Study Membrane-AssociatedMolecules in Lipid BilayersPeter Jonsson1, Bengt Jonsson2, Veronica T. Chang3, Simon J. Davis3,David Klenerman1.1University of Cambridge, Cambridge, United Kingdom, 2Lund University,Lund, Sweden, 3University of Oxford, Oxford, United Kingdom.In this presentation I show how hydrodynamic forces can be used to locally trapand move membrane-associated molecules in lipid bilayers. We use the liquid

Fig. 1. Liquid flow through a conicalpipette is used to locally trap mole-cules in lipid bilayers.

flow through a ~1 mm pipette to create a lo-calized force field that acts on moleculesprotruding from the lipid bilayer (see Fig.1). In addition to introducing the hydrody-namic trap and some of the possibilities andchallenges of using this technique on livingcells, I will also present examples of usingthis technique to: (i) vary the concentrationof molecules in lipid bilayers, (ii) study in-termolecular interactions between differentmembrane-bound proteins as a function of

surface coverage and (iii) induce and study pore formation in lipid bilayers.In particular, I show how the hydrodynamic trap can be used to obtain informa-tion about the orientation and mechanical properties of the extracellular domainof the tyrosine phosphatase CD45 involved in the early stages of T-cell immuneresponse.

2575-Pos Board B594Superresolution Inter-Surface Interaction Energy Mapping using ParticleTracking Microscopy (PTE)Dimitrios Stamou, Andreas Kunding, Emil Pedersen.University Copenhagen, Copenhagen, Denmark.In biology, binding reactions taking place between apposing surfaces, incontrast to reactions in solution, are controlling a plethora of critical processesincluding cell adhesion and motility, immunological signaling, neurotransmis-sion etc. However he techniques developed to quantitatively characterizeinterfacial reactions (e.g. the surface force apparatus, surface plasmon reso-nance and quartz crystal microbalance) are either not at all amenable to imag-ing or have at best a resolution of tens of micrometers. Here, we monitored thetransient interaction of diffusing particles with a surface to measure quantita-tively and under equilibrium conditions, inter-surface on-rates, off-rates andenergies for binding reactions (1, 2). These interactions could then be laterallyresolved to produce an energy map with sub-diffraction-limited resolution. Thisnovel method was termed Particle Tracking Microscopy.References:1. Kunding, A.H., M.W. Mortensen, S.M. Christensen, V.K. Bhatia, I.Makarov, et al. 2011. Intermembrane Docking Reactions are Regulated byMembrane Curvature. Biophysical Journal. 101: 2693-2703.2. Christensen, S.M., M.W. Mortensen, and D.G. Stamou. 2011. Single vesicleassaying of SNARE-synaptotagmin-driven fusion reveals fast and slow modesof both docking and fusion and intrasample heterogeneity. Biophysical Journal.100: 957-967.

2576-Pos Board B595Querying Next Generation Sequencing Data for Insight into the IonChannel Transcriptome (Channelome) of Cultured Human AstrocytesV. Bleu Knight, Elba Serrano.New Mexico State University, Las Cruces, NM, USA.In vitro culture systems are useful for investigations of cellular function andmolecular interactions in a controlled environment. The experimental utilityof a cell culture system is heightened by genetic characterization of the cellpopulation under study and by knowledge of the extent to which the culturepopulation resembles the tissue of origin. Here we report outcomes of NextGeneration Sequencing (NGS) efforts to acquire a comprehensive view ofthe cadre of ion channels expressed in cultures of normal human astrocytes(NHA; Lonza). Experiments were undertaken with the goals of identifyingnovel ion channel candidates for glial function, and of assessing whether thecell culture population expressed ion channels with an established role in astro-cyte function. Total RNA isolated from normal human astrocytes that werecultured for 5 days after passage was sequenced with Illumina-Solexa technol-ogy at the National Center for Genome Resources (NCGR). Approximately 23million reads mapped to 18,470 genes on the human reference genome (HUGOnomenclature; build 37). Analysis revealed the expression of genes representa-tive of glial and neural lineages. Genes characteristic of astrocytes were moreprevalent than genes that typify oligodendrocytes. The NHA ion channel tran-scriptome comprised over 200 genes for voltage-gated and ligand-gated ionchannels and represented 0.24% of the unique RNA Seq reads. Of particularinterest were the many expected and novel genes for potassium channels(KCN-x), calcium channels (CACNA-x), and glutamate receptors (GRI-x)that were represented in the NHA channelome. Results provide a rich resourcefor further investigations of ion channel function, signaling pathways, and genenetworks in the normal human astrocyte cell population. Supported by NIH(P50GM068762, P20RR016480).

Computational Methods I

2577-Pos Board B596Coarse Grained Molecular Dynamics Simulation of the Interaction ofCytochrome C with Lipid BilayersDariush Mohammadyani, Valerian E. Kagan, Judith Klein-Seetharaman.University of Pittsburgh, Pittsburgh, PA, USA.In addition to a well-characterized role of cytochrome c (cyt c) as a pro-apoptotic factor acting after its release from mitochondria into the cytosol,a new pro-apoptotic function of the intra-mitochondrial pool of cyt c hasbeen recently identified. Early in apoptosis, cyt c interacts with a mitochon-dria-unique phospholipid, cardiolipin (CL), that massively transmigratesfrom the inner to the outer mitochondrial membrane. In the complexes thus