Intramural Publications Page 1 (2009-2010)
2011
Kalish, H., Phillips, T.M. Micro-HPLC. In: Handbook of HPLC,
2nd Edition. Ed. D. Corradini. Publisher: CRC Press, Boca Raton, FL. 2011.
Kalish,
H. Invited book chapter in, "Application of micro-fluidic devices
for biomarker analysis in human biological fluids. In Biomedical Engineering, Trends,
Researches and Technologies." Publisher Intech, Austria, European Union, In
Press.
Zhao H, Balbo A, Brown PH, Schuck
P. The boundary structure in the analysis of reversibly interacting systems
by sedimentation velocity. Methods, in press.
Zhao H., Brown
PH, Schuck P. On the distribution of protein refractive
index increments. Biophys J, submitted.
Zhao H, Brown PH,
Magone TM, Schuck P. Gamma-crystallins of the eye lens have evolved
a molecular refractive function, in submission.
2010
Aronova MA, Sousa AA, Zhang G,
and Leapman RD. Limitations of beam damage in electron spectroscopic
tomography f embedded cells. J Microsc, in press.
Arumugam TV, Phillips
TM, Cheng A, Morrell CH, Mattson MP, and Wan R. Age and energy intake interact
to modify cell stress pathways and stroke outcome. Ann Neurol, 67:41-52,
2010.
Barda-Saad M, Shirasu N, Pauker MH, Hasan N, Perl O, Balbo
A, Yamaguchi H, Houtman JCD, Appella E, Schuck P, and
Samelson LE. Cooperative interactions at the SLP-76 complex are critical for acting
polymerization. (submitted)
Bhirde AA, Patel S, Sousa AA,
Patel V, Molinolo AA, Ji Y, Leapman RD, Gutkind JS, and Rusling
JF. Distribution and clearance of PEG-single walled carbon nanotube cancer drug
delivery vehicles in mice. Nanomedicine, in press.
Cao Y, Blount
BC, Valentin-Blasini L, Bernbaum JC, Phillips TM, and Rogan WJ.
Goitrogenic anions, thyroid stimulating hormone, and thyroid hormone in infants.
Environ Health Perspect, [Epub ahead of print] Apr 27, 2010.
Cohen
SD, Siemmens S, Phillips TM, and Kimmel PL. Factor and survival
analyses of cytokines in end-stage renal disease patients on hemodialysis. Kidney
International, 25:1239-1243, 2010.
Fukunaga M, Li TQ, van Gelderen P,
de Zwart JA, Shmueli K, Yao B, Lee J, Maric D, Aronova MA, Zhang
G, Leapman RD, Schenck JF, Merkle H, and Duyn JH. Layer-specific
variation of iron content in cerebral cortex as a source of MRI contrast. Proc
Natl Acad Sci USA, 1078:3834-9. [Epub ahead of print] Feb 3, 2010.
Hellberg M, Norlin N, Filippov A, Sousa AA, Gröbner G,
Leapman RD, Almqvist N, and Antzutkin ON. A study on aggregation
and morphology of the arctic mutation of alzheimer´s Ab peptide, Ab1-40(E22G), in aqueous solutions:
CD, TEM, STEM and in situ AFM analyses. Biophys J. (submitted)
Kalish
H and Phillips TM. Analysis of neurotrophins in human
serum by immunoaffinity capillary electrophoresis (ICE) following traumatic head
injury. J Chromatogr B, 878:194-200, 2010.
Kotova S,
Li M, Dimitriadis EK, and Craigie R. Nucleoprotein
intermediates in HIV-1 DNA integration visualized by atomic force microscopy. J
Mol Biol, [Epub ahead of print] Apr 21, 2010.
Kotova S,
Prasad K, Smith PD, Lafer EM, Nossal R, and Jin AJ.
AFM visualization of clathrin triskelia under fluid and in air. FEBS Lett,
584(1):44-8, Jan 4, 2010.
Liu W, Meyer J, Elster E, and Gorbach AM.
Observing temperature fluctuations in humans using infrared imaging. Extended
Abstract, 10th International Conference on Quantitative Infrared Thermography (QIRT),
in press.
Phillips TM, Kalish H, and Wellner
E. Measurement of inflammation biomarkers in human muscle biopsies by an
immunoaffinity lab-on-a-chip. Bioanalysis, in press.
Phillips
TM. Immunoaffinity techniques in analysis. J Chromatogr B, 878:113-114,
2010.
Phinney S, Crane N, Gage F, Gorbach AM,
and Elster E. Use of optical imaging and spectroscopy in assessment of organ perfusion.
Invited chapter in "Organ Perfusion and Culture Methodology", M. Yarmush
& R. Langer eds., Methods in Bioengineering (series), in press.
Ryan TM, Teoh CL, Griffin MD, Bailey MF, Schuck P, and Howlett
GJ. Phospholipids enhance nucleation but not elongation of apolipoprotein C-II amyloid
fibrils. J Mol Biol. [Epub ahead of print], Apr 28, 2010.
Schuck
P, and Zhao H. The role of mass transport limitation and
surface heterogeneity in the biophysical characterization of macromolecular binding
processes by SPR biosensing. Methods Mol Biol, 627:15-54, 2010.
Schuck
P. Diffusion of the reaction boundary of rapidly interacting macromolecules
in sedimentation velocity. Biophys J, in press.
Schuck P.
Fredholm integral equations in biophysical data analysis. Proceedings of the
IFMBE Conference SBEC, 2010. (submitted)
Schuck P.
Sedimentation patterns of rapidly reversible protein interactions. Biophys J,
98(9):2005-13, May 19, 2010.
Schuck P. Some statistical
properties of differencing schemes for baseline correction of sedimentation velocity
data. Anal Biochem, 401(2):280-7. [Epub ahead of print] Mar 3, 2010.
Scully CG, Liu W, Meyer J,
Dementyev A, Chon KH, Innominato P, Lévi F, and Gorbach
AM. Time-frequency analysis of skin temperature in a patient with a surface
tumor monitored with infrared imaging. Extended Abstract. 10th International
Conference on Quantitative Infrared Thermography (QIRT), in press.
Sens
KL, Zhang S, Jin P, DuanR, Zhang G, Parachini L, and Chen EH. An
arp2/3-mediated invasive podosome promotes fusion pore formation during myoblast
fusion. (submitted)
Sinha GP, Sabri F, Dimitriadis EK, and
Iwasa KH. Organization of membrane motor in outer hair cells: an atomic force microscopic
study. Pflugers Arch, 459(3):427-39, 2010. [Epub ahead of print] Oct 7,
2009.
Vu Q, Zhao M, Wellner E, Truong X,
Smith PD, and Jin AJ. Raman-AFM instrumentation
and characterization of SERS substrates and carbon nanotubes. To appear in IFMBE
Proceedings: 26th Southern Biomedical Engineering Conference 2010.
Wang
S, Zhang G, Sourbier C, and Neckers L. Induction of autophagy
by Hsp90 inhibitors. (submitted)
Zhao H, Brown PH,
Balbo A, Fernández-Alonso MD, Polishchuck N, Chaudhry C,
Mayer ML, Ghirlando R, and Schuck P. Accounting for solvent signal
offsets in the analysis of interferometric sedimentation velocity data. Macromol
Biosci, (10) 7: 736-745, 2010.
Zhi L, Mans J, Paskow MJ, Brown
PH, Schuck P, Jonji S, Natarajan K, and Margulies DH.
Direct interaction of the mouse cytomegalovirus m152/gp40 immunoevasin with RAE-1
isoforms. Biochemistry, 49(11):2443-53, 2010.
Zhu Q, Talton J, Zhang
G, Cunningham T, Kirk J, Epper B,Klinman DM, Belyakov IM, Sui Y, Gagnon
S, Mumper RJ, and Berzofsky JA. Oral targeting of nanoparticle vaccine to the large
intestine to combat genitorectal viral transmission. (submitted)
2009
Aronova MA, Kim, YC, Pivovarova NB, Andrews SB, and Leapman
RD. Quantitative EFTEM mapping of low calcium concentrations in biological
specimens. Ultramicroscopy, 109: 201-212, 2009.
Balbo A,
Zhao H, Brown PH, and Schuck P.
Assembly, loading, and alignment of an analytical ultracentrifuge sample cell. J
Vis Exp, Nov 5;(33). pii: 1530. doi: 10.3791/1530, 2009.
Bhirde AA,
Patel V, Gavard J, Zhang G, Sousa AA, Masedunskas
A, Leapman RD, Weigert R, Gutkind S, and Rusling JF. Targeted killing
of cancer cells in vivo and in vitro with EGF-directed carbon
nanotube-based drugs. ACS Nano, 3:307-316, 2009.
Bhirde AA, Sousa
AA, Patel V, Azari AA, Gutkind JS, Leapman RD,
and Rusling JF. Imaging the distribution of individual platinum-based anticancer
drug molecules attached to single-wall carbon nanotubes. Nanomedicine (Lond), 4(7):763-72,
2009.
Brown PH, Balbo A, and Schuck
P. On the analysis of sedimentation velocity in the study of protein complexes.
Eur Biohpys J Eur Biophys J, 38(8):1079-99. [Epub ahead of print] Jul
31, 2009.
Cai T, Hirai H, Fukushige T, Yu P, Zhang G, Notkins
AL, and Krause M. Loss of the transcriptional repressor PAG-3/Gfi-1 results in enhanced
neurosecretion that is dependent on the dense-core vesicle membrane protein IDA-1/IA-2.
PLoS Genet, 5:e1000447, 2009.
Cao Y, Rao SD, Phillips TM,
Umbach DM, Bernbaum JC, Archer JI, and Rogan WJ. Are breast-fed infant’s more
resilient? Feeding method and cortisol in infants. J Pediatr, 154(3):452-454,
2009.
Chaudhry C, Plested AJ, Schuck P, and Mayer
ML. Energetics of glutamate receptor ligand binding domain dimer assembly are modulated
by allosteric ions. Proc Natl Acad Sci USA, 106:12329-34, 2009.
Chaudhry
C, Weston MC, Schuck P, Rosenmund C, and Mayer ML. Stability of
ligand-binding domain dimer assembly controls kainite receptor desensitization.
EMBO J, 28:1518-1530, 2009.
Chen KG, Leapman RD,
Zhang G, Lai B, Valencia JC, Cardarelli CO, Vieira WD, Hearing
VJ and Gottesman MM. Influence of melanosome dynamics on melanoma drug sensitivity.
J Natl Cancer Inst, 101:1259-71, 2009.
Chen Z, Moayeri M, Crown
D, Emerson S, Gorshkova I, Schuck P, Leppla SH,
and Purcell RH. Novel chimpanzee/human monoclonal antibodies that neutralize anthrax
lethal factor and evidence for possible synergy with anti-protective antigen antibody.
Infect Immun, 77:3902-8, 2009.
Chen Z, Moayeri M, Zhao H,
Crown D, Leppla SH, and Purcell RH. Potent neutralization of anthrax edema toxin
by a humanized monoclonal antibody that competes with calmodulin for edema factor
binding. Proc Natl Acad Sci USA, 106:13487-92, 2009.
Gandjbakhche
A, Chernomordik V, Hassan M, Sviridov A, Smith P, Decherney A,
and Ulissi Z. Polarization adapter for colposcope. Employee invention report,
2009.
Gaynutdinov TI, Brown PH, Neumann RD, and Panyutin
IG. Human telomeric repeats overhanging of a duplex region fold in the parallel
propeller structure in Na+ solution. Nucleic Acids Res, 2009.
Gaynutdinov
TI, Brown PH, Neumann RD, Panyutin IG. Duplex formation at the
5’ end affects quadruplex conformation of the human telomeric repeat overhang
in sodium but not in potassium. Biochemistry, (48)47:11169-11177, 2009.
Glushakova S, Mazar J, Hohmann-Marriott MF, Hama E, and Zimmerberg
J. Irreversible effect of cysteine protease inhibitors on the release of malaria
parasites from infected erythrocytes. Cellular Microbiol, 11(1):95–105,
2009.
Gondeau C, Corradin G, Heitz F, Le Peuch C, Balbo A,
Schuck P, and Kajava A. The C-terminal domain of Plasmodium falciparum
merozoite surface protein 3 self-assembles into alpha-helical coiled coil tetramer.
Molecular & Biochemical Parasitology, 165:153-161, 2009.
Gorbach
AM, Leeser D, Wang H, Tadaki D, Fernandez C, DeStephano D, Hale D, Kirk
A, Gage F, and Elster E. Assessment of cadaveric organ viability
during pulsatile perfusion using infrared imaging. Transplantation, 87(8):1163-1166,
2009.
Gorbach AM, Wang H, Wiedenbeck B,
Liu W, Smith P, and Elster E. Functional assessment of hand vasculature
using infrared and laser speckle Imaging. Extended Abstract, SPIE Photonics
West, 7169-43, 2009.
Grundy GJ, Ramon-Maiques S, Dimitriadis
EK, Kotova S, Biertumpfel C, Heymann JB, Steven AC, Gellert
M, and Yang W. Initial stages of V(D)J recombination: the organization of RAG1/2
and RSS DNA in the postcleavage complex. Mol Cell, 35:217-27, 2009.
Hohmann-Marriott MF, Sousa AA, Azari
AA, Glushakova S, Zhang G, Zimmerberg J, and Leapman
RD. Nanoscale 3D cellular imaging by axial scanning transmission electron
tomography. Nat Methods, 6(10):729-31. [Epub ahead of print] Aug 30, 2009.
Jarisch WR, Aronova MA, and Speransky VV.
Performance advantages of high efficiency computed tomography (HECT). Extended 4-page
abstract (submitted) , 2009.
Jian X, Brown P, Schuck
P, Gruschus JM, Balbo A, Hinshaw JE, and Randazzo PA.
Autoinhibition of Arf GTPase-activating protein activity by the BAR domain in ASAP1.
J Biol Chem, 284:1652-63, 2009.
Kalish H and Phillips
TM. The application of micro-analytical techniques to biomedical analysis.
Curr Pharm Anal, 5:208-228, 2009.
Kalish H and Phillips
TM. Application of immunoaffinity capillary electrophoresis (ICE) to the
measurements of secreted neuropeptides by low density cell cultures. J Sep Sci,
32(10):1605-1612, 2009.
Kobayashi H, Kosaka N, Ogawa M, Morgan NY,
Smith PD, Murray CB, Ye X, Collins J, Kumar GA, Bell H, and Choyke
PL. In vivo multiple color lymphatic imaging using upconverting nanocrystals.
Journal of Materials Chemistry, in press.
Kotova SL,
Vu Q, Smith PD,and Jin AJ. Characterization
of nanometric qdots by AFM and optical microscopy, in IFMBE Proceedings: 25th
Southern Biomedical Engineering Conference 2009, McGoron A, Li C, Lin W, eds,
Springer (Berlin/Germany), pp. 115-118, 2009.
Kumar J, Schuck P,
Jin R, and Mayer ML. The N-terminal domain of GluR6-subtype glutamate receptor ion
channels. Nat Struct Mol Biol, 16:631-8, 2009.
Lin DC, Shreiber
DI, Dimitriadis EK, and Horkay F. Spherical indentation of soft
matter beyond the Hertzian regime: numerical and experimental validation of hyperelastic
models. Biomech Model Mechanobiol, 8:345-58, 2009.
Morgan
NY, Kramer-Marek G, Smith PD, Camphausen K, and Capala
J. Nanoscintillator conjugates as photodynamic therapy -based radiosensitizers:
Calculation of required physical parameters. Radiation Research, 171: 236-244,
2009.
Paravastu AK, Qahwash I, Leapman RD, Meredith SC,
and Tycko R. Seeded growth of beta-amyloid fibrils from Alzheimer’s brain-derived
fibrils produces a novel fibril structure. Proc Natl Acad Sci USA, 106(18):7443-7448,
2009.
Phillips TM and Wellner E. Chip-based
immunoaffinity CE: Application to the measurement of brain-derived neurotropic factor
in skin biopsies. Electrophoresis, in press.
Phillips TM,
Wellner E, and Kalish H. Receptor affinity
capillary electrophoresis for the measurement of bioactive cytokines in human biological
fluids. Electrophoresis, 30:3947-3954, 2009.
Plassmeyer ML, Reiter
K, Shimp RL, Kotova S, Smith PD, Hurt DE, House
B, Zou X, Zhang Y, Hickman M, Uchime O, Herrera R, Nguyen V, Glen J, Lebowitz J,
Jin AJ, Miller LH, Macdonald NJ, Wu Y, and Narum DL. The structure
of the Plasmodium falciparum circumsporozoite protein, a leading malaria
vaccine candidate. J Biol Chem, 284:26951-26963. 10.1074/jbc.M109.013706,
2009.
Rieke ER, Amaral JA, Becerra P, and Lutz RJ. Sustained
subconjunctival protein delivery using a thermosetting gel delivery system. J
Ocul Pharmacol Ther, in press.
Sarin H, Kanevesky AS, Wu H, Sousa
AA, Wilson CM, Aronova MA, Griffiths GL, Leapman
RD, and Vo HQ. Physiologic upper limit of pore size in the blood-tumor
barrier of malignant solid tumors. J Transl Med, 7: 51. doi:10.1186/1479-5876-7-51,
2009.
Savastano DM, Gorbach AM, Eden HS,
Brady SM, Reynolds JC, and Yanovski JA. Adiposity and human regional body temperature.
Am J Clin Nutr, 90:1-8, 2009.
Schuck P. On computational
approaches for size-and-shape distributions from sedimentation velocity analytical
ultracentrifugation. Eur Biophys J. [Epub ahead of print] , Oct 6, 2009.
Sousa AA, Aronova MA, Wu H, Sarin H, Griffiths
GL,and Leapman RD. Determining molecular mass distributions
and compositions of functionalized dendrimer nanoparticles. Nanomedicine,
4: 391-399, 2009.
Sousa AA, Hohmann-Marriott MF,
Zhang G,and Leapman RD. Monte Carlo electron-trajectory
simulations in bright-field and dark-field STEM: implications for tomography of
thick biological specimens. Ultramicroscopy, 109:213-221, 2009.
Tsai
CW, Duggan PF, Jin AJ, MacDonald NJ, Kotova S,
Lebowitz J, Hurt DE, Shimp Jr RL, Lambert L, Miller LH, Long CA, Saul A, and Narum
DL. Characterization of a protective Escherichia coli-expressed Plasmodium
falciparum merozoite surface protein 3 indicates a non-linear, multi-domain
structure. Mol Biochem Parasitol, 164: 45-56, 2009.
Xiaoying J,
Brown PH, Schuck P, Gruschus JM, Balbo
A, Hinshaw JE, and Randazzo PA. Autoinhibition of Arf GTPase-activating
protein activity by the BAR domain in ASAP1. J Biol Chem, 284:1652-1663,
2009.
Zhao H and Schuck P. The role of
mass transport limitation and surface heterogeneity in the biophysical characterization
of macromolecular binding processes by SPR biosensing. In: "SPR Protocols,"
N. De Mol (Editor), Methods in Molecular Biology (Series, Walker JM ed.),
Humana Press, in press.
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Last Updated On 02/25/2011