Publications

Abstracts

Patents

2024

  • Kristofor E. Pas, Kadharbatcha S. Saleem, Peter J. Basser, Alexandru V. Avram. Direct segmentation of cortical cytoarchitectonic domains using ultra-high-resolution whole-brain diffusion MRI. bioRxiv 2024.10.14.618245; doi: https://doi.org/10.1101/2024.10.14.618245 external link
  • B. J. Roth and P. J. Basser, "Correction to "a model of the stimulation of a nerve fiber by electromagnetic induction"," in IEEE Transactions on Biomedical Engineering, vol. 39, no. 11, pp. 1121-1121, Nov. 1992, doi: 10.1109/TBME.1992.10659064 external link.
  • Horkay F, Basser PJ, Geissler E. Cartilage extracellular matrix polymers: hierarchical structure, osmotic properties, and function. Soft Matter. 2024 Jul 31;20(30):6033-6043. doi: 10.1039/d4sm00617h. PMID: 39028032.
  • Teddy X. Cai, Nathan H. Williamson, Rea Ravin, Peter J. Basser. The Diffusion Exchange Ratio (DEXR): A minimal sampling of diffusion exchange spectroscopy to probe exchange, restriction, and time-dependence. Journal of Magnetic Resonance, 2024, 107745, ISSN 1090-7807, https://doi.org/10.1016/j.jmr.2024.107745 external link.
  • F Abate, A Adu-Amankwah, KA Ae-Ngibise, FA Agbokey, VA Agyemang, CT Agyemang, C Akgun, J Ametepe, T Arichi, KP Asante, S Balaji, L Baljer, PJ Basser, J Beauchemin, C Bennallick, Y Berhane, Y Boateng-Mensah, NJ Bourke, L Bradford, MMK Bruchhage, R Cano Lorente, P Cawley, M Cercignani, V D Sa, A de Canha, N de Navarro, DC Dean, J Delarosa, KA Donald, A Dvorak, AD Edwards, D Field, H Frail, B Freeman, T George, J Gholam, J Guerrero-Gonzalez, JV Hajnal, R Haque, W Hollander, Z Hoodbhoy, M Huentelman, SK Jafri, DK Jones, F Joubert, T. Karaulanov, MP Kasaro, S Knackstedt, S Kolind, B Koshy, R Kravitz, S Lecurieux Lafayette, AC Lee, B Lena, N Lepore, M Linguraru, E Ljungberg, Z Lockart, E Loth, P Mannam, KM Masemola, R Moran, D Murphy, FL Nakwa, V Nankabirwa, CA Nelson, K North, S Nyame, R O Halloran, J O'Muircheartaigh, BF Oakley, H Odendaal, CM Ongeti, D Onyango, SA Oppong, F Padormo, D Parvez, T Paus, MS Pepper, KS Phiri, M Poorman, JE Ringshaw, J Rogers, M Rutherford, H Sabir, L Sacolick, M Seal, ML Sekoli, T Shama, K Siddiqui, N Sindano, MB Spelke, PE Springer, FE Suleman, PC Sundgren, R Teixeira, W Terekegn, M Traughber, MG Tuuli, J van Rensburg, F Váša, S Velaphi, P Velasco, IM Viljoen, M Vokhiwa, A Webb, C Weiant, N Wiley, P Wintermark, K Yibetal, SCL Deoni, SCR Williams. UNITY: A Low-Field Magnetic Resonance Neuroimaging Initiative to Characterize Neurodevelopment in Low and Middle-Income Settings. Developmental Cognitive Neuroscience, 2024, https://doi.org/10.1016/j.dcn.2024.101397 external link .
  • Horkay, F., Basser, P.J. Organization of hyaluronic acid molecules in solutions. MRS Advances (2024). https://doi.org/10.1557/s43580-024-00875-4 external link
  • Kadharbatcha S Saleem, Alexandru V Avram, Daniel Glen, Vincent Schram, Peter J Basser, The Subcortical Atlas of the Marmoset (“SAM”) monkey based on high-resolution MRI and histology, Cerebral Cortex, Volume 34, Issue 4, April 2024, bhae120, https://doi.org/10.1093/cercor/bhae120 external link
  • Magdoom KN, Avram AV, Witzel TE, Huang SY, Basser PJ. Water Diffusion in the Live Human Brain is Gaussian at the Mesoscale. bioRxiv [Preprint]. 2024 Apr 14:2024.04.10.588939. doi: 10.1101/2024.04.10.588939. PMID: 38645264; PMCID: PMC11030434.
  • Ravin R, Cai TX, Li A, Briceno N, Pursley RH, Garmendia-Cedillos M, Pohida T, Wang H, Zhuang Z, Cui J, Morgan NY, Williamson NH, Gilbert MR, Basser PJ. "Tumor Treating Fields" delivered via electromagnetic induction have varied effects across glioma cell lines and electric field amplitudes. Am J Cancer Res. 2024 Feb 15;14(2):562-584. PMID: 38455403.
  • Erin Santos, William C. Huffman, R. Douglas Fields. Recovery of Node of Ranvier Structure in Optic Nerve under Visual Deprivation. Neuroscience Research, 2024, ISSN 0168-0102. https://doi.org/10.1016/j.neures.2024.03.005. external link
  • Witherspoon VJ, Komlosh ME, Benjamini D, Özarslan E, Lavrik N, Basser PJ. Novel pore size-controlled, susceptibility matched, 3D-printed MRI phantoms. Magn Reson Med. 2024; 1-12. http://doi.org/10.1002/mrm.30029 external link

2023

  • Julian A. Rey, Uzair M. Farid, Christopher M. Najjoum, Alec Brown, Kulam Najmudeen Magdoom, Thomas H. Mareci, and Malisa Sarntinoranont. Perivascular network segmentations derived from high-field MRI and their implications for perivascular and parenchymal mass transport in the rat brain. Sci Rep 13, 9205 (2023). https://doi.org/10.1038/s41598-023-34850-0 external link
  • Chremos A, Mussel M, Douglas JF, Horkay F. Ion Partition in Polyelectrolyte Gels and Nanogels. Gels. 2023; 9(11):881. https://doi.org/10.3390/gels9110881 external link
  • Ravin, R., Cai, T. X., Li, A., Briceno, N., Pursley, R. H., Garmendia-Cedillos, M., Pohida, T., Wang, H., Zhuang, Z., Cui, J., Morgan, N. Y., Williamson, N. H., Gilbert, M. R., & Basser, P. J. (2023). "Tumor Treating Fields" delivered via electromagnetic induction have varied effects across glioma cell lines and electric field amplitudes. Preprint. bioRxiv. 2023;2023.01.18.524504. Published 2023 Jan 20. https://pmc.ncbi.nlm.nih.gov/articles/PMC10915321/
  • Bouhrara, M., Avram, A. V., Kiely, M., Trivedi, A., & Benjamini, D. (2023). Adult lifespan maturation and degeneration patterns in gray and white matter: A mean apparent propagator (MAP) MRI study. Neurobiology of aging, 124, 104–116. https://doi.org/10.1016/j.neurobiolaging.2022.12.016 external link
  • Edlow BL, Gilmore N, Tromly SL, Deary KB, McKinney IR, Hu CG, Kelemen JN, Maffei C, Tseng CJ, Llorden GR, Healy BC, Masood M, Cali RJ, Baxter T, Yao EF, Belanger HG, Benjamini D, Basser PJ, Priemer DS, Kimberly WT, Polimeni JR, Rosen BR, Fischl B, Zurcher NR, Greve DN, Hooker JM, Huang SY, Caruso A, Smith GA, Szymanski TG, Perl DP, Dams-O'Connor K, Mac Donald CL, Bodien YG. (2023). Optimizing Brain Health of United States Special Operations Forces. Journal of special operations medicine : a peer reviewed journal for SOF medical professionals, 23(4), 47–56. https://doi.org/10.55460/99QW-K0HG external link
  • Ferenc Horkay, Peter J. Basser, Erik Geissler. Ion-induced changes in DNA gels. Soft Matter, 2023. https://doi.org/10.1039/D3SM00666B external link
  • Mihika Gangolli, Sinisa Pajevic, Joong Hee Kim, Elizabeth B Hutchinson, Dan Benjamini, Peter J Basser. Correspondence of mean apparent propagator MRI metrics with phosphorylated tau and astrogliosis in chronic traumatic encephalopathy. Brain Communications, 2023;. fcad253. https://doi.org/10.1093/braincomms/fcad253 external link
  • Horkay F, Douglas JF. Evidence of Many-Body Interactions in the Virial Coefficients of Polyelectrolyte Gels. Gels. 2022; 8(2):96. https://doi.org/10.3390/gels8020096 external link
  • Ferenc Horkay and J. F. Douglas. Influence of solvent quality on the swelling and deswelling and the shear modulus of semi-dilute solution cross-linked poly(vinyl acetate) gels. The Journal of Chemical Physics 158(24). June 2023. https://doi.org/10.1063/5.0156604 external link
  • Shinjini Kundu, Stephanie Barsoum, Jeanelle Ariza, Amber L Nolan, Caitlin S Latimer, C Dirk Keene, Peter J Basser, Dan Benjamini. Mapping the individual human cortex using multidimensional MRI and unsupervised learning. Brain Communications, 2023;. fcad258, https://doi.org/10.1093/braincomms/fcad258 external link
  • Alexandros Chremos and Ferenc Horkay. Coexistence of Crumpling and Flat Sheet Conformations in Two-Dimensional Polymer Networks: An Understanding of Aggrecan Self-Assembly. Phys. Rev. Lett. 131, 138101. (September 28 2023). https://doi.org/10.1103/PhysRevLett.131.138101 external link
  • Kadharbatcha S Saleem, Alexandru V Avram, Cecil Chern-Chyi Yen, Kulam Najmudeen Magdoom, Vincent Schram, Peter J Basser. Multimodal anatomical mapping of subcortical regions in Marmoset monkeys using high-resolution MRI and matched histology with multiple stains. bioRxiv 2023.03.30.534950; doi: https://doi.org/10.1101/2023.03.30.534950 external link
  • Nathan H. Williamson, Velencia J. Witherspoon, Teddy X. Cai, Rea Ravin, Ferenc Horkay, Peter J. Basser. Low-field, high-gradient NMR shows diffusion contrast consistent with localization or motional averaging of water near surfaces. Magnetic Resonance Letters, 2023. ISSN 2772-5162. https://doi.org/10.1016/j.mrl.2023.03.009 external link
  • Sinisa Pajevic, Dietmar Plenz, Peter J Basser, R. Douglas Fields. Oligodendrocyte-mediated myelin plasticity and its role in neural synchronization.eLife 12:e81982. https://doi.org/10.7554/eLife.81982 external link
  • Kulam Najmudeen Magdoom, Alexandru V. Avram, Joelle E. Sarlls, Gasbarra Dario, Peter J. Basser. A Novel Framework for In-vivo Diffusion Tensor Distribution MRI of the Human Brain. NeuroImage, 2023. 120003. https://doi.org/10.1016/j.neuroimage.2023.120003 external link
  • Nathan H Williamson, Rea Ravin, Teddy X Cai, Melanie Falgairolle, Michael J O’Donovan, Peter J Basser, Water exchange rates measure active transport and homeostasis in neural tissue, PNAS Nexus, 2023;, pgad056, https://doi.org/10.1093/pnasnexus/pgad056 external link

2022

  • Chremos A, Douglas JF, Basser PJ, Horkay F. Prestressed Composite Polymer Gels as a Model of the Extracellular-Matrix of Cartilage. Gels. 2022; 8(11):707. https://doi.org/10.3390/gels8110707 external link
  • Alexandru V. Avram, Kadharbatcha S. Saleem, Peter J. Basser. COnstrained Reference frame diffusion TEnsor Correlation Spectroscopic (CORTECS) MRI: A practical framework for high-resolution diffusion tensor distribution imaging. Frontiers. 2022.10.20.512879; https://www.frontiersin.org/articles/10.3389/fnins.2022.1054509/full external link
  • Alexandru V. Avram, Kadharbatcha S. Saleem, Michal E. Komlosh, Cecil C. Yen, Frank Q. Ye, Peter J. Basser. High-resolution cortical MAP-MRI reveals areal borders and laminar substructures observed with histological staining. NeuroImage. 2022. https://doi.org/10.1016/j.neuroimage.2022.119653. external link
  • Velencia Witherspoon, Michal E Komlosh, Dan Benjamini, Evren Özarslan, Nickolay Lavrik, Peter Basser. Novel Pore Size-Controlled, Susceptibility Matched, 3D-Printed MRI Phantoms. bioRxiv 2022.10.10.511634; doi: https://doi.org/10.1101/2022.10.10.511634 external link
  • Nathan H Williamson, Rea Ravin, Teddy Cai, Melanie Falgairolle, Michael O'Donovan, Peter Basser. Water exchange rates measure active transport and homeostasis in neural tissue. bioRxiv 2022.09.23.483116; doi: https://doi.org/10.1101/2022.09.23.483116 external link
  • Dan Benjamini, David S Priemer, Daniel P Perl, David L Brody, Peter J Basser, Mapping astrogliosis in the individual human brain using multidimensional MRI, Brain, 2022. https://doi.org/10.1093/brain/awac298 external link
  • Chremos A, Douglas JF, Basser PJ, Horkay F. Molecular dynamics study of the swelling and osmotic properties of compact nanogel particles. Soft Matter. 2022 Aug 24;18(33):6278-6290. doi: 10.1039/d2sm00681b. PMID: 35968626.
  • Kulam Najmudeen Magdoom, Alexandru V. Avram, Joelle E Sarlls, Dario E Gasbarra, Peter J Basser. A Novel Framework for In-vivo Diffusion Tensor Distribution MRI of the Human Brain. bioRxiv 2022.08.15.503969. https://doi.org/10.1101/2022.08.15.503969 external link
  • Ryan C. Nieuwendaal, Jeffrey D. Wilbur, Dean Welsh, Velencia Witherspoon, Christopher M. Stafford. A method to quantify composition, purity, and cross-link density of the active polyamide layer in reverse osmosis composite membranes using 13C cross polarization magic angle spinning nuclear magnetic resonance spectroscopy. Journal of Membrane Science, Volume 648, 2022, 120346, ISSN 0376-7388, https://doi.org/10.1016/j.memsci.2022.120346 external link.
  • Horkay, F and Basser, PJ. Hydrogel composite mimics biological tissues. Soft Matter 18 (23) , pp.4414-4426. https://doi.org/10.1039/D2SM00505K external link
  • Zhen Ni, Sinisa Pajevic, Li Chen, Giorgio Leodori, Felipe Vial, Alexandru V. Avram, Yong Zhang, Patrick McGurrin, Leonardo G. Cohen, Peter J. Basser, Mark Hallett. Identifying magnetic stimulation induced electroencephalographic signatures of different neuronal elements in primary motor cortex. Clinical Neurophysiology, 2022.
  • Magdoom Kulam Najmudeen, Komlosh Michal E., Saleem Kadharbatcha, Gasbarra Dario, Basser Peter J. High Resolution Ex Vivo Diffusion Tensor Distribution MRI of Neural Tissue. Frontiers in Physics 10 2022. https://doi.org/10.3389/fphy.2022.807000 external link
  • A Chremos, F Horkay, JF Douglas. Influence of network defects on the conformational structure of nanogel particles: From “closed compact” to “open fractal” nanogel particles. The Journal of Chemical Physics 156 (9), 094903. https://doi.org/10.1063/5.0072274 external link
  • Basser, P. Detection of stroke by portable, low-field MRI: A milestone in medical imaging. Science Advances, Vol 8, Issue 16. (April 20, 2022). https://doi.org/10.1126/sciadv.abp9307 external link
  • Cai  Teddy X., Williamson  Nathan H., Ravin  Rea, Basser Peter J. Disentangling the Effects of Restriction and Exchange With Diffusion Exchange Spectroscopy. Frontiers in Physics. (March 23, 2022). https://www.frontiersin.org/articles/10.3389/fphy.2022.805793/full external link
  • M Mussel, O Lewis, PJ. Basser, F Horkay. Dynamic model of monovalent-divalent cation exchange in polyelectrolyte gels. Physical Review Materials, Vol. 6, Issue 3. (March 2022). https://link.aps.org/doi/10.1103/PhysRevMaterials.6.035602 external link
  • Dan Benjamini, David S Priemer, Daniel P Perl, David L Brody, Peter J Basser. Astrogliosis mapping in individual brains using multidimensional MRI. bioRxiv 2022.01.10.475717. https://doi.org/10.1101/2022.01.10.475717 external link

2021

2020

  • JM Sarapas, TB Martin, A Chremos, D Jack F., B Kathryn L. Bottlebrush polymers in the melt and polyelectrolytes in solution share common structural features. Proceedings of National Academy of Science 117(10) 5168-5175. https://www.pnas.org/content/pnas/117/10/5168.full.pdf external link (PDF 1.2 MB)
  • A Giuntoli, A Chremos, JF Douglas. Influence of polymer topology on crystallization in thin films. The Journal of Chemical Physics 152 (4), 044501. https://doi.org/10.1063/1.5134983 external link
  • Lopez, C. G., Horkay, F., Mussel, M., Jones, R. L., & Richtering, W. (2020). Screening lengths and osmotic compressibility of flexible polyelectrolytes in excess salt solutions. Soft Matter, 16(31), 7289-7298. https://doi.org/10.1039/D0SM00464B external link
  • Kulam Najmudeen Magdoom, Sinisa Pajevic, Gasbarra Dario, Peter J. Basser. A New Framework for MR Diffusion Tensor Distribution. bioRxiv. (2020). https://doi.org/10.1101/2020.05.01.071118 external link
  • Dan Benjamini, Elizabeth B. Hutchinson, Michal E. Komlosh, Courtney J. Comrie, Susan C. Schwerin, Guofeng Zhang, Carlo Pierpaoli, Peter J. Basser. Direct and specific assessment of axonal injury and spinal cord microenvironments using diffusion correlation imaging. NeuroImage (2020). http://dx.doi.org/10.1016/j.neuroimage.2020.117195 external link
  • A Aldroubi, P Basser, N Vieira external link. Optimal sampling for the determination of calcium metabolism. Kinetic Models of Trace Element 2020.
  • Horkay Ferenc; Basser, Peter J external link. Composite Hydrogel Model of Cartilage Predicts Its Load-Bearing Ability. Scientific Reports (Nature Publisher Group) Vol. 10, Iss. 1, (2020). DOI:10.1038/s41598-020-64917-1.
  • Nathan H. Williamson, Michal E. Komlosh, Dan Benjamini, Peter J. Basser. Limits to flow detection in phase contrast MRI. Journal of Magnetic Resonance Open: 2–3 (2020). https://doi.org/10.1016/j.jmro.2020.100004 external link
  • Dan Benjamini, Peter J. Basser. Multidimensional correlation MRI. NMR in Biomedicine, (2020). https://doi.org/10.1002/nbm.4226 external link
  • Zhen Ni, Giorgio Leodori, Felipe Viala, Yong Zhang, Alexandru V. Avram, Sinisa Pajevic, Peter J. Basser, Mark Hallett. Measuring latency distribution of transcallosal fibers using transcranial magnetic stimulation. Brain Stimulation 13:5 (2020). https://doi.org/10.1016/j.brs.2020.08.004 external link
  • R Ravin, TX Cai, RH Pursley, T Pohida, RZ Freidlin, H Wang, Z Zhuang, AJ Giles, NH Williamson, MR Gilbert, PJ Basser. A Novel In Vitro Device to Deliver Induced Electromagnetic Fields to Cell and Tissue Cultures. Biophysical Journal 13 (2020). https://doi.org/10.1016/j.bpj.2020.11.002 external link
  • Pas, K., Komlosh, M.E., Perl, D.P. et al. Retaining information from multidimensional correlation MRI using a spectral regions of interest generator. Sci Rep 10, 3246 (2020). https://doi.org/10.1038/s41598-020-60092-5 external link
  • Horkay, F., Basser, P.J., Geissler, E. Static and dynamic behavior of aggrecan solutions. MRS Advances, (2020). https://www.cambridge.org/core/journals/mrs-advances/article/static-and-dynamic-behavior-of-aggrecan-solutions/B4FE235CE74E4AA9F4D0D888CE5D11E5 external link
  • Ruiliang Bai, Zhaoqing Li, Chaoliang Sun, Yi-Cheng Hsu, Hui Liang, Peter Basser. Feasibility of filter-exchange imaging (FEXI) in measuring different exchange processes in human brain. NeuroImage 219, 2020. https://doi.org/10.1016/j.neuroimage.2020.117039 external link
  • A Chremos, F Horkay. (PDF 1.3 MB) Comparison of neutral and charged polyelectrolyte bottlebrush polymers in dilute salt-free conditions. 2020. MRS Advances.
  • F Horkay, A Chremos, JF Douglas, R L. Jones, J Lou, Y Xia. (PDF 7.7 MB) 2020. Systematic investigation of synthetic polyelectrolyte bottlebrush solutions by neutron and dynamic light scattering, osmometry, and molecular dynamics simulation. The Journal of Chemical Physics 152, 194904.
  • A Chremos, F Horkay. (PDF 1.2 MB) Disappearance of the polyelectrolyte peak in salt-free solutions. 2020. Physical Review E 102, 012611.
  • A Chremos. (PDF 3.4 MB) Design of nearly perfect hyperuniform polymeric materials. 2020. Journal of Chemical Physics 153, 054902.
  • Benjamini D. Nonparametric inversion of relaxation and diffusion correlation data. Advanced Diffusion Encoding Methods in MRI, Ed Topgaard D. Royal Society of Chemistry, London, UK, 2020. DOI: 10.1039/9781788019910-00278
  • Williamson N, Ravin R, Cai T, Benjamini D, Falgairolle M, O’Donovan M, Basser P. 2020. Real-time measurement of diffusion exchange rate in biological tissue. Journal of Magnetic Resonance 317:106782. DOI: 10.1016/j.jmr.2020.106782external link
  • Ni Z, Vial F, Avram A, Leodori G, Pajevic S, Basser P, Hallett M. 2020. Measuring conduction velocity distributions in peripheral nerves using neurophysiological techniques. Clinical Neurophysiology 131:1581-1588. DOI: 10.1016/j.clinph.2020.04.008 external link

2019

2018

2017

2016

2015

2014

2013

2012

2011

2010

  • Lange N, Froimowitz MP, Bigler ED, Lainhart JE, Brain Development Cooperative Group. 2010. Associations between IQ, total and regional brain volumes, and demography in a large normative sample of healthy children and adolescents. Dev Neuropsychol 35(3):296-317.
  • Chandran P, Dimitriadis E, Basser P, Horkay F. 2010. Probing interactions between aggrecan and mica surface by the atomic force microscopy. J Polym Sci B Polym Phys 48:2575-81.
  • Basser PJ and Özarslan E. external link 2010. Anisotropic Diffusion: From the Apparent Diffusion Coefficient to the Apparent Diffusion Tensor. In: Jones DK, editor. Diffusion MRI: Theory, Methods, and Applications. New York, NY: Oxford University Press. p. 79-91.
  • Koay CG. external link 2010. Least Squares Approaches to Diffusion Tensor Estimation. In: Jones DK, editor. Diffusion MRI: Theory, Methods, and Applications. New York, NY: Oxford University Press. p. 272-284.
  • Pierpaoli C. external link 2010. Artifacts in Diffusion MRI. In: Jones DK, editor. Diffusion MRI: Theory, Methods, and Applications. New York, NY: Oxford University Press. p. 303-318.
  • Basser PJ. external link 2010. Invention and Development of Diffusion Tensor MRI (DT-MRI or DTI) at the NIH. In: Jones DK, editor. Diffusion MRI: Theory, Methods, and Applications. New York, NY: Oxford University Press. p. 730-734.
  • Basser PJ, Özarslan E. 2010. Characterizing Compartment Distributions from Diffusion Weighted Magnetic Resonance (MR) Data. OTT Reference No: E-273-2010/0
  • Horkay F, Falus P, Hecht A-M, and Geissler E. 2010. Length Scale Dependence of the Dynamic Properties of Hyaluronic Acid Solutions in the Presence of Salt. J. Phys. Chem. B 114(47):15445-50.

  • Nevo U, Özarslan E, Komlosh ME, Koay CG, Sarlls JE, and Basser, PJ. 2010. A system and mathematical framework to model shear flow effects in biomedical DW-imaging and spectroscopy. NMR in Biomedicine 23(7):734–44. Author's Comments

    Author's Comments

    Intravoxel Coherent Motion (IVCM)

    Colleagues David Taylor and Mary Clare Bushell, prophetically wrote in 1984, “Thus this additional parameter [i.e., the apparent diffusion coefficient,] could be of use in aiding contrast between tissues, in looking at cell size through restricted diffusion and perhaps most importantly in monitoring blood perfusion through tissues. Perfusion rates are only an order of magnitude greater than the diffusion rates and well within the range of the measurement technique. However, the technique must be used with care on living subjects as the sequence is sensitive to all types of movement”. There’s a lot to unpack in this quote. When we measure the apparent diffusion coefficients (ADCs) in MRI we use MRI sequences that are, as they wrote, sensitive to all types of water motion. For example, in living tissue where there is water diffusing in extracellular spaces and water flowing in blood vessels, one observes not only the diffusion of water in the tissue compartment but also the pseudo-diffusion of water flowing in roughly randomly oriented capillaries within the tissue. This is what Taylor and Bushell were referring to, which was later called “Intravoxel Incoherent Motion” or IVIM by Denis Le Bihan and his colleagues. 

    Characterizing pseudo-diffusion in tissues has been a challenging from the beginnings of preclinical and clinical diffusion MRI. We know that in different domains or pools, water is moving  as a result of different biophysical and physiological processes. There can be convection, advection (e.g. arising from laminar,  turbulent or shear flow), dispersion, cardiac pulsation, exchange between compartments, … to name a few. All of these, as Taylor and Bushell prophetically wrote, could affect the ADC. 

    One reason we undertook this study of measuring pseudo-diffusion in a well characterized shear flow was to create a quantitative model system in which we could measure the effects of one form of enhance mixing on the ADC and try to present a theory that explains these findings. We repurposed an NMR compatible Couette flow viscometer for this study. It is well known that within the concentric rings of a Couette cell, there is a linear velocity distribution established between the stationary cylinder and the rotating one, as a function of distance from a wall. Another way of saying this is that there is a constant velocity gradient or shear rate. While the Couette cell cylinder is rotating, water molecules diffusing within it may stay on the same streamline or may jump to one moving faster or slower than the one they were on. This impressed velocity distribution causes additional mixing and thus additional dephasing of the water spins as compared to the case where the Rheometer is not spinning. In other word, when the Rheometer is spinning, there is a greater spread of net displacements these molecules exhibit. 

    Here, this NMR diffusion shear flow experiment was combined with a novel MRI acquisition and analysis pipeline in that we chose voxels shaped like sectors of the Couette cell itself so that water was flowing perpendicular to two ends of the voxel and parallel to the four sides of the voxel.

    While intravoxel incoherent motion (IVIM) is supposed to describe the random motion of water molecules in capillaries, this experiment effectively exhibits intravoxel coherent motion (IVCM) in which a well-defined velocity distribution is impressed upon the diffusing spins leads to enhanced mixing or higher apparent diffusion. In fact, the diffusivity of water hasn’t increased in this experiment but it appears to because of the enhanced mixing caused by an impressed shear flow.

    T his seemingly simple experiment gives us a glimpse of the complexity of different types of motion that exist in biological tissue. It reminds us that we should examine all of the different types of water motion or transport in a voxel when interpreting diffusion weighted imaging data in vivo.

  • Shemesh N, Özarslan E, Komlosh ME, Basser PJ, and Cohen Y. 2010. From single-pulsed field gradient to double-pulsed field gradient MR: gleaning new microstructural information and developing new forms of contrast in MRI. NMR in Biomedicine 23(7):757–80.
  • Horkay F, Magda J, Alcoutlabi M, Atzet S, and Zarembinski T. 2010. Structural, mechanical and osmotic properties of injectable hyaluronan-based composite hydrogels. Polymer (Guildf) 51(19):4424-4430.
  • Horkay F, Basser PJ, Hecht A-M, and Geissler E. 2010. Counterion and pH-Mediated Structural Changes in Charged Biopolymer Gels. Macromol Symp 291-292(1):354-361.
  • Lin DC, Douglas JF, and Horkay F. 2010. Development of minimal models of the elastic properties of flexible and stiff polymer networks with permanent and thermoreversible cross-links. Soft Matter 6:3548–3561.
  • Geissler E, Hecht A-M, and Horkay F. 2010. Scaling Behavior of Hyaluronic Acid in Solution with Mono- and Divalent Ions. Macromol. Symp. 291-292(1):362-370.
  • Shemesh N, Özarslan E, Adiri T, Basser PJ, Cohen Y. 2010. Noninvasive bipolar double-pulsed-field-gradient NMR reveals signatures for pore size and shape in polydisperse, randomly oriented, inhomogeneous porous media. J Chem Phys 133(4):044705.
  • Pasternak O, Sochen N, and Basser PJ. 2010. The effect of metric selection on the analysis of diffusion tensor MRI data. Neuroimage 49(3):2190-204.
  • Shemesh N, Özarslan E, Basser PJ, and Cohen Y. 2010. Detecting diffusion-diffraction patterns in size distribution phantoms using double-pulsed field gradient NMR: Theory and experiments. J Chem Phys 132(3):034703.

2009

2008

  • Basser PJ, Pajevic S. 2008. Quantitative Assessment Of Changes In Tissue Status In Disease, Development, Aging, Or Degeneration Using Diffusion Tensor Magnetic Resonance Imaging. OTT Reference No: E-192-1999/0.
  • Horkay F and Basser PJ. 2008. Ionic and pH Effects on the Osmotic Properties and Structure of Polyelectrolyte Gels. J Polym Sci B Polym Phys 46(24):2803-2810.
  • Yin DW, Horkay F, Douglas JF, and de Pablo JJ. 2008. Molecular simulation of the swelling of polyelectrolyte gels by monovalent and divalent counterions. J Chem Phys 129(15):154902.
  • Tasaki I. 2008. On the Reversible Abrupt Structural Changes in Nerve Fibers Underlying Their Excitation and Conduction Processes. In: Pollack GH, Chin WC, editors. Phase Transitions in Cell Biology. Dordrecht, Netherlands: Springer Netherlands. p.1-21.
  • Lin DC, Dimitriadis EK, and Horkay F. external link 2008. Elasticity models for the spherical indentation of gels and soft biological tissues. In Bioinspired Polymer Gels and Networks. F. Horkay, A. Ryan, N. Langrana, and D. Londono, editors. MRS Symposium Series, Warrendale, PA. 1-6.
  • Horkay F. external link 2008. Biopolymer Gels: Nanostructure and Macroscopic Properties. Progr Colloid Polym Sci 135:10–15.
  • Basser PJ. external link 2008. Diffusion and Diffusion Tensor MR Imaging: Fundamentals. In Magnetic Resonance Imaging of the Brain and Spine. S. W. Atlas, editor. Lippincott Williams and Wilkins, Philadelphia.
  • Bar-Shir A, Avram L, Özarslan E, Basser PJ, and Cohen Y. 2008. The effect of the diffusion time and pulse gradient duration ratio on the diffraction pattern and the structural information estimated from q-space diffusion MR: Experiments and simulations. J Magn Reson 194(2):230-6.
  • Horkay F, Basser PJ, Hecht AM, and Geissler E. 2008. Insensitivity to Salt of Assembly of a Rigid Biopolymer Aggrecan. Phys Rev Lett 101(6):068301.
  • Pasternak O, Verma R, Sochen N, and Basser PJ.  2008. On What Manifold Do Diffusion Tensors Live? IJ - 2008 MICCAI Workshop - Manifolds in Medical Imaging: Metrics, Learning and Beyond.
  • Silva S, Basser PJ, and Miranda PC. 2008. Elucidating the mechanisms and loci of neuronal excitation by transcranial magnetic stimulation using a finite element model of a cortical sulcus. Clin Neurophysiol 119(10): 2405–13.
  • Wu M, Chang LC, Walker L, Lemaitre H, Barnett AS, Marenco S, and Pierpaoli C. 2008. Comparison of EPI Distortion Correction Methods in Diffusion Tensor MRI Using a Novel Framework. Med Image Comput Comput Assist Interv 11(Pt 2):321-9.
  • Irfanoglu MO, Machiraju R, Sammet S, Pierpaoli C, and Knopp MV. 2008. Automatic Deformable Diffusion Tensor Registration for Fiber Population Analysis. Med Image Comput Comput Assist Interv 11(Pt 2):1014-22.
  • Chang LC, Koay CG, Basser PJ, and Pierpaoli C. 2008. Linear Least-Squares Method for Unbiased Estimation of T1 From SPGR Signals. Magn Reson Med 60(2):496-501.
  • Sarlls JE and Pierpaoli C. 2008. Diffusion-Weighted Radial Fast Spin-Echo for High-Resolution Diffusion Tensor Imaging at 3T. Magn Reson Med 60(2):270-6.
  • Bencherif SA, Srinivasan A, Horkay F, Hollinger JO, Matyjaszewski K, and Washburn NR. 2008. Influence of the degree of methacrylation on hyaluronic acid hydrogels properties. Biomaterials 29(12):1739-49.
  • Horkay F and Hammouda B. external link 2008. Small-angle neutron scattering from typical synthetic and biopolymer solutions. Colloid Polym Sci 286:611–620.

  • Avram L, Ozarslan E, Assaf Y, Bar-Shir A, Cohen Y, and Basser PJ. 2008. Three-dimensional water diffusion in impermeable cylindrical tubes: theory versus experiments. NMR Biomed 21(8):888-98.

  • Kim S, Barnett AS, Pierpaoli C, and Chi-Fishman G. 2008. Three-dimensional mapping of lingual myoarchitecture by diffusion tensor MRI. NMR Biomed 21(5):479-88.
  • Assaf Y, Blumenfeld-Katzir T, Yovel Y, and Basser PJ. 2008. AxCaliber: A Method for Measuring Axon Diameter Distribution from Diffusion MRI. Magnetic Resonance in Medicine 59(6):1347-54.
  • Koay CG, Nevo U, Chang LC, Pierpaoli C, and Basser PJ. 2008. The elliptical cone of uncertainty and its normalized measures in diffusion tensor imaging. IEEE Trans Med Imag 27(6):834-46.
  • Lin DC and Horkay F. external link 2008. Nanomechanics of polymer gels and biological tissues: A critical review of analytical approaches in the Hertzian regime and beyond. Soft Matter 4:669-682.
  • Horkay F, Basser PJ, Hecht AM, and Geissler E. 2008. Gel-like behavior in aggrecan assemblies. J Chem Phys 128(13):135103.
  • Özarslan E and Basser PJ. 2008. Microscopic anisotropy revealed by NMR double pulsed field gradient experiments with arbitrary timing parameters. J Chem Phys 128(15):154511.
  • Komlosh ME, Lizak MJ, Horkay F, Freidlin RZ, and Basser PJ. 2008. Observation of Microscopic Diffusion Anisotropy in the Spinal Cord Using Double-Pulsed Gradient Spin Echo MRI. Magn Reson Med 59(4):803-9.
  • Özarslan E, Nevo U and Basser PJ. 2008. Anisotropy induced by macroscopic boundaries: Surface normal mapping using diffusion-weighted imaging. Biophys J 94(7):2809-18.

2007

2006

2005

2004

2003

2002

2001

2000

1999

  • Pierpaoli C, Basser PJ. 1999. Method to Reduce the Bias in the Mean and Variance of Indices of Water Diffusion Anisotropy as Measured by Diffusion Tensor MRI. OTT Reference No: E-157-1996/0.
  • Aldroubi A and Basser PJ. external link 1999. Reconstruction of vector and tensor fields from sampled discrete data. Contemporary Mathematics 247:1-15.
  • Barratti C, Barnett AS, Pierpaoli C. 1999. Comparative MR imaging study of brain maturation in kittens with T1, T2, and the trace of the diffusion tensor. Radiology 210(1):133-42.
  • Pajevic S, Pierpaoli C. 1999. Color schemes to represent the orientation of anisotropic tissues from diffusion tensor data: application to white matter fiber tract mapping in the human brain. Magn Reson Med 42(3):526-40.
  • Tasaki I. external link 1999. Evidence for phase transition in nerve fibers, cells and synapses. Ferroelectrics 220:305-16.DOI: 10.1080/00150199908216221 external link
  • Tasaki I. 1999. Rapid structural changes in nerve fibers and cells associated with their excitation processes. Jpn J Physiol 49(2):125-38. DOI: 10.2170/jjphysiol.49.125 external link
  • Virta A, Barnett A, Pierpaoli C. 1999. Visualizing and characterizing white matter fiber structure and architecture in the human pyramidal tract using diffusion tensor MRI. Magn Reson Imaging 17(8):1121-33.

1998

1997

  • Basser PJ. 1997. New histological and physiological stains derived from diffusion-tensor MR images. Ann N Y Acad Sci 820:123-38.
  • Mattiello J, Basser PJ, Le Bihan D. 1997. The b matrix in diffusion tensor echo-planar imaging. Magn Reson Med 37(2):292-300.
  • Tasaki I. 1997. Rapid volume expansion in the torpedo electric organ associated with its postsynaptic potential. Biochem Biophys Res Commun. 233(2):305-8. PDF version (PDF 366 KB) PMID: 9144529, DOI: 10.1006/bbrc.1997.6451 external link

1996

1995

  • Basser PJ. (1995) Inferring microstructural features and the physiological state of tissue from diffusion weighted images. NMR Biomed. 8(7-8):333-44. PMID: 8739270

  • George MS, Wassermann EM, Williams WA, Callahan A, Ketter TA, Basser PJ, Hallett M, Post RM. (1995) Daily repetitive transcranial magnetic stimulation (rTMS) improves mood in depression. Neuroreport. 6(14):1853-6. PMID: 8547583

  • Basser, P.J., Mattiello, J., and Le Bihan, D. (1995) Anisotropic diffusion: MR diffusion tensor imaging. In D. Le Bihan (Ed.), Diffusion and Perfusion Magnetic Resonance Imaging. (pp. 140-149). New York: Raven Press, Ltd.
  • Mattiello J, Basser PJ, Le Bihan D. (1995) Analytical calculation of the b matrix in diffusion imaging. In D. Le Bihan (Ed.), Diffusion and Perfusion Magnetic Resonance Imaging. (pp. 77-99). New York: Raven Press, Ltd.
  • Le Bihan, D. and Basser, P.J. (1995) Molecular diffusion and nuclear magnetic resonance. In D. Le Bihan (Ed.) ,Diffusion and Perfusion Magnetic Resonance Imaging (pp. 5-17). New York: Raven Press, Ltd.

1994

  • Basser PJ. (1994) Focal magnetic stimulation of an axon. IEEE Trans Biomed Eng. 41(6):601-6. PMID: 7927380, DOI: 10.1109/10.293248 external link

  • Basser PJ, Mattiello J, Le Bihan D. (1994) Estimation of the effective self-diffusion tensor from the NMR spin echo. J Magn Reson B. 103(3):247-54. PMID: 8019776, DOI: 10.1006/jmrb.1994.1037 external link

  • Basser PJ, Mattiello J, Le Bihan D. (1994) MR diffusion tensor spectroscopy and imaging. Biophys J. 66(1):259-67. PMID: 8130344, PMCID: PMC1275686, DOI: 10.1016/S0006-3495(94)80775-1 external link

  • Mattiello J, Basser PJ, Le Bihan D. (1994) Analytical expressions for the b matrix in NMR diffusion imaging and spectroscopy. J Magn Reson A 108:131-141. DOI: 10.1006/jmra.1994.1103 external link
  • Roth BJ, Basser PJ, and Wikswo JP. (1994) A theoretical model for magneto-acoustic imaging of bioelectric currents. IEEE Trans Biomed Eng. 41(8):723-8. PMID: 7927394, DOI: 10.1109/10.310087 external link

1993

  • Basser PJ. (1993) Cable equation for a myelinated axon derived from its microstructure. Med Biol Eng Comput. 31 Suppl:S87-92. PMID: 8231331

  • Basser PJ, Grodzinsky AJ. (1993) The Donnan model derived from microstructure. Biophys Chem. 46(1):57-68. PMID: 8443336

1992

  • Chiarelli P, Basser PJ, Derossi D, and Goldstein S. (1992) The dynamics of a hydrogel strip. Biorheology 29(4):383-98. PMID: 1306365
  • Nilsson J, Panizza M, Roth BJ, Basser PJ, Cohen LG, Caruso G, Hallett M. Determining the site of stimulation during magnetic stimulation of a peripheral nerve. Electroencephalogr Clin Neurophysiol. 85(4):253-64. PMID: 1380913
  • Basser PJ, Wijesinghe RS, and Roth BJ. (1992) The activating function for magnetic stimulation derived from a three-dimensional volume conductor model. IEEE Trans Biomed Eng. 39(11):1207-10. PMID: 1487283, DOI: 10.1109/10.168686 external link

  • Basser PJ. (1992) Interstitial pressure, volume, and flow during infusion into brain tissue. Microvascular Research 44(2):143-65. PMID: 1474925

1991

  • Basser PJ, Roth BJ. (1991) Stimulation of a myelinated nerve axon by electromagnetic induction. Med Biol Eng Comput. 29(3):261-268. PMID: 1943258

1990

  • Roth B, Basser P. (1990) A model of the stimulation of a nerve fiber by electromagnetic induction. IEEE Trans. Bio. Med. Eng. 37:588-597. PMID: 2354840, DOI: 10.1109/10.55662 external link

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