Mohammad Mofrad - Publications

Affiliations: 
Bioengineering University of California, Berkeley, Berkeley, CA, United States 

28/238 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2017 Soheilypour M, Peyro M, Shams H, Mofrad M. Exploring the Interaction between MLP1 and NAB2 for mRNA Quality Control Purposes Biophysical Journal. 112. DOI: 10.1016/J.Bpj.2016.11.2410  0.353
2016 Jahed Z, Shams H, Mofrad M. Molecular Mechanisms of Mechanotransduction through LINC Complexes Biophysical Journal. 110: 24a. DOI: 10.1016/J.Bpj.2015.11.191  0.365
2016 Soheilypour M, Mofrad M. Agent-Based Modeling of Biological Pathways - A Case-Study on mRNA Export and Quality Control Mechanism Biophysical Journal. 110: 1-9. DOI: 10.1016/J.Bpj.2015.11.1051  0.33
2015 Heidari M, Mehrbod M, Ejtehadi MR, Mofrad MR. Cooperation within von Willebrand factors enhances adsorption mechanism. Journal of the Royal Society, Interface / the Royal Society. 12: 20150334. PMID 26179989 DOI: 10.1098/Rsif.2015.0334  0.685
2014 Azimi M, Bulat E, Weis K, Mofrad MR. An agent-based model for mRNA export through the nuclear pore complex. Molecular Biology of the Cell. 25: 3643-53. PMID 25253717 DOI: 10.1091/Mbc.E14-06-1065  0.48
2014 Rui X, Mehrbod M, Van Agthoven JF, Anand S, Xiong JP, Mofrad MR, Arnaout MA. The α-subunit regulates stability of the metal ion at the ligand-associated metal ion-binding site in β3 integrins. The Journal of Biological Chemistry. 289: 23256-63. PMID 24975416 DOI: 10.1074/Jbc.M114.581470  0.681
2014 Jahed Z, Shams H, Mehrbod M, Mofrad MR. Mechanotransduction pathways linking the extracellular matrix to the nucleus. International Review of Cell and Molecular Biology. 310: 171-220. PMID 24725427 DOI: 10.1016/B978-0-12-800180-6.00005-0  0.725
2014 Mahalingam B, Van Agthoven JF, Xiong JP, Alonso JL, Adair BD, Rui X, Anand S, Mehrbod M, Mofrad MR, Burger C, Goodman SL, Arnaout MA. Atomic basis for the species-specific inhibition of αV integrins by monoclonal antibody 17E6 is revealed by the crystal structure of αVβ3 ectodomain-17E6 Fab complex. The Journal of Biological Chemistry. 289: 13801-9. PMID 24692540 DOI: 10.1074/Jbc.M113.546929  0.691
2014 Mehrbod M, Trisno S, Mofrad MR. How Talin Head Domain and Soluble Ligand Contribute to Integrin αIIbβ3 Activation Biophysical Journal. 106: 238a-239a. DOI: 10.1016/J.Bpj.2013.11.1397  0.715
2013 Azimi M, Mofrad MR. Higher nucleoporin-Importinβ affinity at the nuclear basket increases nucleocytoplasmic import. Plos One. 8: e81741. PMID 24282617 DOI: 10.1371/journal.pone.0081741  0.504
2013 Mehrbod M, Trisno S, Mofrad MR. On the activation of integrin αIIbβ3: outside-in and inside-out pathways. Biophysical Journal. 105: 1304-15. PMID 24047981 DOI: 10.1016/J.Bpj.2013.07.055  0.712
2013 Mehrbod M, Mofrad MR. Localized lipid packing of transmembrane domains impedes integrin clustering. Plos Computational Biology. 9: e1002948. PMID 23516344 DOI: 10.1371/Journal.Pcbi.1002948  0.714
2012 Yoon SH, Kim YK, Han ED, Seo YH, Kim BH, Mofrad MR. Passive control of cell locomotion using micropatterns: the effect of micropattern geometry on the migratory behavior of adherent cells. Lab On a Chip. 12: 2391-402. PMID 22534829 DOI: 10.1039/C2Lc40084G  0.48
2012 Yoon SH, Kim YK, Mofrad MRK. Mechanobiological Approaches for the Control of Cell Motility Microfluidic Cell Culture Systems. 105-136. DOI: 10.1016/B978-1-4377-3459-1.00005-3  0.444
2011 Mehrbod M, Mofrad MR. On the significance of microtubule flexural behavior in cytoskeletal mechanics. Plos One. 6: e25627. PMID 21998675 DOI: 10.1371/Journal.Pone.0025627  0.705
2011 Azimi M, Jamali Y, Mofrad MR. Accounting for diffusion in agent based models of reaction-diffusion systems with application to cytoskeletal diffusion. Plos One. 6: e25306. PMID 21966493 DOI: 10.1371/journal.pone.0025306  0.489
2011 Yoon SH, Chang J, Lin L, Mofrad MR. A biological breadboard platform for cell adhesion and detachment studies. Lab On a Chip. 11: 3555-62. PMID 21874200 DOI: 10.1039/C1Lc20369J  0.509
2011 Yoon SH, Mofrad MR. Cell adhesion and detachment on gold surfaces modified with a thiol-functionalized RGD peptide. Biomaterials. 32: 7286-96. PMID 21813174 DOI: 10.1016/J.Biomaterials.2011.05.077  0.506
2011 Jamali T, Jamali Y, Mehrbod M, Mofrad MR. Nuclear pore complex: biochemistry and biophysics of nucleocytoplasmic transport in health and disease. International Review of Cell and Molecular Biology. 287: 233-86. PMID 21414590 DOI: 10.1016/B978-0-12-386043-9.00006-2  0.698
2011 Mehrbod M, Mofrad MRK. On the mechanics of microtubule filaments Asme 2011 Summer Bioengineering Conference, Sbc 2011. 413-414. DOI: 10.1115/SBC2011-53896  0.689
2011 Chang J, Yoon SH, Mofrad MRK, Lin L. MEMS-based dynamic cell-to-cell culture platforms using electrochemical surface modifications Journal of Micromechanics and Microengineering. 21. DOI: 10.1088/0960-1317/21/5/054028  0.467
2011 Yoon SH, Lee C, Mofrad MRK. Viscoelastic characterization of the retracting cytoskeleton using subcellular detachment Applied Physics Letters. 98. DOI: 10.1063/1.3556557  0.504
2010 Jamali Y, Azimi M, Mofrad MR. A sub-cellular viscoelastic model for cell population mechanics. Plos One. 5. PMID 20856895 DOI: 10.1371/Journal.Pone.0012097  0.558
2010 Azimi M, Mofrad MRK. Use of a social networking recommendation engine in science and engineering education for accessible discovery, organization and collaboration of research knowledge Asme 2010 Summer Bioengineering Conference, Sbc 2010. 423-424. DOI: 10.1115/SBC2010-19596  0.423
2010 Chang J, Yoon SH, Mofrad MRK, Lin L. MEMS-based biological platform for dynamic cell-to-cell interaction characterization Proceedings of the Ieee International Conference On Micro Electro Mechanical Systems (Mems). 92-95. DOI: 10.1109/MEMSYS.2010.5442559  0.475
2010 Yoon SH, Reyes-Ortiz V, Kim KH, Seo YH, Mofrad MRK. Analysis of circular PDMS microballoons with ultralarge deflection for MEMS design Journal of Microelectromechanical Systems. 19: 854-864. DOI: 10.1109/Jmems.2010.2049984  0.456
2009 Yoon SH, Reyes-Ortiz V, Mofrad MRK. MEMS-based microballoons achieving multidirectional large-strain for cell mechanics studies Proceedings of the Asme Summer Bioengineering Conference 2009, Sbc2009. 1163-1164. DOI: 10.1115/SBC2009-206853  0.441
2009 Yoon SH, Chang J, Reyes-Ortiz V, Lin L, Mofrad MRK. Addressable cell patterning and release using micro cell control platform: Biological breadboard Proceedings of Conference, Microtas 2009 - the 13th International Conference On Miniaturized Systems For Chemistry and Life Sciences. 1886-1888.  0.472
Low-probability matches (unlikely to be authored by this person)
2020 Behrouzi K, Jahed Z, Mofrad M. Viscoelastic Mechanical Models of the LINC Complex Biophysical Journal. 118. DOI: 10.1016/J.Bpj.2019.11.2258  0.297
2020 Haydari Z, Shams H, Jahed Z, Mofrad MRK. Kindlin Assists Talin to Promote Integrin Activation. Biophysical Journal. PMID 32191864 DOI: 10.1016/j.bpj.2020.02.023  0.297
2020 Haydari Z, Shams H, Jahed Z, Mofrad M. Kindlin Cooperates with Talin for Integrin Activation, a Molecular Dynamics Approach Biophysical Journal. 118. DOI: 10.1016/J.Bpj.2019.11.2780  0.288
2006 Kamm RD, Mofrad MRK. Introduction, with the biological basis for cell mechanics Cytoskeletal Mechanics: Models and Measurements. 1-17. DOI: 10.1017/CBO9780511607318.002  0.286
2017 Garakani K, Shams H, Mofrad MRK. Mechanosensitive Conformation of Vinculin Regulates Its Binding to MAPK1. Biophysical Journal. 112: 1885-1893. PMID 28494959 DOI: 10.1016/j.bpj.2017.03.039  0.283
2020 Peyro M, Mofrad M. Specific Sequence Features Regulate the Transient Binding between FG Nucleoporins and Cargo Complexes Biophysical Journal. 118: 342a. DOI: 10.1016/J.Bpj.2019.11.1905  0.28
2019 Soheilypour M, Peyro M, Shams H, Rider S, Kaazempur-Mofrad AR, Mofrad M. Molecular Mechanisms of the Interaction between the RNA-Binding Protein Nab2 and the Nuclear Basket Protein Mlp1 in mRNA Quality Control Biophysical Journal. 116. DOI: 10.1016/J.Bpj.2018.11.1121  0.279
2019 Jahed Z, Haydari Z, Rathish A, Mofrad MRK. Kindlin Is Mechanosensitive: Force-Induced Conformational Switch Mediates Cross-Talk among Integrins. Biophysical Journal. PMID 30819565 DOI: 10.1016/j.bpj.2019.01.038  0.27
2018 Jahed Z, Fadavi D, Vu UT, Asgari E, Luxton GWG, Mofrad MRK. Molecular Insights into the Mechanisms of SUN1 Oligomerization in the Nuclear Envelope. Biophysical Journal. 114: 1190-1203. PMID 29539404 DOI: 10.1016/j.bpj.2018.01.015  0.269
2014 Golji J, Mofrad MR. The talin dimer structure orientation is mechanically regulated. Biophysical Journal. 107: 1802-9. PMID 25418161 DOI: 10.1016/j.bpj.2014.08.038  0.269
2008 Kolahi KS, Mofrad MR. Molecular mechanics of filamin's rod domain. Biophysical Journal. 94: 1075-83. PMID 17921200 DOI: 10.1529/biophysj.107.118802  0.267
2015 Truong T, Shams H, Mofrad MR. Mechanisms of integrin and filamin binding and their interplay with talin during early focal adhesion formation. Integrative Biology : Quantitative Biosciences From Nano to Macro. 7: 1285-96. PMID 26156744 DOI: 10.1039/c5ib00133a  0.267
2017 Shams H, Hoffman BD, Mofrad M. The ?stressful? life of adhesion molecules: On the molecular mechanosensitivity of adhesomes. Journal of Biomechanical Engineering. PMID 29272321 DOI: 10.1115/1.4038812  0.265
2013 Lee SE, Kamm RD, Mofrad MRK. A molecular perspective on mechanotransduction in focal adhesions Cellular Mechanotransduction: Diverse Perspectives From Molecules to Tissues. 250-268. DOI: 10.1017/CBO9781139195874.012  0.265
2018 Jahed Z, Vu UT, Fadavi D, Ke H, Rathish A, Kim SCJ, Feng W, Mofrad MRK. A Molecular Model for LINC complex regulation: Activation of SUN2 for KASH binding. Molecular Biology of the Cell. mbcE18040266. PMID 29995584 DOI: 10.1091/mbc.E18-04-0266  0.259
2012 Shams H, Golji J, Mofrad MR. A molecular trajectory of α-actinin activation. Biophysical Journal. 103: 2050-9. PMID 23200039 DOI: 10.1016/j.bpj.2012.08.044  0.257
2011 Moussavi-Baygi R, Jamali Y, Karimi R, Mofrad MR. Brownian dynamics simulation of nucleocytoplasmic transport: a coarse-grained model for the functional state of the nuclear pore complex. Plos Computational Biology. 7: e1002049. PMID 21673865 DOI: 10.1371/journal.pcbi.1002049  0.251
2017 Madani A, Garakani K, Mofrad MRK. Molecular mechanics of Staphylococcus aureus adhesin, CNA, and the inhibition of bacterial adhesion by stretching collagen. Plos One. 12: e0179601. PMID 28665944 DOI: 10.1371/journal.pone.0179601  0.249
2023 Yerima G, Domkam N, Ornowski J, Jahed Z, Mofrad MRK. Force transmission and SUN-KASH higher-order assembly in the LINC complex models. Biophysical Journal. 122: 4582-4597. PMID 37924205 DOI: 10.1016/j.bpj.2023.11.001  0.249
2020 Ahamed FR, Jeffers B, Jahed Z, Mofrad M. Characterization of Kindlin-2 Variants' Molecular Behavior Under Applied Tension Biophysical Journal. 118. DOI: 10.1016/J.Bpj.2019.11.2263  0.248
2012 Holt BD, Shams H, Horst TA, Basu S, Rape AD, Wang YL, Rohde GK, Mofrad MR, Islam MF, Dahl KN. Altered cell mechanics from the inside: dispersed single wall carbon nanotubes integrate with and restructure actin. Journal of Functional Biomaterials. 3: 398-417. PMID 24955540 DOI: 10.3390/Jfb3020398  0.246
2010 Golji J, Mofrad MR. A molecular dynamics investigation of vinculin activation. Biophysical Journal. 99: 1073-81. PMID 20712990 DOI: 10.1016/j.bpj.2010.05.024  0.245
2014 Modarres HP, Mofrad MRK. Filamin: A structural and functional biomolecule with important roles in cell biology, signaling and mechanics McB Molecular and Cellular Biomechanics. 11: 39-65. PMID 25330623  0.244
2018 Cain NE, Jahed Z, Schoenhofen A, Valdez VA, Elkin B, Hao H, Harris NJ, Herrera LA, Woolums BM, Mofrad MRK, Luxton GWG, Starr DA. Conserved SUN-KASH Interfaces Mediate LINC Complex-Dependent Nuclear Movement and Positioning. Current Biology : Cb. PMID 30245107 DOI: 10.1016/J.Cub.2018.08.001  0.235
2013 Golji J, Mofrad MR. The interaction of vinculin with actin. Plos Computational Biology. 9: e1002995. PMID 23633939 DOI: 10.1371/journal.pcbi.1002995  0.234
2013 Wolf CB, Mofrad MRK. Mechanotransduction: Role of nuclear pore mechanics and nucleocytoplasmic transport Cellular Mechanotransduction: Diverse Perspectives From Molecules to Tissues. 417-437. DOI: 10.1017/CBO9781139195874.019  0.233
2018 Moussavi-Baygi R, Mofrad M. The Nature's Superviscous Nano-channel: Insight from Big Data-Driven Biophysical Modeling Biophysical Journal. 114. DOI: 10.1016/J.Bpj.2017.11.3031  0.233
2014 Shams H, Holt BD, Mahboobi SH, Jahed Z, Islam MF, Dahl KN, Mofrad MR. Actin reorganization through dynamic interactions with single-wall carbon nanotubes. Acs Nano. 8: 188-97. PMID 24351114 DOI: 10.1021/Nn402865E  0.233
2015 Jahed Z, Shams H, Mofrad MR. A Disulfide Bond Is Required for the Transmission of Forces through SUN-KASH Complexes. Biophysical Journal. 109: 501-9. PMID 26244732 DOI: 10.1016/j.bpj.2015.06.057  0.23
2016 Shams H, Golji J, Garakani K, Mofrad MR. Dynamic Regulation of α-Actinin's Calponin Homology Domains on F-Actin. Biophysical Journal. 110: 1444-55. PMID 27028653 DOI: 10.1016/j.bpj.2016.02.024  0.228
2021 Jahed Z, Domkam N, Ornowski J, Yerima G, Mofrad MRK. Molecular models of LINC complex assembly at the nuclear envelope. Journal of Cell Science. 134. PMID 34152389 DOI: 10.1242/jcs.258194  0.228
2015 Peyro M, Soheilypour M, Ghavami A, Mofrad MR. Nucleoporin's Like Charge Regions Are Major Regulators of FG Coverage and Dynamics Inside the Nuclear Pore Complex. Plos One. 10: e0143745. PMID 26658558 DOI: 10.1371/journal.pone.0143745  0.228
2019 Nakao N, Maki K, Mofrad MRK, Adachi T. Talin is required to increase stiffness of focal molecular complex in its early formation process. Biochemical and Biophysical Research Communications. PMID 31451222 DOI: 10.1016/j.bbrc.2019.08.091  0.228
2016 Soheilypour M, Peyro M, Jahed Z, Mofrad MRK. On the Nuclear Pore Complex and Its Roles in Nucleo-Cytoskeletal Coupling and Mechanobiology Cellular and Molecular Bioengineering. 1-10. DOI: 10.1007/s12195-016-0443-x  0.227
2008 Wolf C, Mofrad MR. On the octagonal structure of the nuclear pore complex: insights from coarse-grained models. Biophysical Journal. 95: 2073-85. PMID 18487299 DOI: 10.1529/biophysj.108.130336  0.221
2019 Peyro M, Mofrad M. The Amino Acid Sequence Features of the FG Nucleoporins Affect the Movement of Cargo Complex Inside the NPC Biophysical Journal. 116: 202a. DOI: 10.1016/J.Bpj.2018.11.1118  0.22
2008 Lee SE, Chunsrivirot S, Kamm RD, Mofrad MR. Molecular dynamics study of talin-vinculin binding. Biophysical Journal. 95: 2027-36. PMID 18408041 DOI: 10.1529/Biophysj.107.124487  0.218
2018 Haydari Z, Shams H, Mofrad M. STIM1-Induced Conformational Transition of ORAI-1 Leads to Channel Activation Biophysical Journal. 114: 405a. DOI: 10.1016/J.Bpj.2017.11.2247  0.218
2014 Zhao CL, Mahboobi SH, Moussavi-Baygi R, Mofrad MR. The interaction of CRM1 and the nuclear pore protein Tpr. Plos One. 9: e93709. PMID 24722547 DOI: 10.1371/journal.pone.0093709  0.218
2006 Mofrad MRK, Kamm RD. Cytoskeletal mechanics: Models and measurements Cytoskeletal Mechanics: Models and Measurements. 1-244. DOI: 10.1017/CBO9780511607318  0.214
2015 Soheilypour M, Peyro M, Peter SJ, Mofrad MR. Buckling behavior of individual and bundled microtubules. Biophysical Journal. 108: 1718-26. PMID 25863063 DOI: 10.1016/j.bpj.2015.01.030  0.213
2017 Shams H, Mofrad MRK. α-Actinin Induces a Kink in the Transmembrane Domain of β3-Integrin and Impairs Activation via Talin. Biophysical Journal. 113: 948-956. PMID 28834730 DOI: 10.1016/j.bpj.2017.06.064  0.213
2009 Kolahi KS, White PF, Shreter DM, Classen AK, Bilder D, Mofrad MR. Quantitative analysis of epithelial morphogenesis in Drosophila oogenesis: New insights based on morphometric analysis and mechanical modeling. Developmental Biology. 331: 129-39. PMID 19409378 DOI: 10.1016/j.ydbio.2009.04.028  0.212
2007 Lee SE, Kamm RD, Mofrad MR. Force-induced activation of talin and its possible role in focal adhesion mechanotransduction. Journal of Biomechanics. 40: 2096-106. PMID 17544431 DOI: 10.1016/J.Jbiomech.2007.04.006  0.21
2019 Jahed Z, Hao H, Thakkar V, Vu UT, Valdez VA, Rathish A, Tolentino C, Kim SCJ, Fadavi D, Starr DA, Mofrad MRK. Role of KASH domain lengths in the regulation of LINC complexes. Molecular Biology of the Cell. mbcE19020079. PMID 30995155 DOI: 10.1091/Mbc.E19-02-0079  0.21
2021 Lennon KM, Soheilypour M, Peyro M, Wakefield DL, Choo GE, Mofrad MRK, Jovanovic-Talisman T. Characterizing Binding Interactions That Are Essential for Selective Transport through the Nuclear Pore Complex. International Journal of Molecular Sciences. 22. PMID 34639238 DOI: 10.3390/ijms221910898  0.205
2016 Jahed Z, Soheilypour M, Peyro M, Mofrad MR. The LINC and NPC relationship - it's complicated! Journal of Cell Science. PMID 27530973 DOI: 10.1242/jcs.184184  0.205
2017 Shams H, Soheilypour M, Peyro M, Moussavi-Baygi R, Mofrad MRK. Looking "Under the Hood" of Cellular Mechanotransduction with Computational Tools: A Systems Biomechanics Approach across Multiple Scales. Acs Biomaterials Science & Engineering. 3: 2712-2726. PMID 33418698 DOI: 10.1021/acsbiomaterials.7b00117  0.205
2021 Karimi R, Reza Alam M, Mofrad MRK. Hydrodynamic interactions significantly alter the dynamics of actin networks and result in a length scale dependent loss modulus. Journal of Biomechanics. 120: 110352. PMID 33756413 DOI: 10.1016/j.jbiomech.2021.110352  0.204
2020 Cheng B, Wan W, Huang G, Li Y, Genin GM, Mofrad MRK, Lu TJ, Xu F, Lin M. Nanoscale integrin cluster dynamics controls cellular mechanosensing via FAKY397 phosphorylation. Science Advances. 6: eaax1909. PMID 32181337 DOI: 10.1126/sciadv.aax1909  0.203
2008 Mandadapu KK, Govindjee S, Mofrad MR. On the cytoskeleton and soft glassy rheology. Journal of Biomechanics. 41: 1467-78. PMID 18402964 DOI: 10.1016/J.Jbiomech.2008.02.014  0.203
2021 Peyro M, Dickson AM, Mofrad MRK. Nucleoporins' exclusive amino acid sequence features regulate their transient interaction with and selectivity of cargo complexes in the nuclear pore. Molecular Biology of the Cell. mbcE21040161. PMID 34473567 DOI: 10.1091/mbc.E21-04-0161  0.202
2022 Matsuda A, Mofrad MRK. On the nuclear pore complex and its emerging role in cellular mechanotransduction. Apl Bioengineering. 6: 011504. PMID 35308827 DOI: 10.1063/5.0080480  0.202
2016 Jahed Z, Zareian R, Chau YY, Seo BB, West M, Tsui TY, Wen W, Mofrad MR. Differential Collective and Single Cell Behaviors on Silicon Micropillar Arrays. Acs Applied Materials & Interfaces. PMID 27536959 DOI: 10.1021/Acsami.6B08668  0.201
2014 Abdul Rahim NA, Pelet S, Mofrad MR, So PT, Kamm RD. Quantifying intracellular protein binding thermodynamics during mechanotransduction based on FRET spectroscopy. Methods (San Diego, Calif.). 66: 208-21. PMID 24184188 DOI: 10.1016/J.Ymeth.2013.10.007  0.2
2009 Mofrad MRK. Rheology of the cytoskeleton Annual Review of Fluid Mechanics. 41: 433-453. DOI: 10.1146/annurev.fluid.010908.165236  0.198
2009 Chandran PL, Mofrad MR. Rods-on-string idealization captures semiflexible filament dynamics. Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics. 79: 011906. PMID 19257068 DOI: 10.1103/PhysRevE.79.011906  0.195
2009 Wolf CB, Mofrad MRK. Mechanotransduction and its role in stem Cell Biology Trends in Stem Cell Biology and Technology. 389-403. DOI: 10.1007/978-1-60327-905-5_20  0.194
2013 Jamali Y, Jamali T, Mofrad MRK. An agent based model of integrin clustering: Exploring the role of ligand clustering, integrin homo-oligomerization, integrin-ligand affinity, membrane crowdedness and ligand mobility Journal of Computational Physics. 244: 264-278. DOI: 10.1016/j.jcp.2012.09.010  0.193
2024 Khavani M, Mehranfar A, Mofrad MRK. Antimicrobial peptide interactions with bacterial cell membranes. Journal of Biomolecular Structure & Dynamics. 1-14. PMID 38263741 DOI: 10.1080/07391102.2024.2304683  0.193
2014 Jahed Z, Molladavoodi S, Seo BB, Gorbet M, Tsui TY, Mofrad MR. Cell responses to metallic nanostructure arrays with complex geometries. Biomaterials. 35: 9363-71. PMID 25123921 DOI: 10.1016/J.Biomaterials.2014.07.022  0.192
2009 Golji J, Collins R, Mofrad MR. Molecular mechanics of the alpha-actinin rod domain: bending, torsional, and extensional behavior. Plos Computational Biology. 5: e1000389. PMID 19436721 DOI: 10.1371/journal.pcbi.1000389  0.192
2010 Chandran PL, Mofrad MR. Averaged implicit hydrodynamic model of semiflexible filaments. Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics. 81: 031920. PMID 20365783 DOI: 10.1103/PhysRevE.81.031920  0.191
2009 Chen HS, Kolahi KS, Mofrad MR. Phosphorylation facilitates the integrin binding of filamin under force. Biophysical Journal. 97: 3095-104. PMID 20006946 DOI: 10.1016/j.bpj.2009.08.059  0.189
2010 Kolahi KS, Mofrad MR. Mechanotransduction: a major regulator of homeostasis and development. Wiley Interdisciplinary Reviews. Systems Biology and Medicine. 2: 625-39. PMID 20890961 DOI: 10.1002/wsbm.79  0.188
2011 Golji J, Lam J, Mofrad MR. Vinculin activation is necessary for complete talin binding. Biophysical Journal. 100: 332-40. PMID 21244829 DOI: 10.1016/j.bpj.2010.11.024  0.186
2022 Shams H, Hollenbach JA, Matsunaga A, Mofrad MRK, Oksenberg JR, Didonna A. A short HLA-DRA isoform binds the HLA-DR2 heterodimer on the outer domain of the peptide-binding site. Archives of Biochemistry and Biophysics. 109156. PMID 35218721 DOI: 10.1016/j.abb.2022.109156  0.185
2021 Matsuda A, Mofrad MRK. Free energy calculations shed light on the nuclear pore complex's selective barrier nature. Biophysical Journal. PMID 34339633 DOI: 10.1016/j.bpj.2021.07.025  0.18
2013 Mofrad MRK, Kamm RD. Summary and outlook Cellular Mechanotransduction: Diverse Perspectives From Molecules to Tissues. 438-443. DOI: 10.1017/CBO9781139195874.020  0.179
2010 Bao G, Kamm RD, Thomas W, Hwang W, Fletcher DA, Grodzinsky AJ, Zhu C, Mofrad MR. Molecular Biomechanics: The Molecular Basis of How Forces Regulate Cellular Function. Molecular & Cellular Biomechanics : McB. 3: 91-105. PMID 20700472 DOI: 10.1007/S12195-010-0109-Z  0.176
2011 Moussavi-Baygi R, Jamali Y, Karimi R, Mofrad MR. Biophysical coarse-grained modeling provides insights into transport through the nuclear pore complex. Biophysical Journal. 100: 1410-9. PMID 21402022 DOI: 10.1016/j.bpj.2011.01.061  0.175
2014 Shams H, Mofrad MR. Molecular Mechanisms Underlying the Inside-Out Signaling through Focal Adhesions Biophysical Journal. 106: 574a. DOI: 10.1016/j.bpj.2013.11.3183  0.174
2020 Didonna A, Damotte V, Shams H, Matsunaga A, Caillier SJ, Dandekar R, Misra MK, Mofrad MRK, Oksenberg JR, Hollenbach JA. A splice acceptor variant in HLA-DRA affects the conformation and cellular localization of the class II DR alpha-chain. Immunology. PMID 32986852 DOI: 10.1111/imm.13273  0.171
2010 Mofrad MRK. Molecular mechanosensors and focal adhesion mechanotransduction Asme 2010 Summer Bioengineering Conference, Sbc 2010. 365-366. DOI: 10.1115/SBC2010-19707  0.17
2017 Jahed Z, Shahsavan H, Verma MS, Rogowski JL, Seo BB, Zhao B, Tsui TY, Gu FX, Mofrad MR. Bacterial Networks on Hydrophobic Micropillars. Acs Nano. PMID 28045495 DOI: 10.1021/Acsnano.6B06985  0.17
2007 Vaziri A, Mofrad MR. Mechanics and deformation of the nucleus in micropipette aspiration experiment. Journal of Biomechanics. 40: 2053-62. PMID 17112531 DOI: 10.1016/J.Jbiomech.2006.09.023  0.168
2019 Van Agthoven JF, Shams H, Cochran FV, Alonso JL, Kintzing JR, Garakani K, Adair BD, Xiong JP, Mofrad MRK, Cochran JR, Arnaout MA. Structural Basis of the Differential Binding of Engineered Knottins to Integrins αVβ3 and α5β1. Structure (London, England : 1993). PMID 31353240 DOI: 10.1016/J.Str.2019.06.011  0.168
2023 Khavani M, Mehranfar A, Mofrad MRK. On the Sensitivity and Affinity of Gold, Silver, and Platinum Surfaces against the SARS-CoV-2 Virus: A Comparative Computational Study. Journal of Chemical Information and Modeling. PMID 36735895 DOI: 10.1021/acs.jcim.2c01378  0.167
2019 Jahed Z, Mofrad MR. The nucleus feels the force, LINCed in or not! Current Opinion in Cell Biology. 58: 114-119. PMID 31002996 DOI: 10.1016/j.ceb.2019.02.012  0.165
2010 Golji J, Mofrad MRK. Focal adhesion mechanotransduction: Molecular events leading to vinculin activation Asme 2010 Summer Bioengineering Conference, Sbc 2010. 437-438. DOI: 10.1115/SBC2010-19711  0.162
2016 Boyer PD, Shams H, Baker SL, Mofrad MRK, Islam MF, Dahl KN. Enhanced intracellular delivery of small molecules and drugs via non-covalent ternary dispersions of single-wall carbon nanotubes. Journal of Materials Chemistry. B. 4: 1324-1330. PMID 32262987 DOI: 10.1039/C5Tb02016F  0.16
2011 Mofrad MR. Exploring Cellular Mechanotransduction at the Focal Adhesions, One Molecule at a Time Biophysical Journal. 100: 447a. DOI: 10.1016/j.bpj.2010.12.2636  0.159
2021 Tsukamoto S, Asakawa T, Kimura S, Takesue N, Mofrad MRK, Sakamoto N. Intranuclear strain in living cells subjected to substrate stretching: A combined experimental and computational study. Journal of Biomechanics. 119: 110292. PMID 33667883 DOI: 10.1016/j.jbiomech.2021.110292  0.156
2023 Valiei A, Aminian-Dehkordi J, Mofrad MRK. Gut-on-a-chip models for dissecting the gut microbiology and physiology. Apl Bioengineering. 7: 011502. PMID 36875738 DOI: 10.1063/5.0126541  0.155
2014 Jahed Z, Lin P, Seo BB, Verma MS, Gu FX, Tsui TY, Mofrad MR. Responses of Staphylococcus aureus bacterial cells to nanocrystalline nickel nanostructures. Biomaterials. 35: 4249-54. PMID 24576805 DOI: 10.1016/j.biomaterials.2014.01.080  0.154
2016 Pezeshki-Modaress M, Mirzadeh H, Zandi M, Rajabi-Zeleti S, Sodeifi N, Aghdami N, Mofrad MR. Gelatin/Chondroitin Sulfate Nanofibrous Scaffolds for Stimulation of Wound Healing: In-Vitro and In-Vivo Study. Journal of Biomedical Materials Research. Part A. PMID 27588562 DOI: 10.1002/jbm.a.35890  0.153
2023 Khavani M, Mehranfar A, Mofrad MRK. On the potentials of sialic acid derivatives as inhibitors for the mumps virus: A molecular dynamics and quantum chemistry investigation. Virus Research. 326: 199050. PMID 36682462 DOI: 10.1016/j.virusres.2023.199050  0.151
2005 Vaziri A, Lee H, Kamm RD, Mofrad MRK. A viscoelastic model for nucleus deformation and mechanics in atomic force microscopy indentation Proceedings of the 2005 Summer Bioengineering Conference. 2005: 1108-1109.  0.15
2009 Weinberg EJ, Mofrad MRK. Multiscale simulations of the healthy and calcific human aortic valve Proceedings of the Asme Summer Bioengineering Conference, Sbc2008. 133-134.  0.149
2012 Golji J, Wendorff T, Mofrad MR. Phosphorylation primes vinculin for activation. Biophysical Journal. 102: 2022-30. PMID 22824265 DOI: 10.1016/j.bpj.2012.01.062  0.148
2007 Weinberg EJ, Mofrad MRK. Multiscale fluid-structure simulations of the aortic valve Proceedings of the Asme Summer Bioengineering Conference 2007, Sbc 2007. 245-246.  0.146
2016 Shams H, Garakani K, Golji J, Mofrad MR. Molecular Mechanism of α-Actinin Binding to F-Actin: Effect of K255E Mutation Biophysical Journal. 110: 125a-126a. DOI: 10.1016/j.bpj.2015.11.723  0.146
2017 Shams H, Luxton G, Mofrad MR. Mechanical Response of Nesprin-2G to Cytoskeletal Forces Regulates Linc Complex-Dependent Mechanotransduction Biophysical Journal. 112: 337a. DOI: 10.1016/j.bpj.2016.11.1825  0.145
2022 Zamri MHB, Ujihara Y, Nakamura M, Mofrad MRK, Sugita S. Decoding the Effect of Hydrostatic Pressure on TRPV1 Lower-Gate Conformation by Molecular-Dynamics Simulation. International Journal of Molecular Sciences. 23. PMID 35806371 DOI: 10.3390/ijms23137366  0.143
2010 Leach JR, Mofrad MRK, Saloner D. Computational models of vascular mechanics Computational Modeling in Biomechanics. 99-170. DOI: 10.1007/978-90-481-3575-2_4  0.141
2015 Shamloo A, Heibatollahi M, Mofrad MR. Directional migration and differentiation of neural stem cells within three-dimensional microenvironments. Integrative Biology : Quantitative Biosciences From Nano to Macro. 7: 335-44. PMID 25633746 DOI: 10.1039/C4Ib00144C  0.141
2022 McKinley JP, Montes AR, Wang MN, Kamath AR, Jimenez G, Lim J, Marathe SA, Mofrad MRK, O'Connell GD. Design of a flexing organ-chip to model loading of the intervertebral disc. Biomicrofluidics. 16: 054111. PMID 36330201 DOI: 10.1063/5.0103141  0.141
2018 Soheilypour M, Mofrad MRK. Agent-Based Modeling in Molecular Systems Biology. Bioessays : News and Reviews in Molecular, Cellular and Developmental Biology. e1800020. PMID 29882969 DOI: 10.1002/bies.201800020  0.139
2015 Seo BB, Chen PZ, Jahed Z, Mofrad MRK, Gu FX, Tsui TY. Trapping polystyrene and latex nanospheres inside hollow nanostructures using Staphylococcus aureus cells Journal of Experimental Nanoscience. DOI: 10.1080/17458080.2015.1059505  0.139
2016 Shams H, Mofrad MR. Distinct Roles of α-Actinin in Regulating Talin-Induced Activation of αIIbβ3 versus α5β1 Integrins Biophysical Journal. 110: 593a. DOI: 10.1016/j.bpj.2015.11.3164  0.139
2022 Shams H, Matsunaga A, Ma Q, Mofrad MRK, Didonna A. Methylation at a conserved lysine residue modulates tau assembly and cellular functions. Molecular and Cellular Neurosciences. 103707. PMID 35231567 DOI: 10.1016/j.mcn.2022.103707  0.136
2017 Seo BB, Jahed Z, Coggan JA, Chau YY, Rogowski JL, Gu FX, Wen W, Mofrad MRK, Tsui TY. Mechanical Contact Characteristics of PC3 Human Prostate Cancer Cells on Complex-Shaped Silicon Micropillars. Materials (Basel, Switzerland). 10. PMID 28767082 DOI: 10.3390/Ma10080892  0.136
2009 Zaman MH, Mofrad MRK, Bao G, Kamm RD. Cellular and Molecular Bioengineering: Editorial Cellular and Molecular Bioengineering. 2: 1. DOI: 10.1007/s12195-009-0054-x  0.133
2023 Mehranfar A, Khavani M, Mofrad MRK. Adsorption Process of Various Antimicrobial Peptides on Different Surfaces of Cellulose. Acs Applied Bio Materials. 6: 1041-1053. PMID 36935640 DOI: 10.1021/acsabm.2c00905  0.133
2018 Soheilypour M, Mofrad MRK. Quality control of mRNAs at the entry of the nuclear pore: Cooperation in a complex molecular system. Nucleus (Austin, Tex.). 9: 202-211. PMID 29431587 DOI: 10.1080/19491034.2018.1439304  0.132
2007 Weinberg EJ, Mofrad MRK. Three-dimensional, multiscale simulations of the human aortic valve Cardiovascular Engineering. 7: 140-155. PMID 18026835 DOI: 10.1007/s10558-007-9038-4  0.131
2021 Peyro M, Soheilypour M, Nibber VS, Dickson AM, Mofrad MRK. FG Nucleoporins feature unique amino acid sequence patterns that distinguish them from other IDPs. Biophysical Journal. PMID 34237287 DOI: 10.1016/j.bpj.2021.06.031  0.129
2021 Peyro M, Soheilypour M, Nibber VS, Dickson AM, Mofrad MRK. FG Nucleoporins feature unique amino acid sequence patterns that distinguish them from other IDPs. Biophysical Journal. PMID 34237287 DOI: 10.1016/j.bpj.2021.06.031  0.129
2010 Leach JR, Rayz VL, Mofrad MR, Saloner D. An efficient two-stage approach for image-based FSI analysis of atherosclerotic arteries. Biomechanics and Modeling in Mechanobiology. 9: 213-23. PMID 19756798 DOI: 10.1007/S10237-009-0172-3  0.129
2015 Mahboobi SH, Javanpour AA, Mofrad MR. The interaction of RNA helicase DDX3 with HIV-1 Rev-CRM1-RanGTP complex during the HIV replication cycle. Plos One. 10: e0112969. PMID 25723178 DOI: 10.1371/journal.pone.0112969  0.127
2009 Chandran PL, Wolf CB, Mofrad MRK. Band-like stress fiber propagation in a continuum and implications for myosin contractile stresses Cellular and Molecular Bioengineering. 2: 13-27. DOI: 10.1007/s12195-009-0044-z  0.127
2021 Asadzadeh H, Moosavi A, Alexandrakis G, Mofrad MRK. Atomic Scale Interactions between RNA and DNA Aptamers with the TNF- Protein. Biomed Research International. 2021: 9926128. PMID 34327241 DOI: 10.1155/2021/9926128  0.127
2016 Haydari Z, Shams H, Mofrad MR. Molecular Mechanisms of STIM1-Mediated Orai-1 Channel Activation Biophysical Journal. 110: 265a. DOI: 10.1016/j.bpj.2015.11.1447  0.121
2024 Talebi S, Gai S, Sossin A, Zhu V, Tong E, Mofrad MRK. Deep Learning for Perfusion Cerebral Blood Flow (CBF) and Volume (CBV) Predictions and Diagnostics. Annals of Biomedical Engineering. PMID 38402314 DOI: 10.1007/s10439-024-03471-7  0.12
2015 Lazarus C, Soheilypour M, Mofrad MR. Torsional behavior of axonal microtubule bundles. Biophysical Journal. 109: 231-9. PMID 26200859 DOI: 10.1016/j.bpj.2015.06.029  0.119
2022 Aminian-Dehkordi J, Valiei A, Mofrad MRK. Emerging computational paradigms to address the complex role of gut microbial metabolism in cardiovascular diseases. Frontiers in Cardiovascular Medicine. 9: 987104. PMID 36299869 DOI: 10.3389/fcvm.2022.987104  0.118
2021 Røise JJ, Han H, Li J, Kerr DL, Taing C, Behrouzi K, He M, Ruan E, Chan LY, Espinoza EM, Reinhard S, Thakker K, Kwon J, Mofrad MRK, Murthy N. Acid-Sensitive Surfactants Enhance the Delivery of Nucleic Acids. Molecular Pharmaceutics. PMID 34931518 DOI: 10.1021/acs.molpharmaceut.1c00579  0.116
2012 Peter SJ, Mofrad MR. Computational modeling of axonal microtubule bundles under tension. Biophysical Journal. 102: 749-57. PMID 22385845 DOI: 10.1016/j.bpj.2011.11.4024  0.115
2017 Arzani A, Mofrad MRK. A strain-based finite element model for calcification progression in aortic valves. Journal of Biomechanics. PMID 29100595 DOI: 10.1016/j.jbiomech.2017.10.014  0.115
2017 Bakhaty AA, Govindjee S, Mofrad MRK. Consistent trilayer biomechanical modeling of aortic valve leaflet tissue. Journal of Biomechanics. PMID 28830591 DOI: 10.1016/J.Jbiomech.2017.06.014  0.115
2013 Mofrad MRK, Kamm RD. Cellular mechanotransduction: Diverse perspectives from molecules to tissues Cellular Mechanotransduction: Diverse Perspectives From Molecules to Tissues. 1-481. DOI: 10.1017/CBO9781139195874  0.115
2016 Gu J, Chen PZ, Seo BB, Jardin JM, Verma MS, Jahed Z, Mofrad MRK, Gu FX, Tsui TY. Adhesion characteristics of Staphylococcus aureus bacterial cells on funnel-shaped palladium–cobalt alloy nanostructures Journal of Experimental Nanoscience. 11: 480-489. DOI: 10.1080/17458080.2015.1083126  0.114
2019 Didonna A, Cantó E, Shams H, Isobe N, Zhao C, Caillier SJ, Condello C, Yamate-Morgan H, Tiwari-Woodruff SK, Mofrad MRK, Hauser SL, Oksenberg JR. Sex-specific Tau methylation patterns and synaptic transcriptional alterations are associated with neural vulnerability during chronic neuroinflammation. Journal of Autoimmunity. PMID 31010726 DOI: 10.1016/J.Jaut.2019.04.003  0.112
2010 Croft LR, Mofrad MRK. Computational modeling of aortic heart valves Computational Modeling in Biomechanics. 221-252. DOI: 10.1007/978-90-481-3575-2_7  0.111
2017 Arzani A, Masters KS, Mofrad MRK. Multiscale Systems Biology Model of Calcific Aortic Valve Disease Progression. Acs Biomaterials Science & Engineering. 3: 2922-2933. PMID 33418713 DOI: 10.1021/acsbiomaterials.7b00174  0.11
2009 Chandran PL, Mofrad MRK. Hydrodynamics and semi-flexible filament behavior Proceedings of the Asme Summer Bioengineering Conference 2009, Sbc2009. 103-104. DOI: 10.1115/SBC2009-206748  0.109
2019 Asgari E, McHardy AC, Mofrad MRK. Probabilistic variable-length segmentation of protein sequences for discriminative motif discovery (DiMotif) and sequence embedding (ProtVecX). Scientific Reports. 9: 3577. PMID 30837494 DOI: 10.1038/s41598-019-38746-w  0.108
2023 Sanati A, Esmaeili Y, Khavani M, Bidram E, Rahimi A, Dabiri A, Rafienia M, Arbab Jolfaie N, Mofrad MRK, Haghjooy Javanmard S, Shariati L, Zarrabi A. Smartphone-assisted lab-in-a-tube device using gold nanocluster-based aptasensor for detection of MUC1-overexpressed tumor cells. Analytica Chimica Acta. 1252: 341017. PMID 36935143 DOI: 10.1016/j.aca.2023.341017  0.107
2024 Talebi S, Tong E, Li A, Yamin G, Zaharchuk G, Mofrad MRK. Exploring the performance and explainability of fine-tuned BERT models for neuroradiology protocol assignment. Bmc Medical Informatics and Decision Making. 24: 40. PMID 38326769 DOI: 10.1186/s12911-024-02444-z  0.103
2023 Khavani M, Mehranfar A, Mofrad MRK. On the interactions of peptides with gold nanoparticles: effects of sequence and size. Journal of Biomolecular Structure & Dynamics. 1-13. PMID 37306472 DOI: 10.1080/07391102.2023.2220816  0.101
2021 Seyyedsalehi SF, Soleymani M, Rabiee HR, Mofrad MRK. PFP-WGAN: Protein function prediction by discovering Gene Ontology term correlations with generative adversarial networks. Plos One. 16: e0244430. PMID 33630862 DOI: 10.1371/journal.pone.0244430  0.101
2022 Khavani M, Mehranfar A, Mofrad MRK. Effects of Ionic Liquids on the Stabilization Process of Gold Nanoparticles. The Journal of Physical Chemistry. B. 126: 9617-9631. PMID 36367820 DOI: 10.1021/acs.jpcb.2c05878  0.094
2023 Bajaj T, Wehri E, Suryawanshi RK, King E, Pardeshi KS, Behrouzi K, Khodabakhshi Z, Schulze-Gahmen U, Kumar GR, Mofrad MRK, Nomura DK, Ott M, Schaletzky J, Murthy N. Mercapto-pyrimidines are reversible covalent inhibitors of the papain-like protease (PLpro) and inhibit SARS-CoV-2 (SCoV-2) replication. Rsc Advances. 13: 17667-17677. PMID 37312993 DOI: 10.1039/d3ra01915b  0.094
2021 Nourani E, Asgari E, Mc Hardy A, Mofrad M. TripletProt: Deep Representation Learning of Proteins based on Siamese Networks. Ieee/Acm Transactions On Computational Biology and Bioinformatics. PMID 34460382 DOI: 10.1109/TCBB.2021.3108718  0.092
2015 Bakhaty AA, Mofrad MR. Coupled Simulation of Heart Valves: Applications to Clinical Practice. Annals of Biomedical Engineering. 43: 1626-39. PMID 26101029 DOI: 10.1007/s10439-015-1348-x  0.091
2020 Anderson KM, Augusto DG, Dandekar R, Shams H, Zhao C, Yusufali T, Montero-Martín G, Marin WM, Nemat-Gorgani N, Creary LE, Caillier S, Mofrad MRK, Parham P, Fernández-Viña M, Oksenberg JR, et al. Killer Cell Immunoglobulin-like Receptor Variants Are Associated with Protection from Symptoms Associated with More Severe Course in Parkinson Disease. Journal of Immunology (Baltimore, Md. : 1950). PMID 32709660 DOI: 10.4049/Jimmunol.2000144  0.091
2007 Coghlan KM, McGarry P, Mofrad MRK, McHugh PE. Development of a discrete finite element cell model Proceedings of the Asme Summer Bioengineering Conference 2007, Sbc 2007. 437-438.  0.089
2014 Hasan A, Ragaert K, Swieszkowski W, Selimović S, Paul A, Camci-Unal G, Mofrad MR, Khademhosseini A. Biomechanical properties of native and tissue engineered heart valve constructs. Journal of Biomechanics. 47: 1949-63. PMID 24290137 DOI: 10.1016/J.Jbiomech.2013.09.023  0.088
2005 Khalil AS, Chan RC, Chau AH, Bouma BE, Mofrad MR. Tissue elasticity estimation with optical coherence elastography: toward mechanical characterization of in vivo soft tissue. Annals of Biomedical Engineering. 33: 1631-9. PMID 16341928 DOI: 10.1007/S10439-005-6766-3  0.088
2023 Han H, Gracia AV, Røise JJ, Boike L, Leon K, Schulze-Gahmen U, Stentzel MR, Bajaj T, Chen D, Li IC, He M, Behrouzi K, Khodabakhshi Z, Nomura DK, Mofrad MRK, et al. A covalent inhibitor targeting the papain-like protease from SARS-CoV-2 inhibits viral replication. Rsc Advances. 13: 10636-10641. PMID 37025664 DOI: 10.1039/d3ra00426k  0.088
2016 Hasan A, Saliba J, Pezeshgi Modarres H, Bakhaty A, Nasajpour A, Mofrad MR, Sanati-Nezhad A. Micro and nanotechnologies in heart valve tissue engineering. Biomaterials. 103: 278-292. PMID 27414719 DOI: 10.1016/J.Biomaterials.2016.07.001  0.087
2010 Leach JR, Rayz VL, Soares B, Wintermark M, Mofrad MR, Saloner D. Carotid atheroma rupture observed in vivo and FSI-predicted stress distribution based on pre-rupture imaging. Annals of Biomedical Engineering. 38: 2748-65. PMID 20232151 DOI: 10.1007/S10439-010-0004-8  0.086
2010 Weinberg EJ, Shahmirzadi D, Mofrad MR. On the multiscale modeling of heart valve biomechanics in health and disease. Biomechanics and Modeling in Mechanobiology. 9: 373-87. PMID 20066464 DOI: 10.1007/s10237-009-0181-2  0.085
2009 Weinberg EJ, Schoen FJ, Mofrad MR. A computational model of aging and calcification in the aortic heart valve. Plos One. 4: e5960. PMID 19536285 DOI: 10.1371/journal.pone.0005960  0.081
2015 Asgari E, Mofrad MR. Continuous Distributed Representation of Biological Sequences for Deep Proteomics and Genomics. Plos One. 10: e0141287. PMID 26555596 DOI: 10.1371/journal.pone.0141287  0.08
2016 Boyer PD, Shams H, Baker SL, Mofrad MRK, Islam MF, Dahl KN. Enhanced intracellular delivery of small molecules and drugs via non-covalent ternary dispersions of single-wall carbon nanotubes Journal of Materials Chemistry B. 4: 1324-1330. DOI: 10.1039/c5tb02016f  0.074
2006 Karimi R, Chan R, Houser S, Bouma BE, Mofrad MRK. A novel framework for elastography and modulus estimation: Integration of tissue mechanics with imaging 2006 3rd Ieee International Symposium On Biomedical Imaging: From Nano to Macro - Proceedings. 2006: 602-605.  0.073
2018 Pezeshgi Modarres H, Mofrad MR, Sanati-Nezhad A. ProtDataTherm: A database for thermostability analysis and engineering of proteins. Plos One. 13: e0191222. PMID 29377907 DOI: 10.1371/journal.pone.0191222  0.072
2015 Kheradvar A, Groves EM, Falahatpisheh A, Mofrad MK, Hamed Alavi S, Tranquillo R, Dasi LP, Simmons CA, Jane Grande-Allen K, Goergen CJ, Baaijens F, Little SH, Canic S, Griffith B. Emerging Trends in Heart Valve Engineering: Part IV. Computational Modeling and Experimental Studies. Annals of Biomedical Engineering. 43: 2314-33. PMID 26224522 DOI: 10.1007/S10439-015-1394-4  0.072
2021 Bahai A, Asgari E, Mofrad MRK, Kloetgen A, McHardy AC. EpitopeVec: Linear Epitope Prediction Using Deep Protein Sequence Embeddings. Bioinformatics (Oxford, England). PMID 34180989 DOI: 10.1093/bioinformatics/btab467  0.071
2018 Shams H, Mofrad MR. Enhancing Enzymatic Activity for Cellulose Degradation Biophysical Journal. 114: 584a-585a. DOI: 10.1016/j.bpj.2017.11.3198  0.071
2017 Shams H, Mofrad MR. Allosteric Regulation of Vinculin Activation by Alpha-Actinin Biophysical Journal. 112: 498a. DOI: 10.1016/j.bpj.2016.11.2694  0.07
2018 Madani A, Arnaout R, Mofrad M, Arnaout R. Fast and accurate view classification of echocardiograms using deep learning. Npj Digital Medicine. 1. PMID 30828647 DOI: 10.1038/s41746-017-0013-1  0.068
2019 Madani A, Bakhaty A, Kim J, Mubarak Y, Mofrad M. Bridging finite element and machine learning modeling: stress prediction of arterial walls in atherosclerosis. Journal of Biomechanical Engineering. PMID 30912802 DOI: 10.1115/1.4043290  0.067
2010 Mofrad MRT, La Magna A, Ishihara R, Ming H, Beenakker K. A three-dimensional phase-field simulation of pulsed laser induced epitaxial growth of silicon Journal of Optoelectronics and Advanced Materials. 12: 701-706.  0.066
2015 Kheradvar A, Groves EM, Dasi LP, Alavi SH, Tranquillo R, Grande-Allen KJ, Simmons CA, Griffith B, Falahatpisheh A, Goergen CJ, Mofrad MR, Baaijens F, Little SH, Canic S. Emerging trends in heart valve engineering: Part I. Solutions for future. Annals of Biomedical Engineering. 43: 833-43. PMID 25488074 DOI: 10.1007/S10439-014-1209-Z  0.064
2008 Karimi R, Zhu T, Bouma BE, Mofrad MR. Estimation of nonlinear mechanical properties of vascular tissues via elastography. Cardiovascular Engineering (Dordrecht, Netherlands). 8: 191-202. PMID 19048372 DOI: 10.1007/S10558-008-9061-0  0.061
2009 Du Y, Cropek D, Mofrad MRK, Weinberg EJ, Khademhosseini A, Borenstein J. Microfluidic systems for engineering vascularized tissue constructs Microfluidics For Biological Applications. 223-240. DOI: 10.1007/978-0-387-09480-9_7  0.061
2010 Chen T, Ishihara R, Mofrad MRT, Vollebregt S, Van Der Cingel J, Van Der Zwan M, Schellevis H, Beenakker K. High performance single-grain Ge TFTs without seed substrate Technical Digest - International Electron Devices Meeting, Iedm. 21.1.1-21.1.4. DOI: 10.1109/IEDM.2010.5703404  0.06
2023 Dickson A, Asgari E, McHardy AC, Mofrad MRK. GO Bench: shared hub for universal benchmarking of machine learning-based protein functional annotations. Bioinformatics (Oxford, England). 39. PMID 36786404 DOI: 10.1093/bioinformatics/btad081  0.06
2018 Asgari E, Münch PC, Lesker TR, McHardy AC, Mofrad MRK. DiTaxa: Nucleotide-pair encoding of 16S rRNA for host phenotype and biomarker detection. Bioinformatics (Oxford, England). PMID 30500871 DOI: 10.1093/bioinformatics/bty954  0.06
2018 Asgari E, Garakani K, McHardy AC, Mofrad MRK. MicroPheno: predicting environments and host phenotypes from 16S rRNA gene sequencing using a k-mer based representation of shallow sub-samples. Bioinformatics (Oxford, England). 34: i32-i42. PMID 29950008 DOI: 10.1093/bioinformatics/bty296  0.058
2012 Karimi M, Sodagar AM, Mofrad ME, Amiri P. Auxiliary-carrier load-shift keying for reverse data telemetry from biomedical implants 2012 Ieee Biomedical Circuits and Systems Conference: Intelligent Biomedical Electronics and Systems For Better Life and Better Environment, Biocas 2012 - Conference Publications. 220-223. DOI: 10.1109/BioCAS.2012.6418457  0.058
2020 Talebi S, Madani MH, Madani A, Chien A, Shen J, Mastrodicasa D, Fleischmann D, Chan FP, Mofrad MRK. Machine learning for endoleak detection after endovascular aortic repair. Scientific Reports. 10: 18343. PMID 33110113 DOI: 10.1038/s41598-020-74936-7  0.056
2019 Zhou N, Jiang Y, Bergquist TR, Lee AJ, Kacsoh BZ, Crocker AW, Lewis KA, Georghiou G, Nguyen HN, Hamid MN, Davis L, Dogan T, Atalay V, Rifaioglu AS, Dalkıran A, ... ... Mofrad MRK, et al. The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens. Genome Biology. 20: 244. PMID 31744546 DOI: 10.1186/S13059-019-1835-8  0.055
2015 Kheradvar A, Groves EM, Falahatpisheh A, Mofrad MK, Hamed Alavi S, Tranquillo R, Dasi LP, Simmons CA, Jane Grande-Allen K, Goergen CJ, Baaijens F, Little SH, Canic S, Griffith B. Emerging Trends in Heart Valve Engineering: Part IV. Computational Modeling and Experimental Studies Annals of Biomedical Engineering. DOI: 10.1007/s10439-015-1394-4  0.054
2020 Lesani A, Kazemnejad S, Moghimi Zand M, Azadi M, Jafari H, Mofrad MRK, Nosrati R. Quantification of human sperm concentration using machine learning-based spectrophotometry. Computers in Biology and Medicine. 127: 104061. PMID 33126127 DOI: 10.1016/j.compbiomed.2020.104061  0.054
2015 Mofrad MR, Nezhad ME, Akbari H, Atharizade M, Miranzadeh MB. Evaluation of efficacy of advanced oxidation processes fenton, fenton-like and photo-fenton for removal of phenol from aqueous solutions Journal of the Chemical Society of Pakistan. 37: 266-271.  0.053
2014 Seidabady M, Mofrad MN, Zayeri F. A study of correlation between Ramsay "Sedation Level" scale and Richmond "Agitation-Sedation" scale and physiological parameters to determine the need for sedation in patients undergoing mechanical ventilation, 2013 Biosciences Biotechnology Research Asia. 11: 621-626. DOI: 10.13005/bbra/1314  0.051
2020 Mofrad MMG, Pourzamani H, Amin MM, Parseh I, Alipour M. In situ treatment of metalworking wastewater by chemical addition-dissolved air flotation coupled with UV, HO & ZnO. Heliyon. 6: e03091. PMID 31909262 DOI: 10.1016/j.heliyon.2019.e03091  0.051
2014 Mofrad MH, Maillart LM, Norman BA, Rajgopal J. Dynamically optimizing the administration of vaccines from multi-dose vials Iie Transactions (Institute of Industrial Engineers). 46: 623-635. DOI: 10.1080/0740817X.2013.849834  0.051
2010 De S, Guilak F, Mofrad MRK. Computational modeling in biomechanics Computational Modeling in Biomechanics. 1-581. DOI: 10.1007/978-90-481-3575-2  0.05
2013 Mofrad MN. Using blended learning model for large group teaching in medical education Biomedical and Pharmacology Journal. 6: 233-240. DOI: 10.13005/bpj/408  0.05
2013 Mofrad MN, Anboohi SZ. Measures to achieve active learning in large classes, using the workshop method in nursing education Biosciences Biotechnology Research Asia. 10: 731-738. DOI: 10.13005/bbra/1189  0.048
2014 Stutters L, Youngs G, Mofrad M. Photo Kiosk Architecture Society For Imaging Science and Technology - 6th International Symposium On Technologies For Digital Photo Fulfillment 2015. 21-28.  0.046
2009 Derakhshandeh J, Mofrad MRT, Ishihara R, Beenakker CIM. Analog and digital output lateral photodiodes fabricated by μ-Czochralski process at low temperature Device Research Conference - Conference Digest, Drc. 93-94. DOI: 10.1109/DRC.2009.5354856  0.045
2016 Saghafi N, Roodsary ZY, Kadkhodaeian S, Mofrad MH, Farahabadi EH, Hoseinyfarahabady M. Comparison of adnexal mass in women undergoing mass excision during the antepartum period and cesarean section Oman Medical Journal. 31: 217-222. DOI: 10.5001/omj.2016.41  0.044
2022 Bardideh F, Jarareh J, Mofrad M, Bardideh K. The Effectiveness of Integrated Group Therapy on Prolonged Grief Disorder of Bereaved People from COVID-19 Randomized Controlled Trial. Omega. 302228221141126. PMID 38124328 DOI: 10.1177/00302228221141126  0.044
2013 Fujii M, Ishikawa Y, Ishihara R, Van Der Cingel J, Mofrad MRT, Horita M, Uraoka Y. Low temperature high-mobility InZnO thin-film transistors fabricated by excimer laser annealing Applied Physics Letters. 102. DOI: 10.1063/1.4798519  0.044
2018 Madani A, Ong JR, Tibrewal A, Mofrad MRK. Deep echocardiography: data-efficient supervised and semi-supervised deep learning towards automated diagnosis of cardiac disease. Npj Digital Medicine. 1: 59. PMID 31304338 DOI: 10.1038/s41746-018-0065-x  0.044
2015 Kheradvar A, Groves EM, Simmons CA, Griffith B, Alavi SH, Tranquillo R, Dasi LP, Falahatpisheh A, Grande-Allen KJ, Goergen CJ, Mofrad MR, Baaijens F, Canic S, Little SH. Emerging trends in heart valve engineering: Part III. Novel technologies for mitral valve repair and replacement. Annals of Biomedical Engineering. 43: 858-70. PMID 25287646 DOI: 10.1007/S10439-014-1129-Y  0.041
2015 Javid A, Vahedian H, Sodagar AM, Mofrad ME. Low-power, high-data-rate, BPSK demodulator for implantable biomedicai applications 2014 21st Ieee International Conference On Electronics, Circuits and Systems, Icecs 2014. 415-418. DOI: 10.1109/ICECS.2014.7050010  0.04
2020 Khaledi A, Weimann A, Schniederjans M, Asgari E, Kuo TH, Oliver A, Cabot G, Kola A, Gastmeier P, Hogardt M, Jonas D, Mofrad MR, Bremges A, McHardy AC, Häussler S. Predicting antimicrobial resistance in Pseudomonas aeruginosa with machine learning-enabled molecular diagnostics. Embo Molecular Medicine. e10264. PMID 32048461 DOI: 10.15252/emmm.201910264  0.039
2011 Roudsari FV, Ayati S, Ghasemi M, Mofrad MH, Shakeri MT, Farshidi F, Shahabian M. Comparison of vaginal misoprostol with foley catheter for cervical ripening and induction of labor Iranian Journal of Pharmaceutical Research. 10: 149-154.  0.036
2015 Kheradvar A, Groves EM, Goergen CJ, Alavi SH, Tranquillo R, Simmons CA, Dasi LP, Grande-Allen KJ, Mofrad MR, Falahatpisheh A, Griffith B, Baaijens F, Little SH, Canic S. Emerging trends in heart valve engineering: Part II. Novel and standard technologies for aortic valve replacement. Annals of Biomedical Engineering. 43: 844-57. PMID 25449148 DOI: 10.1007/S10439-014-1191-5  0.036
2015 Homaee F, Mofrad MH, Mirtaymoore M, Aghaee MA, Eslame B. Clinicopathologic aspects and treatment results in malignant sex cord-stromal tumor of ovary Tehran University Medical Journal. 73: 485-490.  0.035
2009 Mofrad MRT, Derakhshandeh J, Ishihara R, Baiano A, Van der Cingel J, Beenakker K. Stacking of single-grain thin-film transistors Japanese Journal of Applied Physics. 48. DOI: 10.1143/JJAP.48.03B015  0.034
2022 Bardideh K, Jarareh J, Bardideh F, Bardideh A, Mofrad M. The effectiveness of cognitive-behavioural group therapy on infertile men, a randomised clinical trial. Journal of Reproductive and Infant Psychology. 1-14. PMID 36576275 DOI: 10.1080/02646838.2022.2162024  0.033
2013 Mofrad MN, Karami M. The effects of portfolio method on self-directed learning (SDL) of nursing students Biosciences Biotechnology Research Asia. 10: 817-821. DOI: 10.13005/bbra/1201  0.033
2013 Mofrad MN, Pazargadi M. Designing, implementation and evaluation of a blended learning model in large class education Biosciences Biotechnology Research Asia. 10: 675-682. DOI: 10.13005/bbra/1180  0.032
2016 Mofrad MH, Garcia GGP, Maillart LM, Norman BA, Rajgopal J. Customizing immunization clinic operations to minimize open vial waste Socio-Economic Planning Sciences. 54: 1-17. DOI: 10.1016/J.Seps.2015.10.007  0.031
2014 Yousefi Z, Mofrad MH, Kazemianfar Z, Ayatollahi H, Tavassoli F, Beyranvandi M, Aghayi MA. Comparison of serum levels of HSP70 and CA125 in patients with epithelial ovarian cancer and patients with benign ovarian masses Iranian Journal of Obstetrics, Gynecology and Infertility. 17: 1-5.  0.028
2013 Banaei-Kashani F, Asghari M, Mofrad MR, Shahabi C, Brenskelle L. SDPF: A framework for online, real-time cleansing of upstream operating data Society of Petroleum Engineers - Spe Western Regional / Pacific Section Aapg Joint Technical Conference 2013: Energy and the Environment Working Together For the Future. 741-749.  0.028
2011 Mofrad MH, Homaeei F, Esmaele H, Ayate S, Reabe HN. Evaluating clinico-pathologic characteristics of genital sarcoma: A retrospective study in Mashhad Tehran University Medical Journal. 68: 743-748.  0.028
2021 Kalantary RR, Jamshidi A, Mofrad MMG, Jafari AJ, Heidari N, Fallahizadeh S, Hesami Arani M, Torkashvand J. Effect of COVID-19 pandemic on medical waste management: a case study. Journal of Environmental Health Science & Engineering. 1-6. PMID 33758671 DOI: 10.1007/s40201-021-00650-9  0.028
2015 Kadkhodayan S, Mofrad MH, Saghafi N, Mokhber N, Rafaati M. Evaluation of sexual dysfunction in women with ovarian cancer admitted to Ghaem and Omid hospitals in Mashhad Iranian Journal of Obstetrics, Gynecology and Infertility. 18: 1-7.  0.024
2012 Ishihara R, Mofrad MRT, Derakhshandeh J, Golshani N, Beenakker CIM. Monolithic 3D-ICs with single grain Si thin film transistors Icsict 2012 - 2012 Ieee 11th International Conference On Solid-State and Integrated Circuit Technology, Proceedings. DOI: 10.1109/ICSICT.2012.6467714  0.023
2008 Mofrad MRT, Ishihara R, Derakhshandeh J, Baiano A, Van Der Cingel J, Beenakker C. Monolithic 3D integration of single-grain Si TFTs Materials Research Society Symposium Proceedings. 1066: 483-489.  0.023
2018 Asgari E, Garakani K, McHardy AC, Mofrad MRK. MicroPheno: predicting environments and host phenotypes from 16S rRNA gene sequencing using a k-mer based representation of shallow sub-samples. Bioinformatics (Oxford, England). PMID 30099528 DOI: 10.1093/bioinformatics/bty652  0.021
2015 Yousefi Z, Kadkhodayan S, Mofrad MH, Hoseini E, Mottaghi M, Moloughi S, Alamatian A. Prevalence of malignant adnexal masses in pregnancy at gynecology and oncology department of Ghaem hospital from 2010 to 2014 Iranian Journal of Obstetrics, Gynecology and Infertility. 18: 1-6.  0.021
2009 Leach JR, Rayz VL, Mofrad MRK, Wintermark M, Saloner D. Patient specific FEM analysis of the atherosclerotic carotid bifurcation Proceedings of the Asme Summer Bioengineering Conference 2009, Sbc2009. 177-178. DOI: 10.1115/SBC2009-206828  0.021
2011 St. Michel G, Mofrad M, Bowie T. A case study on sustainability through the application of the principles of pavement management 2011 Conference and Exhibition of the Transportation Association of Canada - Transportation Successes: Let's Build On Them, Tac/Atc 2011 0.018
2015 Mofrad MH, Hoseini E, Farazestanian M, Boroumand M. Ectopic pregnancy in the previous cesarean scar (A case report) Iranian Journal of Obstetrics, Gynecology and Infertility. 18: 20-24.  0.017
2007 De S, Guilak F, Mofrad MRK. Special Issue on Computational Bioengineering Computer Methods in Applied Mechanics and Engineering. 196: 2963-2964. DOI: 10.1016/J.Cma.2007.01.011  0.017
2013 Kamm RD, Mofrad MRK. Introduction Cellular Mechanotransduction: Diverse Perspectives From Molecules to Tissues. 1-19. DOI: 10.1017/CBO9781139195874.002  0.016
2014 Yousefi Z, Mofrad MH, AfzalAghaee M, Sharifi N, Jafarian M. Evaluation of related factors of remained dysplasia after treatment of cervical intraepithelial Neoplasia by Cold knife Conization (Longitudinal study) Iranian Journal of Obstetrics, Gynecology and Infertility. 17: 1-8.  0.014
2015 Mofrad MH, Ayati S, Ayatollahi H, Sima H, Shakeri MT, Haghighi SH, Malakouti H. Correlation of helicobacter pylori infection seropositivity and hyperemesis gravidarum Iranian Journal of Obstetrics, Gynecology and Infertility. 18: 1-5.  0.01
2015 Mofrad MH, Dehkordi AK, Tizabi NM, Amirian M. Survey of sexual dysfunction in women with cervical cancer and a history of pelvic radiation therapy in 2009 to 2013 in Ghaem and Omid hospitals, Mashhad Iranian Journal of Obstetrics, Gynecology and Infertility. 18: 9-18.  0.01
2014 Golmakani N, Imamverdikhan AP, Mofrad MH, Tabasi AS, Sistani NS, Shakeri MT. The comparison of clinical and laboratory indexes for diagnosis of vaginal atrophy in postmenopausal women Iranian Journal of Obstetrics, Gynecology and Infertility. 17: 10-17.  0.01
2013 Mofrad MRK, Kamm RD. Preface Cellular Mechanotransduction: Diverse Perspectives From Molecules to Tissues. xi-xii. DOI: 10.1017/CBO9781139195874.001  0.01
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