Publications

Cell Structure and Mechanobiology Group

2020

Journal articles

Hunt, H.; Til?nait?, A.; Bass, G.; Soeller, C.; Roderick, HL.; Rajagopal, V.; Crampin, EJ. (2020) “Ca2+ Release via IP3 Receptors Shapes the Cardiac Ca2+ Transient for Hypertrophic Signaling.” Biophysical Journal Biophysical Society. pp: 1178-1192. DOI:10.1016/j.bpj.2020.08.001

Khadangi, A.; Boudier, T.; Rajagopal, V. (2020) “EM-stellar: benchmarking deep learning for electron microscopy image segmentation” Cold Spring Harbor Laboratory. DOI:10.1101/2020.07.15.203836

Khadangi, A.; Boudier, T.; Rajagopal, V. (2020) “EM-net: Deep learning for electron microscopy image segmentation” Cold Spring Harbor Laboratory. DOI:10.1101/2020.02.03.933127

Namvar, A.; Blanch, AJ.; Dixon, MW.; Carmo, OMS.; Liu, B.; Tiash, S.; Looker, O.; Andrew, D.; Chan, L-J.; Tham, W-H.; Lee, PVS.; Rajagopal, V.; Tilley, L. (2020) “Surface area-to-volume ratio, not cellular viscoelasticity, is the major determinant of red blood cell traversal through small channels.” Cellular Microbiology Wiley. pp: e13270-. DOI:10.1111/cmi.13270

Til?nait?, A.; Ladd, D.; Hunt, H.; Soeller, C.; Roderick, L.; Crampin, E.; Rajagopal, V. (2020) “Ca2+ release via IP3Rs increases RyR mediated Ca2+ spark frequency in ventricular cardiomyocytes without altering spark amplitude and duration” Cold Spring Harbor Laboratory. DOI:10.1101/2020.08.13.249144

Wang, ZJ.; Wang, VY.; Gamage, TPB.; Rajagopal, V.; Cao, JJ.; Nielsen, PMF.; Bradley, CP.; Young, AA.; Nash, MP. (2020) “Efficient estimation of load-free left ventricular geometry and passive myocardial properties using principal component analysis” International Journal for Numerical Methods in Biomedical Engineering Wiley. pp: -. DOI:10.1002/cnm.3313

Zmurchok, C.; Collette, J.; Rajagopal, V.; Holmes, WR. (2020) “Membrane Tension Can Enhance Adaptation to Maintain Polarity of Migrating Cells.” Biophysical Journal Elsevier BV. DOI:10.1016/j.bpj.2020.08.035

Zmurchok, C.; Collette, J.; Rajagopal, V.; Holmes, WR. (2020) “Membrane tension can enhance adaptation to maintain polarity of migrating cells” Cold Spring Harbor Laboratory. DOI:10.1101/2020.04.01.020289

2019

Journal articles

Ghosh, S.; Hanssen, E.; Crampin, EJ.; Rajagopal, V. (2019) “How Does the Internal Structure of Cardiac Muscle Cells Regulate Cellular Metabolism?” Microscopy and Microanalysis Cambridge University Press (CUP). pp: 240-241. DOI:10.1017/s1431927619001934

Khadangi, A.; Hanssen, E.; Rajagopal, V. (2019) “Automated segmentation of cardiomyocyte Z-disks from high-throughput scanning electron microscopy data.” BMC Medical Informatics and Decision Making BioMed Central. pp: -. DOI:10.1186/s12911-019-0962-1

Ladd, D.; Tilunaite, A.; Roderick, HL.; Soeller, C.; Crampin, EJ.; Rajagopal, V. (2019) “Assessing Cardiomyocyte Excitation-Contraction Coupling Site Detection From Live Cell Imaging Using a Structurally-Realistic Computational Model of Calcium Release” Frontiers in Physiology Lausanne, Switzerland. Frontiers Media. pp: -. DOI:10.3389/fphys.2019.01263

Ladd, D.; Tilunaite, A.; Soeller, C.; Roderick, L.; Crampin, E.; Rajagopal, V. (2019) “Detecting RyR clusters with CaCLEAN: influence of spatial distribution and structural heterogeneity” Cold Spring Harbor Laboratory. DOI:10.1101/549683

Liu, B.; Blanch, AJ.; Namvar, A.; Carmo, O.; Tiash, S.; Andrew, D.; Hanssen, E.; Rajagopal, V.; Dixon, MWA.; Tilley, L. (2019) “Multimodal analysis of Plasmodium knowlesi-infected erythrocytes reveals large invaginations, swelling of the host cell, and rheological defects” CELLULAR MICROBIOLOGY WILEY. pp: -. DOI:10.1111/cmi.13005

Wo, N.; Rajagopal, V.; Cheung, MMH.; Smolich, JJ.; Mynard, JP. (2019) “Assessment of single beat end-systolic elastance methods for quantifying ventricular contractility” Heart and Vessels Tokyo, Japan. Springer Verlag. pp: 716-723. DOI:10.1007/s00380-018-1303-5

Other

Collette, J.; Holmes, W.; Rajagopal, V. (2019) “The Feedback between Cellular Mechanics and Chemical Signalling during Cytoskeletal Remodelling” CELL PRESS. pp: 414A-414A. DOI:10.1016/j.bpj.2018.11.2233

Ladd, D.; Tilunaite, A.; Roderick, HL.; Soeller, C.; Crampin, E.; Rajagopal, V. (2019) “Detecting RyR Clusters with CaCLEAN: Validation and Influence of Spatial Heterogeneity” CELL PRESS. pp: 42A-43A. DOI:10.1016/j.bpj.2018.11.273

2018

Journal articles

Ghosh, S.; Tran, K.; Delbridge, LMD.; Hickey, AJR.; Hanssen, E.; Crampin, EJ.; Rajagopal, V. (2018) “Insights on the impact of mitochondrial organisation on bioenergetics in high-resolution computational models of cardiac cell architecture” PLOS COMPUTATIONAL BIOLOGY PUBLIC LIBRARY SCIENCE. pp: -. DOI:10.1371/journal.pcbi.1006640

Hussain, A.; Ghosh, S.; Kalkhoran, SB.; Hausenloy, DJ.; Hanssen, E.; Rajagopal, V. (2018) “An automated workflow for segmenting single adult cardiac cells from large-volume serial block-face scanning electron microscopy data” Journal of Structural Biology ACADEMIC PRESS INC ELSEVIER SCIENCE. pp: 275-285. DOI:10.1016/j.jsb.2018.02.005

Rajagopal, V.; Bass, G.; Ghosh, S.; Hunt, H.; Walkers, C.; Hanssen, E.; Crampin, E.; Soeller, C. (2018) “Creating a Structurally Realistic Finite Element Geometric Model of a Cardiomyocyte to Study the Role of Cellular Architecture in Cardiomyocyte Systems Biology” Journal of Visualized Experiments JOURNAL OF VISUALIZED EXPERIMENTS. pp: -. DOI:10.3791/56817

Rajagopal, V.; Holmes, WR.; Lee, PVS. (2018) “Computational modeling of single-cell mechanics and cytoskeletal mechanobiology” Wiley Interdisciplinary Reviews: Systems Biology and Medicine WILEY. pp: -. DOI:10.1002/wsbm.1407

Conference Papers

Hanssen, E.; Rajagopal, V.; Khadankishandi, A. (2018) “Automated framework to reconstruct 3D model of cardiac Z-disk: an image processing approach” Zheng, H.; Callejas, Z.; Griol, D.; Wang, H.; Hu, X.; Schmidt, H.; Baumbach, J.; Dickerson, J.; Zhang, L. (Ed.) 2018 IEEE International Conference on Bioinformatics and Biomedicine IEEE. pp: 877-884. DOI:10.1109/BIBM.2018.8621515

2017

Journal articles

Jarosz, J.; Ghosh, S.; Delbridge, LMD.; Petzer, A.; Hickey, AJR.; Crampin, EJ.; Hanssen, E.; Rajagopal, V. (2017) “Changes in mitochondrial morphology and organization can enhance energy supply from mitochondrial oxidative phosphorylation in diabetic cardiomyopathy” American Journal of Physiology-Cell Physiology AMER PHYSIOLOGICAL SOC. pp: C190-C197. DOI:10.1152/ajpcell.00298.2016

Lelliott, PM.; Huang, HM.; Dixon, MW.; Namvar, A.; Blanch, AJ.; Rajagopal, V.; Tilley, L.; Coban, C.; Mcmorran, BJ.; Foote, SJ.; Burgio, G. (2017) “Erythrocyte beta spectrin can be genetically targeted to protect mice from malaria” Blood Advances AMER SOC HEMATOLOGY. pp: 2624-2636. DOI:10.1182/bloodadvances.2017009274

Conference Papers

Ghosh, S.; Crampin, EJ.; Hanssen, E.; Rajagopal, V. (2017) “A Computational Study of the Role of Mitochondrial Organization on Cardiac Bioenergetics” 39th Annual International Conference of the IEEE-Engineering-in-Medicine-and-Biology-Society (EMBC) IEEE. pp: 2696-2699. DOI:10.1109/EMBC.2017.8037413

Hussain, A.; Hanssen, E.; Rajagopal, V. (2017) “A Semi-Automated Workflow for Segmenting Contents of Single Cardiac Cells from Serial-Block-Face Scanning Electron Microscopy Data” Cambridge University Press (CUP). pp: 240-241. DOI:10.1017/s143192761700188x

Wang, ZJ.; Wang, VY.; Babarenda Gamage, TP.; Rajagopal, V.; Cao, JJ.; Nielsen, PMF.; Bradley, CP.; Young, AA.; Nash, MP. (2017) “Principal Component Analysis used to Derive Patient-Specific Load-Free Geometry and Estimate Myocardial Stiffness in the Heart” Computational and Mathematical Biomedical Engineering Zeta Computational Resources Ltd.

2015

Journal articles

Rajagopal, V.; Bass, G.; Walker, CG.; Crossman, DJ.; Petzer, A.; Hickey, A.; Siekmann, I.; Hoshijima, M.; Ellisman, MH.; Crampin, EJ.; Soeller, C. (2015) “Examination of the Effects of Heterogeneous Organization of RyR Clusters, Myofibrils and Mitochondria on Ca2+ Release Patterns in Cardiomyocytes” PLOS COMPUTATIONAL BIOLOGY PUBLIC LIBRARY SCIENCE. pp: -. DOI:10.1371/journal.pcbi.1004417

2014

Journal articles

Hou, Y.; Crossman, DJ.; Rajagopal, V.; Baddeley, D.; Jayasinghe, I.; Soeller, C. (2014) “Super-resolution fluorescence imaging to study cardiac biophysics: alpha-actinin distribution and Z-disk topologies in optically thick cardiac tissue slices” Progress in Biophysics and Molecular Biology PERGAMON-ELSEVIER SCIENCE LTD. pp: 328-339. DOI:10.1016/j.pbiomolbio.2014.07.003