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Selected Publications


Y. Li, V. Agrawal, R.K.A. Virk, E. Roth, W.S. Li, A. Eshein, J. Frederick, K. Huang, L. Almassalha, R. Bleher, M.A. Carignano, I. Szleifer, V.P. Dravid, V. Backman, “Analysis of three-dimensional chromatin packing domains by chromatin scanning transmission electron microscopy (ChromSTEM)”, Scientific Reports 12 (2022).

A.R. Shim, K. Huang, V. Backman, I. Szleifer, “Chromatin as self-returning walks: from population to single-cell and back”, Biophysical Reports 2(1), (2022).

S. Yadav, R. Virk, C.H. Chung, D. Van Derway, D. Chen, K. Burdett, H. Gao, Z. Zeng, M. Ranjan, G. Cottone, X. Xuei, S. Chandrasekaran, V. Backman, R. Chatterton, S.A. Khan, and S.E. Clare, “Lipid exposure of non-transformed mammary cells activates gene expression signatures associated with ER-negative breast cancer via chromatin remodeling”, npj Breast Cancer, 8(59) (2022).

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Li, A. Eshein, R.K.A. Virk, A. Eid, W. Wu, J. Frederick, D. VanDerway, S. Gladstein, K. Huang, N.M. Anthony, G.M. Bauer, X. Zhou, V. Agrawal, E. Pujadas, G. Esteve, J.E. Chandler, R. Bleher, J. de Pablo, I. Szleifer, V. Dravid, L.M. Almassalha, V. Backman, “Nanoscale Chromatin Imaging and Analysis (nano-CHIA) platform bridges 4-D chromatin organization with molecular function”, Science Advances 7, eabe4310 (2021).

Prasad, A. Rankine, T. Prasad, P. Song, M.E. Dokukin, N. Makarova, V. Backman, and I. Sokolov, “Atomic force microscopy detects the difference in cancer cells of different neoplastic aggressiveness via machine learning”, Advanced NanoBioMed Research, doi: 10.1002/anbr.202000116 (2021).

Eid, J. Winkelmann, A. Taflove, and V. Backman, “Origins of subdiffractional contrast in optical coherence tomography”, Biomedical Optics Express, 12(6): 3630–3642 (2021).

Ji, X. Wang, J. Frederick, H. Wang, S. Hui, V. Backman, “Spike-in normalization for single-cell RNA-seq reveals dynamic global transcriptional activity mediating anti-cancer drug response", NAR Genomics and Bioinformatics, 3(2) doi: 10.1093/nargab/lqab054 (2021).

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Huang, K., Y. Li, A.R. Shim, V. Agrawal, R.K.A. Virk, V. Agrawal, A. Eshein, R.J. Nap, L.M. Almassalha, V. Backman and I. Szleifer. 2020. “Physical and data structure of 3D genome”, Science Advances, 6(2), doi: 10.1126/sciadv.aay4055.

Virk, R.K.A., W. Wu, L. M. Almassalha, G. M. Wodarcyk, Y. Li, D. VanDerway, J. Frederick, D. Zhang, A. Eshein, H. K. Roy, I. Szleifer, and V. Backman. 2020. “Disordered chromatin packing regulates phenotypic plasticity”, Science Advances 6(2) doi: 10.1126/sciadv.aax6232.

A. Eid, A. Eshein, Y. Li, R. Virk, D. VanDerway, A. Taflove and V. Backman, “Characterizing chromatin packing scaling in whole nuclei using interferometric microscopy”, Optics Letters, 45(17) 4810-4813 (2020).

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Shim, A.R., R. Nap, K. Hauang, L. Almassalha, H. Matsuda, V. Backman and I. Szleifer. 2019. “Dynamic crowding regulates transcription”, Biophysical Journal, doi:

Spicer, G., A. Eid, D. Wangpraseurt, T. Swain, J. Winkelmann, J. Yi, M. Kuhl, L. Marcelino, V. Backman. 2019. “Measuring light scattering and absorption in corals with Inverse Spectroscopic Optical Coherence Tomography (ISOCT): a new tool for non-invasive monitoring”, Scientific Reports, 9:14148 doi: 10.1038/s41598-019-50658-3.

Zhou, X., S. Gladstein, L. Almassalha, Y. Li, A. Eshein, L. Cherkezyan, P. Viswanathan, H. Subramanian, I. Szleifer, and V. Backman. 2019. "Preservation of cellular nano-architecture by the process of chemical fixation for nanopathology", PLOS One, 14(7) doi:10.1371/journal.pone.0219006.

Stephens, A., P. Liu, V. Kandula, H. Chen, L. Almassalha, C. Herman, V. Backman, T. O’Halloran, S. Adam, R. Goldman, E. Banigan, J. Marko. 2019. "Physicochemical mechanotransduction alters nuclear shape and mechanics via heterochromatin formation", Molecular Biology of the Cell, doi:10.1091/mbc.E19-05-0286-T.

Winkelmann, J.A., G. Spicer, A. Eid, L.M. Almassalha, T.Q. Nguyen, V. Backman. 2019. "Spectral contrast optical coherence tomography angiography enables single-scan vessel imaging”, Light: Science and Applications, 8(7) doi: 10.1038/s41377-018-0117-7.

Gladstein, S., L.M. Almassalha, L. Cherkezyan, J.E. Chandler, A. Eshein, A. Eid, D. Zhang, W. Wu, G.M. Bauer, A.D. Stephens, S. Morochnik, H. Subramanian, J.F. Marko, G.A. Ameer, I. Szleifer, V. Backman. 2019. “Multimodal interference-based imaging of nanoscale structure and macromolecular motion uncovers UV induced cellular paroxysm”, Nature Communications, 10(1) 1652.

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Liu, R., J.A. Winkelmann, G. Spicer, Y. Zhu, A. Eid, G.A. Ameer, V. Backman, and J. Yi. 2018. “Single capillary oximetry and tissue ultrastructural sensing by dual-band dual-scan inverse spectroscopic optical coherence tomography”, Light: Science and Applications, 7(57) DOI 10.1038/s41377-018-0057-2.

Ruderman, S., A. Eshein, V. Valuckaite, U. Dougherty, A. Almograbi, A. Gomes, A. Singh, B. Pabla, H.K. Roy, J. Hart, M. Bissonnette, V. Konda, and V. Backman. 2018. “Early increase in blood supply (EIBS) is associated with tumor risk in the azoxymethane model of colon cancer”, BMC Cancer, 18(1):814. PMC6090821.

Winkelmann, J., A. Eid, T.Q. Nguyen, T. Bui, J. Yi, and V. Backman. 2018. “In Vivo broad-band visible light optical coherence tomography probe enables inverse spectroscopic analysis”, Optics Letters, 43(3) 619-622.

Datta, S., R.M Sherva, M. De La Cruz, M.T. Long, P. Roy, V. Backman, S. Chowdhury and H.K. Roy. 2018. “Single nucleotide polymorphism facilitated downregulation of the cohesin stromal antigen-1: implications for colorectal cancer racial disparities", Neoplasia, 20(3) 289-294 (2018). PMC5883624.

Liu, R., W. Song, V. Backman, J. Yi. 2018. “Quantitative quality-control metrics for in vivo oximetry in small vessels by visible light optical coherence tomography angiography", Biomedical Optics Express 10(2) 465-486.

Almassahla, L., G.L.C. Spicer, I.A. Martinez, R. Ellis, J.E. Chandler, S. Gladstein, D. Zhang, T.Q. Nguyen, S. Feder, H. Subramanian, R. de la Rica, S.A. Thompson, and V. Backman. 2018. "Label Free Localization of Nanoparticles in Live Cancer Cells using Spectroscopic Microscopy", The Royal Society of Chemistry, DOI: 10.1039/c8nr07481j

Almassalha, L., P. Liu, D. Banigan, V. Backman, S. Adam, R. Goldman and J. Marko. 2018. “Chromatin Histone Modifications and Rigidity Affect Nuclear Morphology Independent of Lamins”, Molecular Biology of the Cell, 29(2) 220-233. 

Backman, V., A. Eshein, A. Radosevich, B. Gould, W. Wu, V. Konda, L. Yang, A. Koons, S. Feder, V. Valuckaite, H. Roy, and T. Q. Nguyen. 2018. “Fully Automated Fiber Based Optical Spectroscopy System for Use in a Clinical Setting” JBO, 23(7) 1-10.

Backman, V., A. Eshein, Y. Li, B. Dong, L. Almassalha, J. Chandler, T.Q. Nguyen, K. Hujsak, V. Dravid, C. Sun, and H.F. Zhang. 2018. “Sub-10nm Imaging of Nucleic Acids Using Spectroscopic Intrinsic-contrast Photon-localization Optical Nanoscopy (SICLON)” Optics Letters, 43(23) 5817-5820.

Backmam, V., R. Kalman, A. Stawarz, D. Nunes, D. Zhang, M. Delacruz, R. Wali, H. Subramanian, and H.K. Roy. 2018. “Biophotonic Detection of High Order Chromatin Alterations in Field Carcinogenesis Predicts Risk of Future Hepatocellular Carcinoma: A Pilot Study” PLOS One, 13(5):e0197427. PMC5957524.

Backman, V., S. Gladstein, D. Damania, L.T. Smith, V. Gupta, H. Subramanian, D.K. Rex, and H.K. Roy. 2018. “Correlating Colorectal Cancer Risk with Field Carcinogenesis” Cancer Medicine, 10.1002/cam4.1357. 

Backman, V., T.D. Swain, S. Lax, N. Lake, H. Grooms, and L. Marcelino. 2018. “Relating Coral Skeletal Structures at Different Length Scales to Growth, Light Availability to Symbiodinium, and Thermal Bleaching", Frontiers in Marine Science, 5:450. DOI: 10.3389/fmars.2018.00450. 

Backman, V., T.D. Swain, E.C. Bold, P.C. Osborn, A.H. Baird, M.W. Westneat, and L.A. Marcelino. 2018. “Physiological Integration of Coral Colonies is Correlated with Bleaching Resistance”, Marine Ecology Progress Series, 586 1-10. (Feature article).

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Almassalha, L., A. Tiwari, P.T. Ruhoff, Y. Stypula-Cyrus, H. Matsuda, M.A. Dela Cruz, J.E. Chandler, C. White, C. Maneval, H. Subramanian, I. Szleifer, H. Roy, and V. Backman. 2017. “The Global Relationship Between Chromatin Physical Topology, Fractal Structure, and Gene Expression”, Scientific Reports, 7, 41061. PMC5259786.

Almassalha, L., B. Dong, B.T. Soetikno, J.E. Chandler, T.Q. Nguyen, B.E. Urban, C. Sun, H.F. Zhang, and V. Backman. 2017. “Stochastic Fluorescence Switching of Nucleic Acids Under Visible Light Illumination”, Optics Express, 25(7), 7929-7944. PMC5810907.

Almassalha, L., G.M. Bauer, W. Wu, L. Cherkezyan, D. Zhang, A. Kendra, S. Gladstein, J.E. Chandler, D. VanDerway, B. Seagle, A. Ugolkov, D.D. Billadeau, T.V. O’Halloran, A.P. Mazar, H.K. Roy, I. Szleifer, S. Shahabi, and V. Backman. 2017. “Macrogenomic Engineering via Modulation of the Scaling of Chromatin Packing Density”, Nature Biomedical Engineering, DOI: 10.1038/s41551-017-0153-2. PMC5809134.

Almassalha, L., G.M. Bauer, Y. Stypula-Cyrus, H. Subramanian, L. Cherkezyan, P. Viswanathan, D. Zhang, R. Iyengar, S. Bagalkar, J. Derbas, T. Graff, S. Gladstein, J. E. Chandler, H.K. Roy, and V. Backman. 2017. “The Transformation of the Nuclear Nanoarchitecture in Human Field Carcinogenesis”, Future Science, DOI: 10.4155/fsoa-2017-0027. PMC5583697.

Backman, V., L. Cherkezyan, D. Zhang, H. Subramanian, and A. Taflove. 2017. “Review of Interferometric Spectroscopy of Scattered Light for the Quantification of Subdiffractional Structure of Biomaterials”, JBO, 22(3), 030901. PMC5348632.

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Almassalha, L., B. Dong, Y. Stypula-Cyrus, B.E. Urban, T.Q. Nguyen, C. Sun, H.F. Zhang, and V. Backman. 2016. “Super-resolution Intrinsic Fluorescence Imaging of Chromatin Using Native, Unmodified Nucleic Acids for Contrast”, PNAS, 113(35), 9716-9721. PMC5024634.

Almassalha, L., G.M. Bauer, J. Chandler, S. Gladstein, L. Cherkezyan, Y. Stypula-Cyrus, S. Weinberg, D. Zhang, P. Thusgaard Ruhoff, H. Roy, H. Subramanian, N. Chandel, I. Szleifer, and V. Backman. “Label-free Imaging of the Native, Living Cellular Nano-architecture Using Partial-wave Spectroscopic Microscopy”, PNAS, 113(42) E6372-E6381. PMC5081614.

Almassalha, L., J.E. Chandler, Y. Stypula-Cyrus, G. Bauer, L. Bowen, H. Subramanian, I. Szleifer, and V. Backman. 2016. “Colocalization of Cellular Nanostructure Using Confocal Fluorescence and Partial Wave Spectroscopy”, Journal of Biophotonics, 10(3), 377-384. PMC5112146.

Almassalha, L., R.K. Wali, N. Momi, M. Dela Cruz, A.H. Calderwood, Y. Stypula-Cyrus, A. Chhaparia, C.R. Weber, A. Radosevich, A.K. Tiwari, B. Latif, V. Backman and H.K. Roy. 2016. “Higher-order Chromatin Modulator Cohesion SA1 is an Early Biomarker for Colon Carcinogenesis: Race-specific Implications”, Cancer Prevention Research, DOI: 10.1158/1940-6207.CAPR-16-0054. PMC5093027.

Backman, V., B.E. Urban, B. Dong, C. Sun, H.F. Zhang. 2016. “Subsurface Super-resolution Imaging of Unstained Polymer Nanostructures”, Scientific Reports, 6, 28156; DOI: 10.1038/srep28156. PMC4926209. 

Backman, V., B. Dong, L. Almassalha, B.E. Urban, T.Q. Nguyen, S. Khuon, T.L. Chew, C. Sun, and H.F. Zhang. 2016. “Super-resolution Spectroscopic Microscopy via Photon Localization”, Nature Communications, 7:12290 DOI: 10.1038/ncomms12290. PMC4962472.

Backman, V., H. Subramanian, P. Viswanathan, L. Cherkezyan, R. Iyengar, S. Rozhok, M. Verleye, J. Derbas, J. Czarnecki, and H.K. Roy. 2016. “Procedures for Risk-stratification of Lung Cancer Using Buccal Nanocytology”, Biomedical Optics Express, 7(9) 3795-3810. PMC5030050.

Backman, V., J. Chandler, L. Cherkezyan, and H. Subramanian. 2016. “Nanoscale Refractive Index Fluctuations Detected via Sparse Spectral Microscopy”, Biomedical Optics Express, 7(3), 883-893. PMC4866463.

Backman, V., L.M. Almassalha, G.M. Bauer, J. Chandler, S. Gladstein, I. Szleifer, and H.K. Roy. 2016. “The Greater Genomic Landscape: The Heterogeneous Evolution of Cancer”, Cancer Research, 76(19), 5605-9. PMC5084919. 

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Backman, V.,B.E. Urban, B. Dong, Z. Zhang, V. Backman, C. Sun, and H.F. Zhang. 2015. “Super-resolution Two-photon Microscopy via Scanning Patterned Illumination”, Physical Review E, 91(4):042703. PMC4565794.

Backman, V., H.K. Roy, C. Brendler, H. Subramanian, D. Zhang, C. Maneval, J. Chandler, K. Kaul, B. Helfand, C. Wang, M. Quinn, J. Petkewicz, and M. Paterakos. 2015. “Nanocytological Field Carcinogenesis Detection to Mitigate Overdiagnosis of Prostate Cancer: A Proof of Concept Study”, PLoS One, 10(2): e0115999. PMC4338151.

Backman, V., J. Yi, Y. Stypula-Cyrus, C.S. Blaha, and H.K. Roy. 2015. “Fractal Characterization of Chromatin Decompaction in Live Cells”, Biophysical Journal, 109(11), 2218-2226. PMC4675813.

Backman, V., N.N. Mutyal, A.J. Radosevich, S. Bajaj, V. Konda, U.D. Siddiqui, I. Waxman, M.J. Goldberg, J.D. Rogers, B. Gould, A. Eshein, S. Upadhye, A. Koons, M. Gonzalez, and H.K. Roy. 2015. “In Vivo Risk Analysis of Pancreatic Cancer through Optical Characterization of Duodenal Mucosa”, Pancreas, 44(5), 735-741 PMC4464933.

Backman, V., S.M. Azarin, J. Yi, R.M. Gower, B.A. Aguado, M.E. Sullivan, A.G. Goodman, E.J. Jiang, S.S. Rao, Y. Ren, J.S. Jeruss, and L. Shea. 2015. “In Vivo Capture and Label-free Detection of Early Metastatic Cells”, Nature Communications, 6:8094. PMC4563812.

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Backman, V., A.J. Radosevich, N.N. Mutyal, J.D. Rogers, B. Gould, T.A. Hensing, and D. Ray. 2014. “Buccal Spectral Markers for Lung Cancer Risk Stratification." PLoS One 9(10): e110157. PMC4192585.

Backman, V., H. Matsuda, G.G. Putzel, and I. Szleifer. 2014. “Macromolecular Crowding as a Regulator of Gene Transcription”, Biophysical Journal, 106, 1801-1810. PMC4008821.

Backman, V., K. Phillips, D. Damania, H. Subramanian, E. Anderson, M.H. Wong, and O. McCarty. 2014. “Network Signatures of Nuclear and Cytoplasmic Density Alterations in a Model of Pre- and Post-Metastatic Colorectal Cancer”, JBO, 19(1), 016016. PMC4019418.

Backman, V., L. Cherkezyan, and H. Subramanian. 2014. “What Structural Length-scales Can Be Detected by the Spectral Variance of a Microscope Image?”, Optics Letters, 39(15), 4290-4293. PMC4317340.

Backman, V., L. Cherkezyan, Y. Stypula-Cyrus, H. Subramanian, C. White, M. Dela Cruz, R.K. Wali, M.J. Goldberg, L.K. Bianchi, and H.K. Roy. 2014. “Nanoscale Changes in Chromatin Organization Represent the Initial Steps of Tumorigenesis: A Transmission Electron Microscopy Study”, Biomed Central Cancer, 14(189). PMC3995586.

Backman, V., R. K. Wali, T. A. Hensing, D. W. Ray, M. Dela Cruz, A. Tiwari, A. Radosevich, L. Jepeal, H.C. Fernando, V. Litle, M. Charlot, N. Momi, and H.K. Roy. 2014. “Buccal MicroRNA Dysregulation in Lung Field Carcinogenesis: Gender-specific Implications”, International Journal of Oncology, 45(3), 1209-1215 PMC4144027

Backman, V., Y. Stypula-Cyrus, N.N. Mutyal, M.A. Dela Cruz, D.P. Kunte, A.J. Radosevich, R.K.Wali, and H.K. Roy. 2013. “End-binding Protein 1 (EB1) Up-regulation is an Early Event in Colorectal Carcinogenesis”, FEBS Letters, 5(3), 829-835. PMC4103177.

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Backman, V., D. Damania, H.K. Roy, D. Kunte, J.A. Hurteau, H. Subramanian, L. Cherkezyan, M. Shah, and N. Krosnjar. 2013. “Insights into the Field Carcinogenesis of Ovarian Cancer Based on the Nanocytology of Endocervical and Endometrial Epithelial Cancer Cells”, International Journal of Cancer, 133(5), 1143-1152. PMC3695064. 

Backman, V. and H. K. Roy. 2013. "Advances in Biophotonics Detection of Field Carcinogenesis for Colon Cancer Risk Stratification." Journal of Cancer 4(3):5838.' (Special issue, invited paper). PMC3584838

Backman, V., H.K. Roy, D.P. Damania, M. DelaCruz, D.P. Kunte, H. Subramanian, S.E.Crawford, A.K. Tiwari, and R.K. Wali. 2013. “Nano-architectural Alterations in Mucus Layer Fecal Colonocytes in Field Carcinogenesis: Potential for Screening”, Cancer Prevention Research, 6, 1111-1119. PMC387374.

Backman, V., I.R. Capoglu, J.D. Rogers, and A. Taflove. 2013. “The Microscope in a Computer: Image Synthesis from Three-dimensional Full-vector Solutions of Maxwell’s Equations at the Nanometer Scale”, Progress in Optics, 57, 1-91.

Backman, V., J. Chandler, H. Subramanian, C.D. Maneval, and C.A. White. 2013. “High-speed Spectral Nanocytology for Early Cancer Screening”, J. Biomedical Optics, 18(11), 117002. PMC3817856.

Backman, V., L.A. Marcelino, M.W. Westneat, V. Stoyneva, J. Henss, J.D. Rogers, A. Radosevich, V. Turzhitsky, M. Siple, A. Fang, T.D. Swain, and J. Fung. 2013. “Modulation of Light-enhancement to Symbiotic Algae by Light-scattering in Corals and Evolutionary Trends in Bleaching”, PLoS One, 8(4) e61492. PMC3632607.

Backman, V., V. Konda, L. Cherkezyan, H. Subramanian, K. Wroblewski, D. Damania, V. Becker, M. Goldberg, J. Chennat, L. Karl, M. Ferguson, I. Waxman, and H. Roy. 2013. “Nanoscale Markers of Esophageal Field Carcinogenesis: Potential Implications for Esophageal Cancer Screening”, Endoscopy, 45, 983-988. PMC4195538.

Backman, V.,Y. Stypula-Cyrus, D. Damania, D.P. Kunte, M. De La Cruz, H. Subramanian, and H.K. Roy. 2013 “HDAC Up-regulation in Early Colon Field Carcinogenesis is Involved in Cell Tumorigenicity through Regulation of Chromatin Structure”, PLoS One, 8(5): e64600. PMC3665824.

Staunton, J. R. and D. Wirtz. 2013. "A Physical Sciences Network Characterization of Non-tumorigenic and Metastatic Cells." The Physical Sciences-Oncology Centers Network 3:1449.

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Backman, V., J.S. Kim, I. Szleifer. 2011. "Crowding-induced Structural Alterations of Random-loop Chromosome Model", PACS, 82.35.Lr, 87.16.A-, 87.16.Sr, 87.17.Aa. 

Backman, V., J.S. Kim, P. Pradhan, and I. Szleifer. 2011. "Influence of Chromosome Density Variations on the Increase in Nuclear Disorder Strength in Carcinogenesis", PACS, 82.35.Lr, 87.16.A-, 87.16.Sr, 87.85.Tu

Backman, V., S.R. Gandhi, A.K. Tiwari, D.P. Kunte, M.A. De La Cruz, Y. Stypula, T. Gibson, J. Brasky, R.K. Wali, and H.K. Roy. 2011. "Association of Stem-like Cells in Gender-specific Chemoprevention Against Intestinal Neoplasia in MIN Mouse", Oncology Reports, DOI: 10.3892. 

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Backman, V. and H.K. Roy. 2010. "Light-Scattering Technologies for Field Carcinogenesis Detection: A Modality for Endoscopic Prescreening", AGA Institute, DOI:10.1053/j.gastro.2010.11.023. 

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Backman, V., H. Subramanian, H.K. Roy, P. Pradhan, M.J. Goldberg, J. Muldoon, R.E. Brand, C. Sturgis, T. Hensing, D. Ray, A. Bogojevic, J. Mohammed, and J.S. Chang. 2009. "Nanoscale Cellular Changes in Field Carcinogenesis Detected by Partial Wave Spectroscopy", American Association for Cancer Research, DOI:10.1158/0008-5472.CAN-08-3895

Backman, V., H. Subramanian, P. Pradhan, Y. Liu, I.R. Capoglu, J.D. Rogers, H.K. Roy, and R.E. Brand. 2009. "Partial-wave Microscopic Spectroscopy Detects Subwavelength Refractive Index Fluctuations: An Application to Cancer Diagnosis", Optical Society of America, 300.6550, 290.1350. 

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Backman, V., H. Subramanian, P. Pradhan, Y. Liu, I.R. Capoglu, X. Li, J.D. Rogers, A. Heifetz, D. Kunte, H.K. Roy, and A. Taflove. 2008. "Optical Methodology for Detecting Histologically Unapparent Nanoscale Consequences of Genetic Alterations in Biological Cells", PNAS, DOI:10.1073/pnas.0804723105. 

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