If you made any changes in Pure these will be visible here soon.

Research Output

Filter
Article
2020

Disordered chromatin packing regulates phenotypic plasticity

Virk, R. K. A., Wu, W., Almassalha, L. M., Bauer, G. M., Li, Y., VanDerway, D., Frederick, J., Zhang, D., Eshein, A., Roy, H. K., Szleifer, I. & Backman, V., Jan 8 2020, In : Science Advances. 6, 2, eaax6232.

Research output: Contribution to journalArticle

Open Access
1 Scopus citations

Dynamic Crowding Regulates Transcription

Shim, A. R., Nap, R. J., Huang, K., Almassalha, L. M., Matusda, H., Backman, V. & Szleifer, I., May 5 2020, In : Biophysical Journal. 118, 9, p. 2117-2129 13 p.

Research output: Contribution to journalArticle

1 Scopus citations

Physical and data structure of 3D genome

Huang, K., Li, Y., Shim, A. R., Virk, R. K. A., Agrawal, V., Eshein, A., Nap, R. J., Almassalha, L. M., Backman, V. & Szleifer, I., Jan 10 2020, In : Science Advances. 6, 2, eaay4055.

Research output: Contribution to journalArticle

Open Access
1 Scopus citations
Open Access
2019

Measuring light scattering and absorption in corals with Inverse Spectroscopic Optical Coherence Tomography (ISOCT): a new tool for non-invasive monitoring

Spicer, G. L. C., Eid, A., Wangpraseurt, D., Swain, T. D., Winkelmann, J. A., Yi, J., Kühl, M., Marcelino, L. A. & Backman, V., Dec 1 2019, In : Scientific reports. 9, 1, 14148.

Research output: Contribution to journalArticle

Open Access

Multimodal interference-based imaging of nanoscale structure and macromolecular motion uncovers UV induced cellular paroxysm

Gladstein, S., Almassalha, L. M., Cherkezyan, L., Chandler, J. E., Eshein, A., Eid, A., Zhang, D., Wu, W., Bauer, G. M., Stephens, A. D., Morochnik, S., Subramanian, H., Marko, J. F., Ameer, G. A., Szleifer, I. & Backman, V., Dec 1 2019, In : Nature communications. 10, 1, 1652.

Research output: Contribution to journalArticle

Open Access
2 Scopus citations

Physicochemical mechanotransduction alters nuclear shape and mechanics via heterochromatin formation

Stephens, A. D., Liu, P. Z., Kandula, V., Chen, H., Almassalha, L. M., Herman, C., Backman, V., O'Halloran, T., Adam, S. A., Goldman, R. D., Banigan, E. J. & Marko, J. F., Aug 1 2019, In : Molecular biology of the cell. 30, 17, p. 2320-2330 11 p.

Research output: Contribution to journalArticle

Open Access
12 Scopus citations

Preservation of cellular nano-architecture by the process of chemical fixation for nanopathology

Zhou, X., Gladstein, S., Almassalha, L. M., Li, Y., Eshein, A., Cherkezyan, L., Viswanathan, P., Subramanian, H., Szleifer, I. & Backman, V., Jul 1 2019, In : PloS one. 14, 7, e0219006.

Research output: Contribution to journalArticle

Open Access

Quantitative quality-control metrics for in vivo oximetry in small vessels by visible light optical coherence tomography angiography

Liu, R., Song, W., Backman, V. & Yi, J., Jan 1 2019, In : Biomedical Optics Express. 10, 2, p. 465-486 22 p.

Research output: Contribution to journalArticle

4 Scopus citations
2018

Biophotonic detection of high order chromatin alterations in field carcinogenesis predicts risk of future hepatocellular carcinoma: A pilot study

Kalman, R., Stawarz, A., Nunes, D., Zhang, D., Dela Cruz, M. A., Mohanty, A., Subramanian, H., Backman, V. & Roy, H. K., May 2018, In : PloS one. 13, 5, e0197427.

Research output: Contribution to journalArticle

Chromatin histone modifications and rigidity affect nuclear morphology independent of lamins

Stephens, A. D., Liu, P. Z., Banigan, E. J., Almassalha, L. M., Backman, V., Adam, S. A., Goldman, R. D. & Marko, J. F., Jan 15 2018, In : Molecular biology of the cell. 29, 2, p. 220-233 14 p.

Research output: Contribution to journalArticle

44 Scopus citations

Correlating colorectal cancer risk with field carcinogenesis progression using partial wave spectroscopic microscopy

Gladstein, S., Damania, D., Almassalha, L. M., Smith, L. T., Gupta, V., Subramanian, H., Rex, D. K., Roy, H. K. & Backman, V., May 2018, In : Cancer medicine. 7, 5, p. 2109-2120 12 p.

Research output: Contribution to journalArticle

5 Scopus citations

Early increase in blood supply (EIBS) is associated with tumor risk in the Azoxymethane model of colon cancer

Ruderman, S., Eshein, A., Valuckaite, V., Dougherty, U., Almoghrabi, A., Gomes, A., Singh, A., Pabla, B., Roy, H. K., Hart, J., Bissonnette, M., Konda, V. & Backman, V., Aug 13 2018, In : BMC cancer. 18, 1, 814.

Research output: Contribution to journalArticle

2 Scopus citations

Fully automated fiber-based optical spectroscopy system for use in a clinical setting

Eshein, A., Radosevich, A. J., Gould, B., Wu, W., Konda, V., Yang, L. W., Koons, A., Feder, S., Valuckaite, V., Roy, H. K., Backman, V. & Nguyen, T. Q., Jul 1 2018, In : Journal of Biomedical Optics. 23, 7, 075003.

Research output: Contribution to journalArticle

1 Scopus citations

In vivo broadband visible light optical coherence tomography probe enables inverse spectroscopic analysis

Winkelmann, J. A., Eid, A., Nguyen, T. Q., Thang, B. U. I., Ji, Y. I. & Backman, V., Feb 1 2018, In : Optics Letters. 43, 3, p. 619-622 4 p.

Research output: Contribution to journalArticle

2 Scopus citations

Label free localization of nanoparticles in live cancer cells using spectroscopic microscopy

Spicer, G. L. C., Almassalha, L., Martinez, I. A., Ellis, R., Chandler, J. E., Gladstein, S., Zhang, D., Nguyen, T. Q., Feder, S., Subramanian, H., De La Rica, R., Thompson, S. A. & Backman, V., Oct 28 2018, In : Nanoscale. 10, 40, p. 19125-19130 6 p.

Research output: Contribution to journalArticle

1 Scopus citations
2 Scopus citations

Physiological integration of coral colonies is correlated with bleaching resistance

Swain, T. D., Bold, E. C., Osborn, P. C., Baird, A. H., Westneat, M. W., Backman, V. & Marcelino, L. A., Jan 11 2018, In : Marine Ecology Progress Series. 586, p. 1-10 10 p.

Research output: Contribution to journalArticle

13 Scopus citations

Relating coral skeletal structures at different length scales to growth, light availability to symbiodinium, and thermal bleaching

Swain, T. D., Lax, S., Lake, N., Grooms, H., Backman, V. & Marcelino, L. A., Nov 27 2018, In : Frontiers in Marine Science. 5, NOV, 450.

Research output: Contribution to journalArticle

6 Scopus citations

Single capillary oximetry and tissue ultrastructural sensing by dual-band dual-scan inverse spectroscopic optical coherence tomography

Liu, R., Winkelmann, J. A., Spicer, G., Zhu, Y., Eid, A., Ameer, G. A., Backman, V. & Yi, J., Dec 1 2018, In : Light: Science and Applications. 7, 1, 57.

Research output: Contribution to journalArticle

11 Scopus citations

Single Nucleotide Polymorphism Facilitated Down-Regulation of the Cohesin Stromal Antigen-1: Implications for Colorectal Cancer Racial Disparities

Datta, S., Sherva, R. M., De La Cruz, M., Long, M. T., Roy, P., Backman, V., Chowdhury, S. & Roy, H. K., Mar 2018, In : Neoplasia (United States). 20, 3, p. 289-294 6 p.

Research output: Contribution to journalArticle

1 Scopus citations

Sub-10-nm imaging of nucleic acids using spectroscopic intrinsic-contrast photon-localization optical nanoscopy (SICLON)

Eshein, A., Li, Y., Dong, B., Almassalha, L. M., Chandler, J. E., Nguyen, T. Q., Hujsak, K. A., Dravid, V. P., Sun, C., Zhang, H. F. & Backman, V., Dec 1 2018, In : Optics Letters. 43, 23, p. 5817-5820 4 p.

Research output: Contribution to journalArticle

2017

ASPirin Intervention for the REDuction of colorectal cancer risk (ASPIRED): A study protocol for a randomized controlled trial

Drew, D. A., Chin, S. M., Gilpin, K. K., Parziale, M., Pond, E., Schuck, M. M., Stewart, K., Flagg, M., Rawlings, C. A., Backman, V., Carolan, P. J., Chung, D. C., Colizzo, F. P., Freedman, M., Gala, M., Garber, J. J., Huttenhower, C., Kedrin, D., Khalili, H., Kwon, D. S. & 8 others, Markowitz, S. D., Milne, G. L., Nishioka, N. S., Richter, J. M., Roy, H. K., Staller, K., Wang, M. & Chan, A. T., Feb 1 2017, In : Trials. 18, 1, 50.

Research output: Contribution to journalArticle

20 Scopus citations

Bleaching response of coral species in the context of assemblage response

Swain, T. D., DuBois, E., Goldberg, S. J., Backman, V. & Marcelino, L. A., Jun 1 2017, In : Coral Reefs. 36, 2, p. 395-400 6 p.

Research output: Contribution to journalArticle

4 Scopus citations

Colocalization of cellular nanostructure using confocal fluorescence and partial wave spectroscopy

Chandler, J. E., Stypula-Cyrus, Y., Almassalha, L., Bauer, G., Bowen, L., Subramanian, H., Szleifer, I. & Backman, V., Mar 1 2017, In : Journal of Biophotonics. 10, 3, p. 377-384 8 p.

Research output: Contribution to journalArticle

9 Scopus citations
28 Scopus citations

Macrogenomic engineering via modulation of the scaling of chromatin packing density

Almassalha, L. M., Bauer, G. M., Wu, W., Cherkezyan, L., Zhang, D., Kendra, A., Gladstein, S., Chandler, J. E., Vanderway, D., Seagle, B. L. L., Ugolkov, A., Billadeau, D. D., O'Halloran, T. V., Mazar, A. P., Roy, H. K., Szleifer, I., Shahabi, S. & Backman, V., Nov 1 2017, In : Nature Biomedical Engineering. 1, 11, p. 902-913 12 p.

Research output: Contribution to journalArticle

16 Scopus citations

Measuring the Autocorrelation Function of Nanoscale Three-Dimensional Density Distribution in Individual Cells Using Scanning Transmission Electron Microscopy, Atomic Force Microscopy, and a New Deconvolution Algorithm

Li, Y., Zhang, D., Capoglu, I., Hujsak, K. A., Damania, D., Cherkezyan, L., Roth, E., Bleher, R., Wu, J. S., Subramanian, H., Dravid, V. P. & Backman, V., Jun 1 2017, In : Microscopy and Microanalysis. 23, 3, p. 661-667 7 p.

Research output: Contribution to journalArticle

2 Scopus citations

Metabolic reprogramming of the premalignant colonic mucosa is an early event in carcinogenesis

Dela Cruz, M., Ledbetter, S., Chowdhury, S., Tiwari, A. K., Momi, N., Wali, R. K., Bliss, C., Huang, C., Lichtenstein, D., Bhattacharya, S., Varma-Wilson, A., Backman, V. & Roy, H. K., 2017, In : Oncotarget. 8, 13, p. 20543-20557 15 p.

Research output: Contribution to journalArticle

17 Scopus citations

Parallel Three-Dimensional Tracking of Quantum Rods Using Polarization-Sensitive Spectroscopic Photon Localization Microscopy

Dong, B., Soetikno, B. T., Chen, X., Backman, V., Sun, C. & Zhang, H. F., Jul 19 2017, In : ACS Photonics. 4, 7, p. 1747-1752 6 p.

Research output: Contribution to journalArticle

10 Scopus citations

Reflection statistics of weakly disordered optical medium when its mean refractive index is different from an outside medium

Pradhan, P., John Park, D., Capoglu, I., Subramanian, H., Damania, D., Cherkezyan, L., Taflove, A. & Backman, V., Jun 15 2017, In : Optics Communications. 393, p. 185-190 6 p.

Research output: Contribution to journalArticle

Spectral biomarkers for chemoprevention of colonic neoplasia: A placebo-controlled double-blinded trial with aspirin

Roy, H. K., Turzhitsky, V., Wali, R., Radosevich, A. J., Jovanovic, B., Della'Zanna, G., Umar, A., Rubin, D. T., Goldberg, M. J., Bianchi, L., De La Cruz, M., Bogojevic, A., Helenowski, I. B., Rodriguez, L., Chatterton, R., Skripkauskas, S., Page, K., Weber, C. R., Huang, X., Richmond, E. & 2 others, Bergan, R. C. & Backman, V., Feb 1 2017, In : Gut. 66, 2, p. 285-292 8 p.

Research output: Contribution to journalArticle

15 Scopus citations

Stochastic fluorescence switching of nucleic acids under visible light illumination

Dong, B., Almassalha, L. M., Soetikno, B. T., Chandler, J. E., Nguyen, T. Q., Urban, B. E., Sun, C., Zhang, H. F. & Backman, V., Apr 3 2017, In : Optics Express. 25, 7, p. 7929-7944 16 p.

Research output: Contribution to journalArticle

4 Scopus citations

The effects of chemical fixation on the cellular nanostructure

Li, Y., Almassalha, L. M., Chandler, J. E., Zhou, X., Stypula-Cyrus, Y. E., Hujsak, K. A., Roth, E. W., Bleher, R., Subramanian, H., Szleifer, I., Dravid, V. P. & Backman, V., Sep 15 2017, In : Experimental Cell Research. 358, 2, p. 253-259 7 p.

Research output: Contribution to journalArticle

17 Scopus citations

The global relationship between chromatin physical topology, fractal structure, and gene expression

Almassalha, L. M., Tiwari, A., Ruhoff, P. T., Stypula-Cyrus, Y., Cherkezyan, L., Matsuda, H., Dela Cruz, M. A., Chandler, J. E., White, C., Maneval, C., Subramanian, H., Szleifer, I., Roy, H. K. & Backman, V., Jan 24 2017, In : Scientific reports. 7, 41061.

Research output: Contribution to journalArticle

32 Scopus citations
12 Scopus citations
2016

Automated Cell Selection Using Support Vector Machine for Application to Spectral Nanocytology

Miao, Q., Derbas, J., Eid, A., Subramanian, H. & Backman, V., 2016, In : BioMed Research International. 2016, 6090912.

Research output: Contribution to journalArticle

3 Scopus citations

Coral bleaching response index: a new tool to standardize and compare susceptibility to thermal bleaching

Swain, T. D., Vega-Perkins, J. B., Oestreich, W. K., Triebold, C., DuBois, E., Henss, J., Baird, A., Siple, M., Backman, V. & Marcelino, L., Jul 1 2016, In : Global change biology. 22, 7, p. 2475-2488 14 p.

Research output: Contribution to journalArticle

27 Scopus citations

Detection of extracellular matrix modification in cancer models with inverse spectroscopic optical coherence tomography

Spicer, G. L. C., Azarin, S. M., Yi, J., Young, S. T., Ellis, R., Bauer, G. M., Shea, L. D. & Backman, V., Sep 12 2016, In : Physics in Medicine and Biology. 61, 19, p. 6892-6904 13 p.

Research output: Contribution to journalArticle

6 Scopus citations

Enhanced survival with implantable scaffolds that capture metastatic breast cancer cells in vivo

Rao, S. S., Bushnell, G. G., Azarin, S. M., Spicer, G., Aguado, B. A., Stoehr, J. R., Jiang, E. J., Backman, V., Shea, L. D. & Jeruss, J. S., Sep 15 2016, In : Cancer Research. 76, 18, p. 5209-5218 10 p.

Research output: Contribution to journalArticle

35 Scopus citations

Enhancing the sensitivity of mesoscopic light reflection statistics in weakly disordered media by interface reflections

Park, D. J., Pradhan, P. & Backman, V., Sep 20 2016, In : International Journal of Modern Physics B. 30, 23, 1650155.

Research output: Contribution to journalArticle

1 Scopus citations

Finite-difference time-domain-based optical microscopy simulation of dispersive media facilitates the development of optical imaging techniques

Zhang, D., Capoglu, I., Li, Y., Cherkezyan, L., Chandler, J., Spicer, G., Subramanian, H., Taflove, A. & Backman, V., Jun 1 2016, In : Journal of Biomedical Optics. 21, 6, 065004.

Research output: Contribution to journalArticle

5 Scopus citations

Higher order chromatin modulator cohesin SA1 is an early biomarker for colon carcinogenesis: Race-specific implications

Wali, R. K., Momi, N., Dela Cruz, M., Calderwood, A. H., Stypula-Cyrus, Y., Almassalha, L., Chhaparia, A., Weber, C. R., Radosevich, A., Tiwari, A. K., Latif, B., Backman, V. & Roy, H. K., Nov 2016, In : Cancer Prevention Research. 9, 11, p. 844-854 11 p.

Research output: Contribution to journalArticle

8 Scopus citations

Label-free imaging of the native, living cellular nanoarchitecture using partial-wave spectroscopic microscopy

Almassalha, L. M., Bauer, G. M., Chandler, J. E., Gladstein, S., Cherkezyan, L., Stypula-Cyrus, Y., Weinberg, S., Zhang, D., Ruhoff, P. T., Roy, H. K., Subramanian, H., Chandel, N. S., Szleifer, I. & Backman, V., Oct 18 2016, In : Proceedings of the National Academy of Sciences of the United States of America. 113, 42, p. E6372-E6381

Research output: Contribution to journalArticle

31 Scopus citations

Nanoscale refractive index fluctuations detected via sparse spectral microscopy

Chandler, J. E., Cherkezyan, L., Subramanian, H. & Backman, V., Feb 19 2016, In : Biomedical Optics Express. 7, 3, p. 883-893 11 p., 252091.

Research output: Contribution to journalArticle

6 Scopus citations

Optical detection of early damage in retinal ganglion cells in a mouse model of partial optic nerve crush injury

Yi, J., Puyang, Z., Feng, L., Duan, L., Liang, P., Backman, V., Liu, X. & Zhang, H. F., Oct 2016, In : Investigative Ophthalmology and Visual Science. 57, 13, p. 5665-5671 7 p.

Research output: Contribution to journalArticle

9 Scopus citations

Procedures for risk-stratification of lung cancer using Buccal Nanocytology

Subramanian, H., Viswanathan, P., Cherkezyan, L., Iyengar, R., Rozhok, S., Verleye, M., Derbas, J., Czarnecki, J., Roy, H. K. & Backman, V., Sep 1 2016, In : Biomedical Optics Express. 7, 9, p. 3795-3810 16 p., #268778.

Research output: Contribution to journalArticle

4 Scopus citations

Reconstruction of explicit structural properties at the nanoscale via spectroscopic microscopy

Cherkezyan, L., Zhang, D., Subramanian, H., Taflove, A. & Backman, V., Feb 1 2016, In : Journal of Biomedical Optics. 21, 2, 025007.

Research output: Contribution to journalArticle

2 Scopus citations

Skeletal light-scattering accelerates bleaching response in reef-building corals

Swain, T. D., DuBois, E., Gomes, A., Stoyneva, V. P., Radosevich, A. J., Henss, J., Wagner, M. E., Derbas, J., Grooms, H. W., Velazquez, E. M., Traub, J., Kennedy, B. J., Grigorescu, A. A., Westneat, M. W., Sanborn, K., Levine, S., Schick, M., Parsons, G., Biggs, B. C., Rogers, J. D. & 2 others, Backman, V. & Marcelino, L. A., Mar 21 2016, In : BMC Ecology. 16, 1, 10.

Research output: Contribution to journalArticle

13 Scopus citations

Subsurface Super-resolution Imaging of Unstained Polymer Nanostructures

Urban, B. E., Dong, B., Nguyen, T. Q., Backman, V., Sun, C. & Zhang, H. F., Jun 29 2016, In : Scientific reports. 6, 28156.

Research output: Contribution to journalArticle

19 Scopus citations