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Center for Genomic Diagnostics: Publications

Tanevski, Jovan, Thin Nguyen, Buu Truong, Nikos Karaiskos, Mehmet Eren Ahsen, Xinyu Zhang, Chang Shu et al. "Gene selection for optimal prediction of cell position in tissues from single-cell transcriptomics data." Life Science Alliance 3, no. 11 (2020).

Diaz JE, Ahsen ME, Schaffter T, Chen X, Realubit RB, Karan C, Califano A, Losic B, Stolovitzky G. The transcriptomic response of cells to a drug combination is more than the sum of the responses to the monotherapies. Elife. 2020 Sep 18;9:e52707. https://doi.org/10.7554/eLife.52707.  Epub ahead of print. PMID: 32945258. 

Losic, B., Craig, A. J., Villacorta-Martin, C., Martins-Filho, S. N., Akers, N., Chen, X., Ahsen, M. E., Felden, J. V., Labgaa, I., DʹAvola, D., Allette, K., Lira, S. A., Furtado, G. C., Garcia-Lezana, T., Restrepo, P., Stueck, A., Ward, S. C., Fiel, M. I., Hiotis, S. P., ... Villanueva, A. (2020). Intratumoral heterogeneity and clonal evolution in liver cancer. Nature communications. https://doi.org/10.1038/s41467-019-14050-z

The DM DREAM Consortium (2020). Evaluation of Combined Artificial Intelligence and Radiologist Assessment to Interpret Screening Mammograms. JAMA network open, 3(3), e200265. https://doi.org/10.1001/jamanetworkopen.2020.0265

Kerns, S. L., Fachal, L., Dorling, L., Barnett, G. C., Baran, A., Peterson, D. R., Hollenberg, M., Hao, K., Narzo, A. D., Ahsen, M. E., Pandey, G., Bentzen, S. M., Janelsins, M., Elliott, R. M., Pharoah, P. D. P., Burnet, N. G., Dearnaley, D. P., Gulliford, S. L., Hall, E., ... West, C. M. L. (2020). Radiogenomics Consortium Genome-Wide Association Study Meta-Analysis of Late Toxicity After Prostate Cancer Radiotherapy. JNCI: Journal of the National Cancer Institute. https://doi.org/10.1093/jnci/djz075

Ahsen, M. E., Vogel, R., & Stolovitzky, G. A. (2020). R/PY-SUMMA: An R/Python Package for Unsupervised Ensemble Learning for Binary Classification Problems in Bioinformatics. Journal of Computational Biology. https://doi.org/10.1089/cmb.2019.0348

Lin, Y. W., Ahsen, M. E., Shaw, M. J., & Seshadri, S. (2020). The impacts of patients' sentiment trajectory features on their willingness to share in online support groups. In 40th International Conference on Information Systems, ICIS 2019 (40th International Conference on Information Systems, ICIS 2019). Association for Information Systems.

Le, P., Chitoor, S., Tu, C., Lim, S. J., & Smith, A. M. (2020). Compact quantum dots for quantitative cytology. In Methods in Molecular Biology (pp. 147-158). (Methods in Molecular Biology; Vol. 2064). Humana Press Inc.. https://doi.org/10.1007/978-1-4939-9831-9_12

Le, P., Lim, S. J., Baculis, B. C., Chung, H. J., Kilian, K. A., & Smith, A. M. (2019). Counting growth factors in single cells with infrared quantum dots to measure discrete stimulation distributions. Nature communications, 10(1), [909]. https://doi.org/10.1038/s41467-019-08754-5

Liu, K., Pan, C., Kuhn, A., Nievergelt, A. P., Fantner, G. E., Milenkovic, O., & Radenovic, A. (2019). Detecting topological variations of DNA at single-molecule level. Nature communications, 10(1), [3]. https://doi.org/10.1038/s41467-018-07924-1

Taneja, I., Reddy, B., Damhorst, G., Zhao, S. D., Hassan, U., Price, Z., ... Zhu, R. (2019). Publisher Correction: Combining Biomarkers with EMR Data to Identify Patients in Different Phases of Sepsis (Scientific Reports, (2017), 7, 1, (10800), 10.1038/s41598-017-09766-1). Scientific reports, 9(1), [17419]. https://doi.org/10.1038/s41598-019-53691-4

Zaouri, N., Cui, Z., Peinetti, A. S., Lu, Y., & Hong, P. Y. (2019). DNAzyme-based biosensor as a rapid and accurate verification tool to complement simultaneous enzyme-based media for: E. Coli detection. Environmental Science: Water Research and Technology, 5(12), 2260-2268. https://doi.org/10.1039/c9ew00795d

Liu, W., & Irudayaraj, J. (2019). Understanding the dynamics and structure of epigenetic states with single-molecule fluorescence microscopy. Current Opinion in Biomedical Engineering, 12, 18-24. https://doi.org/10.1016/j.cobme.2019.08.010

Lin, Y., Yang, Z., Lake, R. J., Zheng, C., & Lu, Y. (2019). Enzyme-Mediated Endogenous and Bioorthogonal Control of a DNAzyme Fluorescent Sensor for Imaging Metal Ions in Living Cells. Angewandte Chemie - International Edition, 58(47), 17061-17067. https://doi.org/10.1002/anie.201910343

Xia, L., Han, M. J., Zhou, L., Huang, A., Yang, Z., Wang, T., ... Wang, J. (2019). S-Click Reaction for Isotropic Orientation of Oxidases on Electrodes to Promote Electron Transfer at Low Potentials. Angewandte Chemie - International Edition, 58(46), 16480-16484. https://doi.org/10.1002/anie.201909203

Hwang, K., Mou, Q., Lake, R. J., Xiong, M., Holland, B., & Lu, Y. (2019). Metal-Dependent DNAzymes for the Quantitative Detection of Metal Ions in Living Cells: Recent Progress, Current Challenges, and Latest Results on FRET Ratiometric Sensors. Inorganic Chemistry, 58(20), 13696-13708. https://doi.org/10.1021/acs.inorgchem.9b01280

Roberts, R. D., Lizardo, M. M., Reed, D. R., Hingorani, P., Glover, J., Allen-Rhoades, W., ... Crompton, B. D. (2019). Provocative questions in osteosarcoma basic and translational biology: A report from the Children's Oncology Group. Cancer, 125(20), 3514-3525. https://doi.org/10.1002/cncr.32351

Aydin, O., Zhang, X., Nuethong, S., Pagan-Diaz, G. J., Bashir, R., Gazzola, M., & Saif, M. T. A. (2019). Neuromuscular actuation of biohybrid motile bots. Proceedings of the National Academy of Sciences of the United States of America, 116(40), 19841-19847. https://doi.org/10.1073/pnas.1907051116

Canady, T. D., Li, N., Smith, L. D., Lu, Y., Kohli, M., Smith, A. M., & Cunningham, B. T. (2019). Digital-resolution detection of microRNA with singlebase selectivity by photonic resonator absorption microscopy. Proceedings of the National Academy of Sciences of the United States of America, 116(39), 19362-19367. https://doi.org/10.1073/pnas.1904770116

Wang, W., Yu, S., Huang, S., Bi, S., Han, H., Zhang, J. R., ... Zhu, J. J. (2019). Bioapplications of DNA nanotechnology at the solid-liquid interface. Chemical Society Reviews, 48(18), 4892-4920. https://doi.org/10.1039/c8cs00402a

Li, L., Xing, H., Zhang, J., & Lu, Y. (2019). Functional DNA Molecules Enable Selective and Stimuli-Responsive Nanoparticles for Biomedical Applications. Accounts of chemical research, 52(9), 2415-2426. https://doi.org/10.1021/acs.accounts.9b00167

Rattan, S., Beers, H. K., Kannan, A., Ramakrishnan, A., Brehm, E., Bagchi, I. C., ... Flaws, J. A. (2019). Prenatal and ancestral exposure to di(2-ethylhexyl) phthalate alters gene expression and DNA methylation in mouse ovaries. Toxicology and Applied Pharmacology, 379, [114629]. https://doi.org/10.1016/j.taap.2019.114629

Huang, Q., & Cunningham, B. T. (2019). Microcavity-Mediated Spectrally Tunable Amplification of Absorption in Plasmonic Nanoantennas. Nano letters, 19(8), 5297-5303. https://doi.org/10.1021/acs.nanolett.9b01764

Aguirre, M. Á., Long, K. D., & Cunningham, B. T. (2019). Spectrometric Smartphone-Based System for Ibuprofen Quantification in Commercial Dosage Tablets. Journal of Pharmaceutical Sciences, 108(8), 2593-2598. https://doi.org/10.1016/j.xphs.2019.03.010

Sample, M., Boulicault, M., Allen, C., Bashir, R., Hyun, I., Levis, M., ... Zartman, J. (2019). Multi-cellular engineered living systems: Building a community around responsible research on emergence. Biofabrication, 11(4), [043001]. https://doi.org/10.1088/1758-5090/ab268c

Ghonge, T., Ceylan Koydemir, H., Valera, E., Berger, J., Garcia, C., Nawar, N., ... Bashir, R. (2019). Smartphone-imaged microfluidic biochip for measuring CD64 expression from whole blood. Analyst, 144(13), 3925-3935. https://doi.org/10.1039/c9an00532c

Grant, L., Raman, R., Cvetkovic, C., Ferrall-Fairbanks, M. C., Pagan-Diaz, G. J., Hadley, P., ... Bashir, R. (2019). Long-Term Cryopreservation and Revival of Tissue-Engineered Skeletal Muscle. Tissue Engineering - Part A, 25(13-14), 1023-1036. https://doi.org/10.1089/ten.tea.2018.0202

Kostochka, A. V., Liu, X., Machado, R., & Milenkovic, O. (2019). Directed Intersection Representations and the Information Content of Digraphs. In 2019 IEEE International Symposium on Information Theory, ISIT 2019 - Proceedings (pp. 1477-1481). [8849253] (IEEE International Symposium on Information Theory - Proceedings; Vol. 2019-July). Institute of Electrical and Electronics Engineers Inc.. https://doi.org/10.1109/ISIT.2019.8849253

Gabrys, R., Dau, H., Colbourn, C. J., & Milenkovic, O. (2019). Set-Codes with Small Intersections and Small Discrepancies. In 2019 IEEE International Symposium on Information Theory, ISIT 2019 - Proceedings (pp. 2359-2363). [8849651] (IEEE International Symposium on Information Theory - Proceedings; Vol. 2019-July). Institute of Electrical and Electronics Engineers Inc.. https://doi.org/10.1109/ISIT.2019.8849651

Satyavolu, N. S. R., Loh, K. Y., Tan, L. H., & Lu, Y. (2019). Discovery of and Insights into DNA “Codes” for Tunable Morphologies of Metal Nanoparticles. Small, 15(26), [1900975]. https://doi.org/10.1002/smll.201900975

Zhao, J., Chu, H., Zhao, Y., Lu, Y., & Li, L. (2019). A NIR Light Gated DNA Nanodevice for Spatiotemporally Controlled Imaging of MicroRNA in Cells and Animals. Journal of the American Chemical Society, 141(17), 7056-7062. https://doi.org/10.1021/jacs.9b01931

Walters, K. A., Zhu, R., Welge, M., Scherler, K., Park, J. K., Rahil, Z., ... Kash, J. C. (2019). Differential effects of influenza virus NA, HA head, and HA stalk antibodies on peripheral blood leukocyte gene expression during human infection. mBio, 10(3), [e00760-19]. https://doi.org/10.1128/mBio.00760-19

Lee, J. Y., Bai, Y., Chembazhi, U. V., Peng, S., Yum, K., Luu, L. M., ... Zimmerman, S. C. (2019). Intrinsically cell-penetrating multivalent and multitargeting ligands for myotonic dystrophy type 1. Proceedings of the National Academy of Sciences of the United States of America, 116(18), 8709-8714. https://doi.org/10.1073/pnas.1820827116

Satyavolu, N. S. R., Peinetti, A. S., Wang, Y., Ali, A. S., Lin, J. W., & Lu, Y. (2019). Silver-Assisted Synthesis of High-Indexed Palladium Tetrahexahedral Nanoparticles and Their Morphological Variants. Chemistry of Materials, 31(8), 2923-2929. https://doi.org/10.1021/acs.chemmater.9b00275

Mirts, E. N., Bhagi-Damodaran, A., & Lu, Y. (2019). Understanding and Modulating Metalloenzymes with Unnatural Amino Acids, Non-Native Metal Ions, and Non-Native Metallocofactors. Accounts of chemical research, 52(4), 935-944. https://doi.org/10.1021/acs.accounts.9b00011

Xu, J., Qiao, X., Zhang, J., Cheng, N., Sheng, Q., Zheng, J., ... Lu, Y. (2019). Point-of-care monitoring of intracellular glutathione and serum triglyceride levels using a versatile personal glucose meter. Analytical Methods, 11(14), 1849-1856. https://doi.org/10.1039/c8ay02709a

Hu, Y., Xuan, Y., Wang, X., Deng, B., Saei, M., Jin, S., ... Cheng, G. J. (2019). Correction to: Superplastic Formation of Metal Nanostructure Arrays with Ultrafine Gaps (Advanced Materials, (2016), 28, 41, (9152-9162), 10.1002/adma.201602497). Advanced Materials, 31(14), [1900190]. https://doi.org/10.1002/adma.201900190

Kulkoyluoglu-Cotul, E., Smith, B. P., Wrobel, K., Zhao, Y. C., Chen, K. L. A., Hieronymi, K., ... Madak-Erdogan, Z. (2019). Combined Targeting of Estrogen Receptor Alpha and XPO1 Prevent Akt Activation, Remodel Metabolic Pathways and Induce Autophagy to Overcome Tamoxifen Resistance. Cancers, 11(4), [479]. https://doi.org/10.3390/cancers11040479

Dikanov, S. A., Berry, S. M., & Lu, Y. (2019). HYSCORE Insights into the Distribution of the Unpaired Spin Density in an Engineered Cu A Site in Azurin and Its His120Gly Variant Inorganic Chemistry, 58(7), 4437-4445. https://doi.org/10.1021/acs.inorgchem.8b03604

Zhang, J. J., & Lu, Y. (2019). Advancing point-of-care diagnostics of metabolites through engineering semisynthetic proteins. Clinical Chemistry, 65(4), 507-509. https://doi.org/10.1373/clinchem.2018.298836

Young, T. J., Cui, Y., Irudayaraj, J., & Kirchmaier, A. L. (2019). Modulation of gene silencing by Cdc7p via H4 K16 acetylation and phosphorylation of chromatin assembly factor CAF-1 in saccharomyces cerevisiae. Genetics, 211(4), 1219-1237. https://doi.org/10.1534/genetics.118.301858

Damayanti, N. P., Buno, K., Voytik Harbin, S. L., & Irudayaraj, J. M. K. (2019). Epigenetic Process Monitoring in Live Cultures with Peptide Biosensors. ACS Sensors, 4(3), 562-565. https://doi.org/10.1021/acssensors.8b01134

Zhang, J. J., Lan, T., & Lu, Y. (2019). Molecular Engineering of Functional Nucleic Acid Nanomaterials toward In Vivo Applications. Advanced Healthcare Materials, 8(6), [1801158]. https://doi.org/10.1002/adhm.201801158

Ko, E., Yu, S. J., Pagan-Diaz, G. J., Mahmassani, Z., Boppart, M. D., Im, S. G., ... Kong, H. (2019). Matrix Topography Regulates Synaptic Transmission at the Neuromuscular Junction. Advanced Science, 6(6), [1801521]. https://doi.org/10.1002/advs.201801521

Chen, S., Kim, S., Chen, W., Yuan, J., Bashir, R., Lou, J., ... King, W. P. (2019). Monolayer MoS 2 Nanoribbon Transistors Fabricated by Scanning Probe Lithography Nano letters, 19(3), 2092-2098. https://doi.org/10.1021/acs.nanolett.9b00271

Sun, Q., Zhu, R., Wang, T., & Zeng, D. (2019). Counting process-based dimension reduction methods for censored outcomes. Biometrika, 106(1), 181-186. https://doi.org/10.1093/biomet/asy064

Bibak, K., & Milenkovic, O. (2019). Explicit formulas for the weight enumerators of some classes of deletion correcting codes. IEEE Transactions on Communications, 67(3), 1809-1816. [8573841]. https://doi.org/10.1109/TCOMM.2018.2886354

Ren, W., Mohammed, S. I., Wereley, S., & Irudayaraj, J. M. K. (2019). Magnetic Focus Lateral Flow Sensor for Detection of Cervical Cancer Biomarkers. Analytical chemistry, 91(4), 2876-2884. https://doi.org/10.1021/acs.analchem.8b04848

Seimetz, J., Arif, W., Bangru, S., Hernaez, M., & Kalsotra, A. (2019). Cell-type specific polysome profiling from mammalian tissues. Methods, 155, 131-139. https://doi.org/10.1016/j.ymeth.2018.11.015

Ren, W., Ballou, D. R., FitzGerald, R., & Irudayaraj, J. M. K. (2019). Plasmonic enhancement in lateral flow sensors for improved sensing of E. coli O157:H7. Biosensors and Bioelectronics, 126, 324-331. https://doi.org/10.1016/j.bios.2018.10.066

Liu, W., Cui, Y., Ren, W., & Irudayaraj, J. (2019). Epigenetic biomarker screening by FLIM-FRET for combination therapy in ER+ breast cancer. Clinical epigenetics, 11(1), [16]. https://doi.org/10.1186/s13148-019-0620-6

Aguirre, M. Á., Long, K. D., Canals, A., & Cunningham, B. T. (2019). Point-of-use detection of ascorbic acid using a spectrometric smartphone-based system. Food chemistry, 272, 141-147. https://doi.org/10.1016/j.foodchem.2018.08.002

Woodburn, E. V., Long, K. D., & Cunningham, B. T. (2019). Analysis of Paper-Based Colorimetric Assays with a Smartphone Spectrometer. IEEE Sensors Journal, 19(2), 508-514. [8494768]. https://doi.org/10.1109/JSEN.2018.2876631

Kumar, P., Liu, J., Motlag, M., Tong, L., Hu, Y., Huang, X., ... Cheng, G. J. (2019). Laser Shock Tuning Dynamic Interlayer Coupling in Graphene-Boron Nitride Moiré Superlattices. Nano letters, 19(1), 283-291. https://doi.org/10.1021/acs.nanolett.8b03895

Che, C., Li, N., Long, K. D., Aguirre, M. Á., Canady, T. D., Huang, Q., ... Cunningham, B. T. (2019). Activate capture and digital counting (AC + DC) assay for protein biomarker detection integrated with a self-powered microfluidic cartridge. Lab on a chip, 19(23), 3943-3953. https://doi.org/10.1039/c9lc00728h

Mi, X., Zou, F., & Zhu, R. (2019). Bagging and deep learning in optimal individualized treatment rules. Biometrics, 75(2), 674-684. https://doi.org/10.1111/biom.12990

Cui, C., Reed, J. H., Mirts, E. N., & Lu, Y. (2019). CHAPTER 2: Design and Engineering of Heme Enzymes with O 2 -dependent Catalytic Activity. In M. Ikeda-Saito, & E. Raven (Eds.), Dioxygen-dependent Heme Enzymes (13 ed., pp. 37-62). (RSC Metallobiology; Vol. 2019-January, No. 13). Royal Society of Chemistry. https://doi.org/10.1039/9781788012911-00037

Tunc, E., Eve, A. A., & Madak-Erdogan, Z. (Accepted/In press). Coronary Microvascular Dysfunction and Estrogen Receptor Signaling. Trends in Endocrinology and Metabolism. https://doi.org/10.1016/j.tem.2019.11.001

Liu, C., Yu, Y., Chen, D., Zhao, J., Yu, Y., Li, L., & Lu, Y. (2019). Cupredoxin engineered upconversion nanoparticles for ratiometric luminescence sensing of Cu2+. Nanoscale Advances, 1(7), 2580-2585. https://doi.org/10.1039/c9na00168a

Sabri, L., Huang, Q., Liu, J. N., & Cunningham, B. T. (2019). Design of anapole mode electromagnetic field enhancement structures for biosensing applications. Optics Express, 27(5), 7196-7212. https://doi.org/10.1364/OE.27.007196

Lake, R. J., Yang, Z., Zhang, J. J., & Lu, Y. (Accepted/In press). DNAzymes as Activity-Based Sensors for Metal Ions: Recent Applications, Demonstrated Advantages, Current Challenges, and Future Directions. Accounts of chemical research. https://doi.org/10.1021/acs.accounts.9b00419

Madak-Erdogan, Z., Band, S., Zhao, Y. C., Smith, B. P., Kulkoyluoglu-Cotul, E., Zuo, Q., ... Flaws, J. A. (2019). Free fatty acids rewire cancer metabolism in obesity-associated breast cancer via estrogen receptor and mTOR signaling. Cancer Research, 79(10), 2494-2510. https://doi.org/10.1158/0008-5472.CAN-18-2849

Roy, J., Dibaeinia, P., Fan, T. M., Sinha, S., & Das, A. (2019). Global analysis of osteosarcoma lipidomes reveal altered lipid profiles in metastatic versus nonmetastatic cells. Journal of Lipid Research, 60(2), 375-387. https://doi.org/10.1194/jlr.M088559

Schlein, L. J., Fadl-Alla, B., Pondenis, H. C., Lezmi, S., Eberhart, C. G., LeBlanc, A. K., ... Fan, T. M. (2019). Immunohistochemical characterization of procaspase-3 overexpression as a druggable target with PAC-1, a procaspase-3 activator, in canine and human brain cancers. Frontiers in Oncology, 9(FEB), [96]. https://doi.org/10.3389/fonc.2019.00096

Feng, Z., Lin, L., Zhu, R., & Zhu, L. (2019). Nonparametric variable selection and its application to additive models. Annals of the Institute of Statistical Mathematics. https://doi.org/10.1007/s10463-019-00711-9

Dau, H., Milenkovic, O., & Puleo, G. J. (Accepted/In press). On the triangle clique cover and Kt clique cover problems. Discrete Mathematics, [111627]. https://doi.org/10.1016/j.disc.2019.111627

Xue, C., Zhang, S., Li, C., Yu, X., Ouyang, C., Lu, Y., & Wu, Z. S. (Accepted/In press). Y-Shaped Backbone-Rigidified Triangular DNA Scaffold-Directed Stepwise Movement of a DNAzyme Walker for Sensitive MicroRNA Imaging within Living Cells. Analytical chemistry. https://doi.org/10.1021/acs.analchem.9b03784

Kulkoyluoglu-Cotul, E., Arca, A., & Madak-Erdogan, Z. (2019). Crosstalk between Estrogen Signaling and Breast Cancer Metabolism. Trends in Endocrinology and Metabolism, 30(1), 25-38. https://doi.org/10.1016/j.tem.2018.10.006

Watson, M. K., Mitchell, M. A., Stern, A. W., Labelle, A. L., Joslyn, S., Fan, T. M., ... Marshall, K. (2019). EVALUATING THE CLINICAL AND PHYSIOLOGICAL EFFECTS OF LONG-TERM ULTRAVIOLET B RADIATION ON RABBITS (ORYCTOLAGUS CUNICULUS). Journal of Exotic Pet Medicine, 28, 43-55. https://doi.org/10.1053/j.jepm.2018.04.016

Dowling, M., Samuelson, J., Fadl-Alla, B., Pondenis, H. C., Byrum, M., Barger, A. M., & Fan, T. M. (2019). Overexpression of prostate specific membrane antigen by canine hemangiosarcoma cells provides opportunity for the molecular detection of disease burdens within hemorrhagic body cavity effusions. PloS one, 14(1), [e0210297]. https://doi.org/10.1371/journal.pone.0210297

Overgaard, N. H., Fan, T. M., Schachtschneider, K. M., Principe, D. R., Schook, L. B., & Jungersen, G. (2018). Of Mice, Dogs, Pigs, and Men: Choosing the Appropriate Model for Immuno-Oncology Research. ILAR Journal, 59(3), 247-262. https://doi.org/10.1093/ilar/ily014

Sabuncu, S., Reed, J. H., Lu, Y., & Moënne-Loccoz, P. (2018). Nitric Oxide Reductase Activity in Heme-Nonheme Binuclear Engineered Myoglobins through a One-Electron Reduction Cycle. Journal of the American Chemical Society, 140(50), 17389-17393. https://doi.org/10.1021/jacs.8b11037

Yang, Z., Loh, K. Y., Chu, Y. T., Feng, R., Satyavolu, N. S. R., Xiong, M., ... Lu, Y. (2018). Optical Control of Metal Ion Probes in Cells and Zebrafish Using Highly Selective DNAzymes Conjugated to Upconversion Nanoparticles. Journal of the American Chemical Society, 140(50), 17656-17665. https://doi.org/10.1021/jacs.8b09867

Ravanmehr, V., Puleo, G. J., Bolouki, S., & Milenkovic, O. (2018). Paired threshold graphs. Discrete Applied Mathematics, 250, 291-308. https://doi.org/10.1016/j.dam.2018.05.008

Liu, Y., Le, P., Lim, S. J., Ma, L., Sarkar, S., Han, Z., ... Smith, A. M. (2018). Enhanced mRNA FISH with compact quantum dots. Nature communications, 9(1), [4461]. https://doi.org/10.1038/s41467-018-06740-x

Chen, K. L. A., Liu, X., Zhao, Y. C., Hieronymi, K., Rossi, G., Auvil, L. S., ... Madak-Erdogan, Z. (2018). Long-Term Administration of Conjugated Estrogen and Bazedoxifene Decreased Murine Fecal β-Glucuronidase Activity Without Impacting Overall Microbiome Community. Scientific reports, 8(1), [8166]. https://doi.org/10.1038/s41598-018-26506-1

Burton, J. H., Mazcko, C., LeBlanc, A., Covey, J. M., Ji, J., Kinders, R. J., ... Pommier, Y. (2018). NCI comparative oncology program testing of non-camptothecin indenoisoquinoline topoisomerase I inhibitors in naturally occurring canine lymphoma. Clinical Cancer Research, 24(23), 5830-5840. https://doi.org/10.1158/1078-0432.CCR-18-1498

Ganguli, A., Ornob, A., Spegazzini, N., Liu, Y., Damhorst, G., Ghonge, T., ... Bashir, R. (2018). Pixelated spatial gene expression analysis from tissue. Nature communications, 9(1), [202]. https://doi.org/10.1038/s41467-017-02623-9

Zhuo, Y., Choi, J. S., Marin, T., Yu, H., Harley, B. A., & Cunningham, B. T. (2018). Quantitative analysis of focal adhesion dynamics using photonic resonator outcoupler microscopy (PROM). Light: Science and Applications, 7(1), [7538]. https://doi.org/10.1038/s41377-018-0001-5

Zahid, M. U., Ma, L., Lim, S. J., & Smith, A. M. (2018). Single quantum dot tracking reveals the impact of nanoparticle surface on intracellular state. Nature communications, 9(1), [1830]. https://doi.org/10.1038/s41467-018-04185-w

Bhandari, P., Novikova, G., Goergen, C. J., & Irudayaraj, J. (2018). Ultrasound beam steering of oxygen nanobubbles for enhanced bladder cancer therapy. Scientific reports, 8(1), [3112]. https://doi.org/10.1038/s41598-018-20363-8

Peters, J. W., Beratan, D. N., Bothner, B., Dyer, R. B., Harwood, C. S., Heiden, Z. M., ... Adams, M. WW. (2018). A new era for electron bifurcation. Current Opinion in Chemical Biology, 47, 32-38. https://doi.org/10.1016/j.cbpa.2018.07.026

Yi, M., Zhu, R., & Stephens, R. M. (2018). GradientScanSurv—An exhaustive association test method for gene expression data with censored survival outcome. PloS one, 13(12), [e0207590]. https://doi.org/10.1371/journal.pone.0207590

Svec, R. L., Furiassi, L., Skibinski, C. G., Fan, T. M., Riggins, G. J., & Hergenrother, P. J. (2018). Tunable Stability of Imidazotetrazines Leads to a Potent Compound for Glioblastoma. ACS chemical biology, 13(11), 3206-3216. https://doi.org/10.1021/acschembio.8b00864

Wang, Y., Reddy Satyavolu, N. S., & Lu, Y. (2018). Sequence-specific control of inorganic nanomaterials morphologies by biomolecules. Current Opinion in Colloid and Interface Science, 38, 158-169. https://doi.org/10.1016/j.cocis.2018.10.009

Smith, L., Kohli, M., & Smith, A. M. (2018). Expanding the Dynamic Range of Fluorescence Assays through Single-Molecule Counting and Intensity Calibration. Journal of the American Chemical Society, 140(42), 13904-13912. https://doi.org/10.1021/jacs.8b08879

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