Research Output per year
Research Output
2020
Androgen receptor-binding sites are highly mutated in prostate cancer
Morova, T., McNeill, D. R., Lallous, N., Gönen, M., Dalal, K., Wilson, D. M., Gürsoy, A., Keskin, Ö. & Lack, N. A., Dec 1 2020, In : Nature communications. 11, 1, 832.Research output: Contribution to journal › Article
Open Access
A prospective prediction tool for understanding Crimean–Congo haemorrhagic fever dynamics in Turkey
Ak, Ergönül & Gönen, M., Jan 2020, In : Clinical Microbiology and Infection. 26, 1, p. 123.e1-123.e7Research output: Contribution to journal › Article
1
Scopus
citations
Assessment of neonatal, cord, and adult platelet granule trafficking and secretion
Ngo, A. T. P., Sheriff, J., Rocheleau, A. D., Bucher, M., Jones, K. R., Sepp, A. L. I., Malone, L. E., Zigomalas, A., Maloyan, A., Bahou, W. F., Bluestein, D., McCarty, O. J. T. & Haley, K. M., Jan 2 2020, In : Platelets. 31, 1, p. 68-78 11 p.Research output: Contribution to journal › Article
A workflow for visualizing human cancer biopsies using large-format electron microscopy
Riesterer, J. L., López, C. S., Stempinski, E. S., Williams, M., Loftis, K., Stoltz, K., Thibault, G., Lanicault, C., Williams, T. & Gray, J. W., Jan 1 2020, (Accepted/In press) Methods in Cell Biology. Academic Press Inc., (Methods in Cell Biology).Research output: Chapter in Book/Report/Conference proceeding › Chapter
Cyclic Multiplexed-Immunofluorescence (cmIF), a Highly Multiplexed Method for Single-Cell Analysis
Eng, J., Thibault, G., Luoh, S-W., Gray, J., Chang, Y. H. & Chin, K-Y., Jan 1 2020, In : Methods in molecular biology (Clifton, N.J.). 2055, p. 521-562 42 p.Research output: Contribution to journal › Article
1
Scopus
citations
Deregulating MYC in a model of HER2+ breast cancer mimics human intertumoral heterogeneity
Risom, T., Wang, X., Liang, J., Zhang, X., Pelz, C., Campbell, L. G., Eng, J., Chin, K., Farrington, C., Narla, G., Langer, E. M., Sun, X. X., Su, Y., Daniel, C. J., Dai, M. S., Löhr, C. V. & Sears, R. C., Jan 2 2020, In : Journal of Clinical Investigation. 130, 1, p. 231-246 16 p.Research output: Contribution to journal › Article
Open Access
1
Scopus
citations
EmrE reminds us to expect the unexpected in membrane transport
Grabe, M., Zuckerman, D. M. & Rosenberg, J. M., Jan 6 2020, In : The Journal of general physiology. 152, 1Research output: Contribution to journal › Article
Open Access
Evaluation of the Antihemostatic and Antithrombotic Effects of Lowering Coagulation Factor VII Levels in a Non-human Primate
Wallisch, M., Olson, S. R., Crosby, J., Johnson, J., Murray, S. F., Shatzel, J. J., Tucker, E. I., McCarty, O. J. T., Hinds, M. T., Monia, B. P. & Gruber, A., Jan 1 2020, (Accepted/In press) In : Cellular and Molecular Bioengineering.Research output: Contribution to journal › Article
Fluorescence image-guided surgery: A perspective on contrast agent development
Barth, C. W. & Gibbs, S. L., Jan 1 2020, Molecular-Guided Surgery: Molecules, Devices, and Applications VI. Gioux, S., Gibbs, S. L. & Pogue, B. W. (eds.). SPIE, 112220J. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 11222).Research output: Chapter in Book/Report/Conference proceeding › Conference contribution
Fluorescent imaging technologies for in situ measurement of drug target engagement and cell signaling pathways
McMahon, N. P., Solanki, A., Jones, J., Kwon, S., Chang, Y. H., Chin, K., Nederlof, M. A., Gray, J. W. & Gibbs, S. L., Jan 1 2020, Visualizing and Quantifying Drug Distribution in Tissue IV. Chan, K. F. & Evans, C. L. (eds.). SPIE, 112190O. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 11219).Research output: Chapter in Book/Report/Conference proceeding › Conference contribution
Fucoidan functionalization on poly(vinyl alcohol) hydrogels for improved endothelialization and hemocompatibility
Yao, Y., Zaw, A. M., Anderson, D. E. J., Hinds, M. T. & Yim, E. K. F., Aug 2020, In : Biomaterials. 249, 120011.Research output: Contribution to journal › Article
High-dimensional multiplexed immunohistochemical characterization of immune contexture in human cancers
Banik, G., Betts, C. B., Liudahl, S. M., Sivagnanam, S., Kawashima, R., Cotechini, T., Larson, W., Goecks, J., Pai, S. I., Clayburgh, D. R., Tsujikawa, T. & Coussens, L. M., 2020, Methods in Enzymology. Galluzzi, L. & Rudqvist, N-P. (eds.). Academic Press Inc., p. 1-20 20 p. (Methods in Enzymology; vol. 635).Research output: Chapter in Book/Report/Conference proceeding › Chapter
In Regard to Wallner et al
Kang, J., Thompson, R. F., Fuller, C. D., Camphausen, K. A., Gabriel, P. E. & Thomas, C. R., Jan 1 2020, In : International Journal of Radiation Oncology Biology Physics. 106, 1, p. 217-218 2 p.Research output: Contribution to journal › Letter
Open Access
Intracellular paired agent imaging enables improved evaluation of tyrosine kinase inhibitor target engagement
Solanki, A., Wang, L., Korber, J., McMahon, N., Tichauer, K., Samkoe, K. S. & Gibbs, S. L., Jan 1 2020, Visualizing and Quantifying Drug Distribution in Tissue IV. Chan, K. F. & Evans, C. L. (eds.). SPIE, 112190F. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 11219).Research output: Chapter in Book/Report/Conference proceeding › Conference contribution
In vivo nerve-specificity of rhodamines and Si-rhodamines
Montano, A. R., Wang, L. G., Barth, C. W., Shams, N. A., Kumarapeli, K. A. S. U. & Gibbs, S. L., Jan 1 2020, Molecular-Guided Surgery: Molecules, Devices, and Applications VI. Gioux, S., Gibbs, S. L. & Pogue, B. W. (eds.). SPIE, 112220I. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 11222).Research output: Chapter in Book/Report/Conference proceeding › Conference contribution
Miniaturized Single Cell Imaging for Developing Immuno-Oncology Combinational Therapies
Jacob, T., Malla, P. & Vu, T., Jan 1 2020, Methods in Pharmacology and Toxicology. Humana Press Inc., p. 157-165 9 p. (Methods in Pharmacology and Toxicology).Research output: Chapter in Book/Report/Conference proceeding › Chapter
Noninvasive in vivo mapping of intracellular signaling proteins using a pairing of targeted and untargeted fluorescently labeled small molecule kinase inhibitors
Tichauer, K. M., Wang, L., Solanki, A., Korber, J. R., Gibbs, S. L. & Samkoe, K. S., Jan 1 2020, Visualizing and Quantifying Drug Distribution in Tissue IV. Chan, K. F. & Evans, C. L. (eds.). SPIE, 112190K. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 11219).Research output: Chapter in Book/Report/Conference proceeding › Conference contribution
One-Pot Covalent Grafting of Gelatin on Poly(Vinyl Alcohol) Hydrogel to Enhance Endothelialization and Hemocompatibility for Synthetic Vascular Graft Applications
Rizwan, M., Yao, Y., Gorbet, M. B., Tse, J. W., Anderson, D. E. J., Hinds, M. T. & Yim, E. K. F., Jan 21 2020, In : ACS Applied Bio Materials. 3, 1, p. 693-703 11 p.Research output: Contribution to journal › Article
Open Access
Pathway Commons 2019 Update: integration, analysis and exploration of pathway data
Rodchenkov, I., Babur, O., Luna, A., Aksoy, B. A., Wong, J. V., Fong, D., Franz, M., Siper, M. C., Cheung, M., Wrana, M., Mistry, H., Mosier, L., Dlin, J., Wen, Q., O'Callaghan, C., Li, W., Elder, G., Smith, P. T., Dallago, C., Cerami, E. & 5 others, , Jan 8 2020, In : Nucleic acids research. 48, D1, p. D489-D497Research output: Contribution to journal › Article
Open Access
Predicting primary site of secondary liver cancer with a neural estimator of metastatic origin
Schau, G. F., Burlingame, E. A., Thibault, G., Anekpuritanang, T., Wang, Y., Gray, J. W., Corless, C. & Chang, Y. H., Jan 1 2020, In : Journal of Medical Imaging. 7, 1, 012706.Research output: Contribution to journal › Article
Probing the spatiotemporal dynamics of Ras-associated membrane nanodomains with high-throughput single particle tracking via photoactivated localization microscopy (spt-PALM)
Lee, Y., Tao, K., Phelps, C., Huang, T., Mostofian, B., Zuckerman, D. & Nan, X., Jan 1 2020, High-Speed Biomedical Imaging and Spectroscopy V. Tsia, K. K. & Goda, K. (eds.). SPIE, 112500N. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 11250).Research output: Chapter in Book/Report/Conference proceeding › Conference contribution
Quantification of fluorophore distribution and therapeutic response in matched in vivo and ex vivo pancreatic cancer model systems
Solanki, A., King, D., Thibault, G., Wang, L. & Gibbs, S. L., Jan 1 2020, In : PloS one. 15, 2, e0229407.Research output: Contribution to journal › Article
Open Access
RESTORE: Robust intEnSiTy nORmalization mEthod for multiplexed imaging
Chang, Y. H., Chin, K., Thibault, G., Eng, J., Burlingame, E. & Gray, J. W., Dec 1 2020, In : Communications Biology. 3, 1, 111.Research output: Contribution to journal › Article
Open Access
TGFβ signaling is critical for maintenance of the tendon cell fate
Tan, G. K., Pryce, B. A., Stabio, A., Brigande, J. V., Wang, C., Xia, Z., Tufa, S. F., Keene, D. R. & Schweitzer, R., Jan 2020, In : eLife. 9, e52695.Research output: Contribution to journal › Article
Open Access
1
Scopus
citations
The Efficacy of Basal Rate and Carbohydrate Ratio Learning Algorithm for Closed-Loop Insulin Delivery (Artificial Pancreas) in Youth with Type 1 Diabetes in a Diabetes Camp
Palisaitis, E., El Fathi, A., Von Oettingen, J. E., Krishnamoorthy, P., Kearney, R., Jacobs, P., Rutkowski, J., Legault, L. & Haidar, A., Mar 2020, In : Diabetes Technology and Therapeutics. 22, 3, p. 185-194 10 p.Research output: Contribution to journal › Article
The protein C activator AB002 rapidly interrupts thrombus development in baboons
Tucker, E. I., Verbout, N. G., Markway, B. D., Wallisch, M., Lorentz, C. U., Hinds, M. T., Shatzel, J. J., Pelc, L. A., Wood, D. C., McCarty, O. J. T., Di Cera, E. & Gruber, A., Feb 27 2020, In : Blood. 135, 9, p. 689-699 11 p.Research output: Contribution to journal › Article
Open Access
2019
3D-Imaging of Whole Neuronal and Vascular Networks of the Human Dental Pulp via CLARITY and Light Sheet Microscopy
França, C. M., Riggers, R., Muschler, J., Widbiller, M., Lococo, P. M., Diogenes, A. & Bertassoni, L., Dec 1 2019, In : Scientific Reports. 9, 1, 10860.Research output: Contribution to journal › Article
Open Access
Adaptive Control of an Artificial Pancreas Using Model Identification, Adaptive Postprandial Insulin Delivery, and Heart Rate and Accelerometry as Control Inputs
Resalat, N., Hilts, W., Youssef, J. E., Tyler, N., Castle, J. R. & Jacobs, P. G., Jan 1 2019, In : Journal of Diabetes Science and Technology. 13, 6, p. 1044-1053 10 p.Research output: Contribution to journal › Article
Adaptive tuning of basal and bolus insulin to reduce postprandial hypoglycemia in a hybrid artificial pancreas
Resalat, N., El Youssef, J., Reddy, R., Castle, J. & Jacobs, P., Aug 1 2019, In : Journal of Process Control. 80, p. 247-254 8 p.Research output: Contribution to journal › Article
3
Scopus
citations
A mechanism for hereditary angioedema with normal C1 inhibitor: an inhibitory regulatory role for the factor XII heavy chain
Ivanov, I., Matafonov, A., Sun, M. F., Mohammed, B. M., Cheng, Q., Dickeson, S. K., Kundu, S., Verhamme, I. M., Gruber, A., McCrae, K. & Gailani, D., Mar 7 2019, In : Blood. 133, 10, p. 1152-1163 12 p.Research output: Contribution to journal › Article
12
Scopus
citations
A multitask multiple kernel learning algorithm for survival analysis with application to cancer biology
Dereli, O., Oǧuz, C. & Gönen, M., Jan 1 2019, 36th International Conference on Machine Learning, ICML 2019. International Machine Learning Society (IMLS), p. 2844-2853 10 p. (36th International Conference on Machine Learning, ICML 2019; vol. 2019-June).Research output: Chapter in Book/Report/Conference proceeding › Conference contribution
Annot: A Django-based sample, reagent, and experiment metadata tracking system
Bucher, E., Claunch, C. J., Hee, D., Smith, R. L., Devlin, K., Thompson, W., Korkola, J. E. & Heiser, L. M., Nov 1 2019, In : BMC bioinformatics. 20, 1, 542.Research output: Contribution to journal › Article
Open Access
A non-circulating pool of factor XI associated with glycosaminoglycans in mice
Mohammed, B. M., Cheng, Q., Matafonov, A., Verhamme, I. M., Emsley, J., McCrae, K. R., McCarty, O., Gruber, A. & Gailani, D., Jan 1 2019, In : Journal of Thrombosis and Haemostasis.Research output: Contribution to journal › Article
4
Scopus
citations
Antithrombotic Strategies After Bioprosthetic Aortic Valve Replacement: A Systematic Review
Papak, J. N., Chiovaro, J. C., Noelck, N., Healy, L. D., Freeman, M., Quin, J. A., Paynter, R., Low, A., Kondo, K., McCarty, O. J. T. & Kansagara, D., May 2019, In : Annals of Thoracic Surgery. 107, 5, p. 1571-1581 11 p.Research output: Contribution to journal › Review article
3
Scopus
citations
Artificial Intelligence in Radiation Oncology
Deig, C. R., Kanwar, A. & Thompson, R., Jan 1 2019, (Accepted/In press) In : Hematology/Oncology Clinics of North America.Research output: Contribution to journal › Review article
Assessment of human pancreas cancer tissue and precursor lesions via a fluorophore with inherent PDAC selectivity
Munhenzva, I. R., Barth, C. W., Sibrian-Vazquez, M., Wang, L. G., Escobedo, J. O., Gibbs, S. & Strongin, R. M., Jan 1 2019, In : Methods.Research output: Contribution to journal › Article
2
Scopus
citations
A statistical virtual patient population for the glucoregulatory system in type 1 diabetes with integrated exercise model
Resalat, N., El Youssef, J., Tyler, N., Castle, J. & Jacobs, P., Jan 1 2019, In : PloS one. 14, 7, e0217301.Research output: Contribution to journal › Article
Open Access
2
Scopus
citations
BET bromodomain inhibition blocks the function of a critical AR-independent master regulator network in lethal prostate cancer
Coleman, D. J., Gao, L., King, C. J., Schwartzman, J., Urrutia, J., Sehrawat, A., Tayou, J., Balter, A., Burchard, J., Chiotti, K. E., Derrick, D. S., Sun, D., Xia, Z., Heiser, L. & Alumkal, J., Jan 1 2019, In : Oncogene.Research output: Contribution to journal › Article
4
Scopus
citations
Biomimetic modification of poly(vinyl alcohol): Encouraging endothelialization and preventing thrombosis with antiplatelet monotherapy
Anderson, D. E. J., Truong, K. P., Hagen, M. W., Yim, E. K. F. & Hinds, M., Jan 1 2019, (Accepted/In press) In : Acta Biomaterialia.Research output: Contribution to journal › Article
5
Scopus
citations
Bleeding TAPs out
Ngo, A. T. P., Aslan, J. E. & McCarty, O. J. T., Feb 1 2019, In : Journal of Thrombosis and Haemostasis. 17, 2, p. 247-249 3 p.Research output: Contribution to journal › Comment/debate
Cancer-associated mutations in DICER1 RNase IIIa and IIIb domains exert similar effects on miRNA biogenesis
Vedanayagam, J., Chatila, W. K., Aksoy, B. A., Majumdar, S., Skanderup, A. J., Demir, E., Schultz, N., Sander, C. & Lai, E. C., Dec 1 2019, In : Nature communications. 10, 1, 3682.Research output: Contribution to journal › Article
Open Access
2
Scopus
citations
Career enrichment opportunities at the scientific frontier in radiation oncology
Thompson, R. F., Fuller, C. D., Berman, A. T., Aneja, S. & Thomas, C. R., Jan 1 2019, In : JCO Clinical Cancer Informatics. 3Research output: Contribution to journal › Editorial
Circulating tumor DNA dynamics using patient-customized assays are associated with outcome in neoadjuvantly treated breast cancer
Butler, T. M., Boniface, C. T., Johnson-Camacho, K., Tabatabaei, S., Melendez, D., Kelley, T., Gray, J., Corless, C. L. & Spellman, P. T., Jan 1 2019, In : Cold Spring Harbor Molecular Case Studies. 5, 2, a003772.Research output: Contribution to journal › Article
Open Access
2
Scopus
citations
Cleavage factor 25 deregulation contributes to pulmonary fibrosis through alternative polyadenylation
Weng, T., Ko, J., Masamha, C. P., Xia, Z., Xiang, Y., Chen, N. Y., Molina, J. G., Collum, S., Mertens, T. C., Luo, F., Philip, K., Davies, J., Huang, J., Wilson, C., Thandavarayan, R. A., Bruckner, B. A., Jyothula, S. S. K., Volcik, K. A., Li, L., Han, L. & 5 others, , May 1 2019, In : Journal of Clinical Investigation. 129, 5, p. 1984-1999 16 p.Research output: Contribution to journal › Article
Open Access
5
Scopus
citations
cmIF: A Python Library for Scalable Multiplex Imaging Pipelines
Eng, J., Bucher, E., Gray, E., Campbell, L. G., Thibault, G., Heiser, L., Gibbs, S., Gray, J. W., Chin, K. & Chang, Y. H., Jan 1 2019, Mathematical and Computational Oncology - 1st International Symposium, ISMCO 2019, Proceedings. Bebis, G., Benos, T., Chen, K., Jahn, K. & Lima, E. (eds.). Springer, p. 37-43 7 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 11826 LNCS).Research output: Chapter in Book/Report/Conference proceeding › Conference contribution
1
Scopus
citations
Computational Estimation of Microsecond to Second Atomistic Folding Times
Adhikari, U., Mostofian, B., Copperman, J., Subramanian, S. R., Petersen, A. A. & Zuckerman, D. M., Apr 24 2019, In : Journal of the American Chemical Society. 141, 16, p. 6519-6526 8 p.Research output: Contribution to journal › Article
4
Scopus
citations
Contact Activation Inhibitor and Factor XI Antibody, AB023, Produces Safe, Dose-Dependent Anticoagulation in a Phase 1 First-In-Human Trial
Lorentz, C. U., Verbout, N. G., Wallisch, M., Hagen, M. W., Shatzel, J. J., Olson, S. R., Puy, C., Hinds, M., McCarty, O., Gailani, D., Gruber, A. & Tucker, E., Apr 1 2019, In : Arteriosclerosis, thrombosis, and vascular biology. 39, 4, p. 799-809 11 p.Research output: Contribution to journal › Article
Open Access
Contact system sends defensins to the rescue
Healy, L. D. & McCarty, O., Jan 31 2019, In : Blood. 133, 5, p. 385-386 2 p.Research output: Contribution to journal › Review article
Correlating thrombus constituents of surface-modified vascular graft materials to luminal volume using microct to better quantify clinical functionality
Anderson, D. E. J., Gupta, A. & Hinds, M., Jan 1 2019, Society for Biomaterials Annual Meeting and Exposition 2019: The Pinnacle of Biomaterials Innovation and Excellence - Transactions of the 42nd Annual Meeting. Society for Biomaterials, 1 p. (Transactions of the Annual Meeting of the Society for Biomaterials and the Annual International Biomaterials Symposium; vol. 40).Research output: Chapter in Book/Report/Conference proceeding › Conference contribution
Design and evaluation of a non-contact bed-mounted sensing device for automated in-home detection of obstructive sleep apnea: A pilot study
Mosquera-Lopez, C., Leitschuh, J., Condon, J., Hagen, C. C., Rajhbeharrysingh, U., Hanks, C. & Jacobs, P. G., Sep 2019, In : Biosensors. 9, 3, 90.Research output: Contribution to journal › Article
Open Access