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2019

Luminal plasma treatment for small diameter polyvinyl alcohol tubular scaffolds

Pohan, G., Chevallier, P., Anderson, D. E. J., Tse, J. W., Yao, Y., Hagen, M. W., Mantovani, D., Hinds, M. & Yim, E. K. F., Jan 1 2019, In : Frontiers in Bioengineering and Biotechnology. 7, MAY, 117.

Research output: Contribution to journalArticle

2 Scopus citations

Maintenance of MYC expression promotes de novo resistance to BET bromodomain inhibition in castration-resistant prostate cancer

Coleman, D. J., Gao, L., Schwartzman, J., Korkola, J., Sampson, D., Derrick, D. S., Urrutia, J., Balter, A., Burchard, J., King, C. J., Chiotti, K. E., Heiser, L. & Alumkal, J., Dec 1 2019, In : Scientific Reports. 9, 1, 3823.

Research output: Contribution to journalArticle

Open Access
5 Scopus citations

Mechanism of pharmacochaperoning in a mammalian KATP channel revealed by cryo-EM

Martin, G. M., Sung, M. W., Yang, Z., Innes, L. M., Kandasamy, B., David, L., Yoshioka, C. & Shyng, S-L., Jul 1 2019, In : eLife. 8, e46417.

Research output: Contribution to journalArticle

Open Access
5 Scopus citations

Meiotic cellular rejuvenation is coupled to nuclear remodeling in budding yeast

King, G. A., Goodman, J. S., Schick, J. G., Chetlapalli, K., Jorgens, D., McDonald, K. L. & Ünal, E., Aug 9 2019, In : eLife. 8

Research output: Contribution to journalArticle

Open Access
2 Scopus citations

Middle-way flexible docking: Pose prediction using mixed-resolution Monte Carlo in estrogen receptor α

Spiriti, J., Subramanian, S. R., Palli, R., Wu, M. & Zuckerman, D., Apr 1 2019, In : PloS one. 14, 4, e0215694.

Research output: Contribution to journalArticle

Open Access

Modeling the effect of blood vessel bifurcation ratio on occlusive thrombus formation

Lakshmanan, H. H. S., Shatzel, J. J., Olson, S. R., McCarty, O. & Maddala, J., Jan 1 2019, In : Computer Methods in Biomechanics and Biomedical Engineering.

Research output: Contribution to journalArticle

1 Scopus citations

Modeling Tumor Phenotypes In Vitro with Three-Dimensional Bioprinting

Langer, E. M., Allen-Petersen, B. L., King, S. M., Kendsersky, N. D., Turnidge, M. A., Kuziel, G. M., Riggers, R., Samatham, R., Amery, T. S., Jacques, S. L., Sheppard, B. C., Korkola, J. E., Muschler, J. L., Thibault, G., Chang, Y. H., Gray, J. W., Presnell, S. C., Nguyen, D. G. & Sears, R. C., Jan 15 2019, In : Cell Reports. 26, 3, p. 608-623.e6

Research output: Contribution to journalArticle

11 Scopus citations

Nudt21 regulates the alternative polyadenylation of Pak1 and is predictive in the prognosis of glioblastoma patients

Chu, Y., Elrod, N., Wang, C., Li, L., Chen, T., Routh, A., Xia, Z., Li, W., Wagner, E. J. & Ji, P., Jan 1 2019, In : Oncogene.

Research output: Contribution to journalArticle

5 Scopus citations

Optical properties of corals distort variable chlorophyll fluorescence measurements

Wangpraseurt, D., Lichtenberg, M., Jacques, S. L., Larkum, A. W. D. & Kühl, M., Apr 2019, In : Plant physiology. 179, 4, p. 1608-1619 12 p.

Research output: Contribution to journalArticle

5 Scopus citations

Optical properties of living corals determined with diffuse reflectance spectroscopy

Jacques, S. L., Wangpraseurt, D. & Kühl, M., Jan 1 2019, In : Frontiers in Marine Science. 6, JUL, 472.

Research output: Contribution to journalArticle

Open Access

Path2Surv: Pathway/gene set-based survival analysis using multiple kernel learning

Dereli, O., Oǧuz, C., Gönen, M. & Wren, J., Dec 15 2019, In : Bioinformatics. 35, 24, p. 5137-5145 9 p.

Research output: Contribution to journalArticle

Patient Input for Design of a Decision Support Smartphone Application for Type 1 Diabetes

Wilson, L. M., Tyler, N., Jacobs, P., Gabo, V., Senf, B., Reddy, R. & Castle, J., Jan 1 2019, (Accepted/In press) In : Journal of Diabetes Science and Technology.

Research output: Contribution to journalArticle

PLK1 and EGFR targeted nanoparticle as a radiation sensitizer for non-small cell lung cancer

Reda, M., Ngamcherdtrakul, W., Gu, S., Bejan, D. S., Siriwon, N., Gray, J. W. & Yantasee, W., Dec 28 2019, In : Cancer Letters. 467, p. 9-18 10 p.

Research output: Contribution to journalArticle

Prediction of Hypoglycemia During Aerobic Exercise in Adults With Type 1 Diabetes

Reddy, R., Resalat, N., Wilson, L. M., Castle, J., El Youssef, J. & Jacobs, P., Jan 1 2019, In : Journal of diabetes science and technology.

Research output: Contribution to journalArticle

1 Scopus citations

Promoters of Colistin Resistance in Acinetobacter baumannii Infections

Nurtop, E., Baylndlr Bilman, F., Menekse, S., Kurt Azap, O., Gonen, M., Ergonul, O. & Can, F., Sep 1 2019, In : Microbial Drug Resistance. 25, 7, p. 997-1002 6 p.

Research output: Contribution to journalArticle

4 Scopus citations

Protease-activated receptor 4 activity promotes platelet granule release and platelet-leukocyte interactions

Rigg, R. A., Healy, L. D., Chu, T. T., Ngo, A. T. P., Mitrugno, A., Zilberman-Rudenko, J., Aslan, J. E., Hinds, M. T., Vecchiarelli, L. D., Morgan, T. K., Gruber, A., Temple, K. J., Lindsley, C. W., Duvernay, M. T., Hamm, H. E. & McCarty, O. J. T., Jan 2 2019, In : Platelets. 30, 1, p. 126-135 10 p.

Research output: Contribution to journalArticle

1 Scopus citations

Protein dynamics analysis reveals that missense mutations in cancer-related genes appear frequently on hinge-neighboring residues

Sayılgan, J. F., Haliloğlu, T. & Gönen, M., Jun 2019, In : Proteins: Structure, Function and Bioinformatics. 87, 6, p. 512-519 8 p.

Research output: Contribution to journalArticle

1 Scopus citations

Removal of a gadolinium based contrast agent by a novel sorbent hemoperfusion in a chronic kidney disease (CKD) rodent model

Ngamcherdtrakul, W., Morry, J., Sangvanich, T., Reda, M., Bejan, D. S., Fryxell, G. E. & Yantasee, W., Dec 1 2019, In : Scientific Reports. 9, 1, 709.

Research output: Contribution to journalArticle

1 Scopus citations

Reproducible biomedical benchmarking in the cloud: Lessons from crowd-sourced data challenges

Ellrott, K., Buchanan, A., Creason, A., Mason, M., Schaffter, T., Hoff, B., Eddy, J., Chilton, J. M., Yu, T., Stuart, J. M., Saez-Rodriguez, J., Stolovitzky, G., Boutros, P. C. & Guinney, J., Sep 10 2019, In : Genome biology. 20, 1, 195.

Research output: Contribution to journalArticle

Open Access
2 Scopus citations

Robust Cell Detection and Segmentation for Image Cytometry Reveal Th17 Cell Heterogeneity

Tsujikawa, T., Thibault, G., Azimi, V., Sivagnanam, S., Banik, G., Means, C., Kawashima, R., Clayburgh, D. R., Gray, J. W., Coussens, L. M. & Chang, Y. H., Apr 2019, In : Cytometry Part A. 95, 4, p. 389-398 10 p.

Research output: Contribution to journalArticle

1 Scopus citations

Selective capture of radionuclides (U, Pu, Th, Am and Co) using functional nanoporous sorbents

Yantasee, W., Fryxell, G. E., Pattamakomsan, K., Sangvanich, T., Wiacek, R. J., Busche, B., Addleman, R. S., Timchalk, C., Ngamcherdtrakul, W. & Siriwon, N., Mar 15 2019, In : Journal of Hazardous Materials. 366, p. 677-683 7 p.

Research output: Contribution to journalArticle

4 Scopus citations

Sensory re-weighting for postural control in Parkinson’s disease

Feller, K. J., Peterka, R. B. & Horak, F., Feb 1 2019, In : Frontiers in Human Neuroscience. 13, 126.

Research output: Contribution to journalArticle

Open Access
4 Scopus citations

Serotonin transporter–ibogaine complexes illuminate mechanisms of inhibition and transport

Coleman, J. A., Yang, D., Zhao, Z., Wen, P. C., Yoshioka, C., Tajkhorshid, E. & Gouaux, E., May 2 2019, In : Nature. 569, 7754, p. 141-145 5 p.

Research output: Contribution to journalArticle

13 Scopus citations

Static spatial growth restriction micropatterning of endothelial colony forming cells influences their morphology and gene expression

Hagen, M. W. & Hinds, M., Jun 1 2019, In : PloS one. 14, 6, e0218197.

Research output: Contribution to journalArticle

Open Access
1 Scopus citations
3 Scopus citations

Structure of the gene therapy vector, adeno-associated virus with its cell receptor, AAVR

Meyer, N. L., Hu, G., Davulcu, O., Xie, Q., Noble, A. J., Yoshioka, C., Gingerich, D. S., Trzynka, A., David, L., Stagg, S. M. & Chapman, M., May 22 2019, In : eLife. 8

Research output: Contribution to journalArticle

Open Access
5 Scopus citations

Targeting mitochondria in cancer therapy could provide a basis for the selective anticancer activity

Rozanov, D., Cheltsov, A., Nilsen, A., Boniface, C., Forquer, I., Korkola, J., Gray, J., Tyner, J., Tognon, C. E., Mills, G. & Spellman, P., Mar 1 2019, In : PloS one. 14, 3, e0205623.

Research output: Contribution to journalArticle

Open Access
3 Scopus citations

Targeting the mevalonate pathway to overcome acquired anti-HER2 treatment resistance in breast cancer

Sethunath, V., Hu, H., De Angelis, C., Veeraraghavan, J., Qin, L., Wang, N., Simon, L. M., Wang, T., Fu, X., Nardone, A., Pereira, R., Nanda, S., Griffith, O. L., Tsimelzon, A., Shaw, C., Chamness, G. C., Reis-Filho, J. S., Weigelt, B., Heiser, L. M., Hilsenbeck, S. G. & 5 others, Huang, S., Rimawi, M. F., Gray, J. W., Osborne, C. K. & Schiff, R., Jan 1 2019, In : Molecular Cancer Research. 17, 11, p. 2318-2330 13 p.

Research output: Contribution to journalArticle

3 Scopus citations

The fungal metabolite chaetocin is a sensitizer for pro-apoptotic therapies in glioblastoma

Ozyerli-Goknar, E., Sur-Erdem, I., Seker, F., Cingöz, A., Kayabolen, A., Kahya-Yesil, Z., Uyulur, F., Gezen, M., Tolay, N., Erman, B., Gönen, M., Dunford, J., Oppermann, U. & Bagci-Onder, T., Dec 1 2019, In : Cell Death and Disease. 10, 12, 894.

Research output: Contribution to journalArticle

Open Access
1 Scopus citations

The role of coagulation and platelets in colon cancer-associated thrombosis

Mitrugno, A., Tassi Yunga, S., Sylman, J. L., Zilberman-Rudenko, J., Shirai, T., Hebert, J. F., Kayton, R., Zhang, Y., Nan, X., Shatzel, J. J., Esener, S., Duvernay, M. T., Hamm, H. E., Gruber, A., Williams, C. D., Takata, Y., Armstrong, R., Morgan, T. & McCarty, O., Feb 1 2019, In : American journal of physiology. Cell physiology. 316, 2, p. C264-C273

Research output: Contribution to journalArticle

7 Scopus citations

The Safety and Efficacy of Novel Agents Targeting Factors XI and XII in Early Phase Human Trials

Deloughery, E. P., Olson, S. R., Puy, C., McCarty, O. & Shatzel, J. J., Jan 1 2019, In : Seminars in Thrombosis and Hemostasis. 45, 5, p. 502-508 7 p.

Research output: Contribution to journalArticle

2 Scopus citations

Thrombotic microangiopathy as a cause of cardiovascular toxicity from the BCR-ABL1 tyrosine kinase inhibitor ponatinib

Latifi, Y., Moccetti, F., Wu, M., Xie, A., Packwood, W., Qi, Y., Ozawa, K., Shentu, W., Brown, E., Shirai, T., McCarty, O. J., Ruggeri, Z., Moslehi, J., Chen, J., Druker, B. J., López, J. A. & Lindner, J. R., Apr 4 2019, In : Blood. 133, 14, p. 1597-1606 10 p.

Research output: Contribution to journalArticle

10 Scopus citations

Transient probability currents provide upper and lower bounds on non-equilibrium steady-state currents in the Smoluchowski picture

Copperman, J., Aristoff, D., Makarov, D. E., Simpson, G. & Zuckerman, D. M., Nov 7 2019, In : Journal of Chemical Physics. 151, 17, 5120511.

Research output: Contribution to journalArticle

Using Artificial Intelligence to Improve the Quality and Safety of Radiation Therapy

Pillai, M., Adapa, K., Das, S. K., Mazur, L., Dooley, J., Marks, L. B., Thompson, R. & Chera, B. S., Jan 1 2019, In : Journal of the American College of Radiology.

Research output: Contribution to journalArticle

2 Scopus citations

Using microarrays to interrogate microenvironmental impact on cellular phenotypes in cancer

Smith, R., Devlin, K., Kilburn, D., Gross, S., Sudar, D., Bucher, E., Nederlof, M., Dane, M., Gray, J. W., Heiser, L. & Korkola, J. E., May 2019, In : Journal of Visualized Experiments. 2019, 147, e58957.

Research output: Contribution to journalArticle

1 Scopus citations
2018

3′ UTR lengthening as a novel mechanism in regulating cellular senescence

Chen, M., Lyu, G., Han, M., Nie, H., Shen, T., Chen, W., Niu, Y., Song, Y., Li, X., Li, H., Chen, X., Wang, Z., Xia, Z., Li, W., Tian, X. L., Ding, C., Gu, J., Zheng, Y., Liu, X., Hu, J. & 3 others, Wei, G., Tao, W. & Ni, T., Mar 2018, In : Genome Research. 28, 3, p. 285-294 10 p.

Research output: Contribution to journalArticle

14 Scopus citations

3′ UTR shortening represses tumor-suppressor genes in trans by disrupting ceRNA crosstalk

Park, H. J., Ji, P., Kim, S., Xia, Z., Rodriguez, B., Li, L., Su, J., Chen, K., Masamha, C. P., Baillat, D., Fontes-Garfias, C. R., Shyu, A. B., Neilson, J. R., Wagner, E. J. & Li, W., Jun 1 2018, In : Nature genetics. 50, 6, p. 783-789 7 p.

Research output: Contribution to journalArticle

34 Scopus citations

Accuracy of wrist-worn activity monitors during common daily physical activities and types of structured exercise: Evaluation study

Kondama Reddy, R., Pooni, R., Zaharieva, D. P., Senf, B., El Youssef, J., Dassau, E., Doyle, F. J., Clements, M. A., Rickels, M. R., Patton, S. R., Castle, J. R., Riddell, M. C. & Jacobs, P. G., Dec 2018, In : JMIR mHealth and uHealth. 6, 12, e10338.

Research output: Contribution to journalArticle

10 Scopus citations

Animal models for heart valve research and development

Kheradvar, A., Zareian, R., Kawauchi, S., Goodwin, R. L. & Rugonyi, S., Jan 1 2018, (Accepted/In press) In : Drug Discovery Today: Disease Models.

Research output: Contribution to journalArticle

3 Scopus citations

Artificial intelligence in radiation oncology: A specialty-wide disruptive transformation?

Thompson, R., Valdes, G., Fuller, C. D., Carpenter, C. M., Morin, O., Aneja, S., Lindsay, W. D., Aerts, H. J. W. L., Agrimson, B., Deville, C., Rosenthal, S. A., Yu, J. B. & Thomas, C., Jan 1 2018, (Accepted/In press) In : Radiotherapy and Oncology.

Research output: Contribution to journalArticle

23 Scopus citations

A Temporal Examination of Platelet Counts as a Predictor of Prognosis in Lung, Prostate, and Colon Cancer Patients

Sylman, J. L., Boyce, H. B., Mitrugno, A., Tormoen, G. W., Thomas, I. C., Wagner, T. H., Lee, J. S., Leppert, J. T., McCarty, O. & Mallick, P., Dec 1 2018, In : Scientific Reports. 8, 1, 6564.

Research output: Contribution to journalArticle

2 Scopus citations

Biology needs evolutionary software tools: Let's build them right

Nekrutenko, A., Team, G., Goecks, J., Taylor, J. & Blankenberg, D., Jun 1 2018, In : Molecular Biology and Evolution. 35, 6, p. 1372-1375 4 p.

Research output: Contribution to journalArticle

4 Scopus citations

CCR5 Governs DNA damage repair and breast cancer stem cell expansion

Jiao, X., Velasco-Velazquez, M. A., Wang, M., Li, Z., Rui, H., Peck, A. R., Korkola, J. E., Chen, X., Xu, S., DuHadaway, J. B., Guerrero-Rodriguez, S., Addya, S., Sicoli, D., Mu, Z., Zhang, G., Stucky, A., Zhang, X., Cristofanilli, M., Fatatis, A., Gray, J. W. & 3 others, Zhong, J. F., Prendergast, G. C. & Pestell, R. G., Apr 1 2018, In : Cancer Research. 78, 7, p. 1657-1671 15 p.

Research output: Contribution to journalArticle

24 Scopus citations

Cell fusion potentiates tumor heterogeneity and reveals circulating hybrid cells that correlate with stage and survival

Gast, C. E., Silk, A. D., Zarour, L., Riegler, L., Burkhart, J. G., Gustafson, K. T., Parappilly, M. S., Roh-Johnson, M., Goodman, J. R., Olson, B., Schmidt, M., Swain, J. R., Davies, P., Shasthri, V., Iizuka, S., Flynn, P., Watson, S., Korkola, J., Courtneidge, S., Fischer, J. & 8 others, Jaboin, J., Billingsley, K., Lopez, C., Burchard, J., Gray, J., Coussens, L., Sheppard, B. & Wong, M., Sep 12 2018, In : Science advances. 4, 9, eaat7828.

Research output: Contribution to journalArticle

32 Scopus citations

Chronic liver disease, thrombocytopenia and procedural bleeding risk; are novel thrombopoietin mimetics the solution?

Olson, S. R., Koprowski, S., Hum, J., McCarty, O., Deloughery, T. & Shatzel, J. J., Jan 1 2018, (Accepted/In press) In : Platelets.

Research output: Contribution to journalArticle

Clinically Observed Estrogen Receptor Alpha Mutations within the Ligand-Binding Domain Confer Distinguishable Phenotypes

Jia, S., Miedel, M. T., Ngo, M., Hessenius, R., Chen, N., Wang, P., Bahreini, A., Li, Z., Ding, Z., Shun, T. Y., Zuckerman, D. M., Taylor, D. L., Puhalla, S. L., Lee, A. V., Oesterreich, S. & Stern, A. M., Feb 1 2018, In : Oncology (Switzerland). 94, 3, p. 176-189 14 p.

Research output: Contribution to journalArticle

5 Scopus citations

Combining accurate tumor genome simulation with crowdsourcing to benchmark somatic structural variant detection

ICGC-TCGA DREAM Somatic Mutation Calling Challenge Participants, Nov 6 2018, In : Genome biology. 19, 1, 188.

Research output: Contribution to journalArticle

8 Scopus citations

Complement C5a Fosters Squamous Carcinogenesis and Limits T Cell Response to Chemotherapy

Medler, T. R., Murugan, D., Horton, W., Kumar, S., Cotechini, T., Forsyth, A. M., Leyshock, P., Leitenberger, J. J., Kulesz-Martin, M., Margolin, A., Werb, Z. & Coussens, L., Oct 8 2018, In : Cancer Cell. 34, 4, p. 561-578.e6

Research output: Contribution to journalArticle

24 Scopus citations

Computational measurement of tumor immune microenvironment in gastric adenocarcinomas

Chang, Y. H., Heo, Y. J., Cho, J., Song, S. Y., Lee, J. & Kim, K. M., Dec 1 2018, In : Scientific Reports. 8, 1, 13887.

Research output: Contribution to journalArticle

2 Scopus citations

Coupling integrin dynamics to cellular adhesion behaviors

Galbraith, C., Davidson, M. W. & Galbraith, J., Jan 1 2018, In : Biology Open. 7, 8, bio036806.

Research output: Contribution to journalArticle

1 Scopus citations