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2018

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

27 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. S., Shasthri, V., Iizuka, S., Flynn, P., Watson, S., Korkola, J., Courtneidge, S. A., Fischer, J. M. & 8 others, Jaboin, J., Billingsley, K. G., Lopez, C. D., Burchard, J., Gray, J., Coussens, L. M., Sheppard, B. C. & Wong, M. H., Sep 12 2018, In : Science Advances. 4, 9, eaat7828.

Research output: Contribution to journalArticle

40 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

1 Scopus citations

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

6 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

26 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. G., Davidson, M. W. & Galbraith, J. A., 2018, In : Biology Open. 7, 8, bio036806.

Research output: Contribution to journalArticle

1 Scopus citations

Cryo-EM structure of the benzodiazepine-sensitive α1β1γ2S tri-heteromeric GABAA receptor in complex with GABA

Phulera, S., Zhu, H., Yu, J., Claxton, D. P., Yoder, N., Yoshioka, C. & Gouaux, E., Jul 25 2018, In : eLife. 7, e39383.

Research output: Contribution to journalArticle

37 Scopus citations

Design and Utility of a Point-of-Care Microfluidic Platform to Assess Hematocrit and Blood Coagulation

Zilberman-Rudenko, J., White, R. M., Zilberman, D. A., Lakshmanan, H. H. S., Rigg, R. A., Shatzel, J. J., Maddala, J. & McCarty, O. J. T., Dec 15 2018, In : Cellular and Molecular Bioengineering. 11, 6, p. 519-529 11 p.

Research output: Contribution to journalArticle

2 Scopus citations

Differentiation-state plasticity is a targetable resistance mechanism in basal-like breast cancer

Risom, T., Langer, E. M., Chapman, M. P., Rantala, J., Fields, A. J., Boniface, C., Alvarez, M. J., Kendsersky, N. D., Pelz, C. R., Johnson-Camacho, K., Dobrolecki, L. E., Chin, K., Aswani, A. J., Wang, N. J., Califano, A., Lewis, M. T., Tomlin, C. J., Spellman, P. T., Adey, A., Gray, J. W. & 1 others, Sears, R. C., Dec 1 2018, In : Nature communications. 9, 1, 3815.

Research output: Contribution to journalArticle

27 Scopus citations

Discriminating early- and late-stage cancers using multiple kernel learning on gene sets

Rahimi, A. & Gonen, M., Jul 1 2018, In : Bioinformatics. 34, 13, p. i412-i421

Research output: Contribution to journalArticle

9 Scopus citations

Effect of Aerobic and Resistance Exercise on Glycemic Control in Adults With Type 1 Diabetes

Reddy, R., Wittenberg, A., Castle, J., El Youssef, J., Winters-Stone, K., Gillingham, M. & Jacobs, P., Jan 1 2018, (Accepted/In press) In : Canadian Journal of Diabetes.

Research output: Contribution to journalArticle

3 Scopus citations

Effect of Pneumatic Tubing System Transport on Platelet Apheresis Units

Zilberman-Rudenko, J., Zhao, F. Z., Reitsma, S. E., Mitrugno, A., Pang, J., Shatzel, J. J., Rick, B., Tyrrell, C., Hasan, W., McCarty, O. J. T. & Schreiber, M. A., Sep 15 2018, In : Cardiovascular Engineering and Technology. 9, 3, p. 515-527 13 p.

Research output: Contribution to journalArticle

Enabling precision medicine via standard communication of HTS provenance, analysis, and results

Alterovitz, G., Dean, D., Goble, C., Crusoe, M. R., Soiland-Reyes, S., Bell, A., Hayes, A., Suresh, A., Purkayastha, A., King, C. H., Taylor, D., Johanson, E., Thompson, E. E., Donaldson, E., Morizono, H., Tsang, H., Vora, J. K., Goecks, J., Yao, J., Almeida, J. S. & 17 others, Keeney, J., Addepalli, K. D., Krampis, K., Smith, K. M., Guo, L., Walderhaug, M., Schito, M., Ezewudo, M., Guimera, N., Walsh, P., Kahsay, R., Gottipati, S., Rodwell, T. C., Bloom, T., Lai, Y., Simonyan, V. & Mazumder, R., Dec 2018, In : PLoS Biology. 16, 12, e3000099.

Research output: Contribution to journalArticle

3 Scopus citations

Escape of a Small Molecule from Inside T4 Lysozyme by Multiple Pathways

Nunes-Alves, A., Zuckerman, D. M. & Arantes, G. M., Mar 13 2018, In : Biophysical Journal. 114, 5, p. 1058-1066 9 p.

Research output: Contribution to journalArticle

13 Scopus citations

Factor XI contributes to myocardial ischemia-reperfusion injury in mice

Lorentz, C. U., Verbout, N. G., Cao, Z., Liu, L., Hinds, M., McCarty, O., Ivanov, I., Tucker, E., Gailani, D. & Gruber, A., Jan 23 2018, In : Blood advances. 2, 2, p. 85-88 4 p.

Research output: Contribution to journalArticle

2 Scopus citations

Factor XII activation promotes platelet consumption in the presence of bacterial-type long-chain polyphosphate in vitro and in vivo

Zilberman-Rudenko, J., Reitsma, S. E., Puy, C., Rigg, R. A., Smith, S. A., Tucker, E. I., Silasi, R., Merkulova, A., McCrae, K. R., Maas, C., Urbanus, R. T., Gailani, D., Morrissey, J. H., Gruber, A., Lupu, F., Schmaier, A. H. & McCarty, O. J. T., Jan 1 2018, In : Arteriosclerosis, thrombosis, and vascular biology. 38, 8, p. 1748-1760 13 p.

Research output: Contribution to journalArticle

5 Scopus citations

Functional precision medicine identifies novel druggable targets and therapeutic options in head and neck cancer

Xu, C., Nikolova, O., Basom, R. S., Mitchell, R. M., Shaw, R., Moser, R. D., Park, H., Gurley, K. E., Kao, M. C., Green, C. L., Schaub, F. X., Diaz, R. L., Swan, H. A., Jang, I. S., Guinney, J., Gadi, V. K., Margolin, A., Grandori, C., Kemp, C. J. & Méndez, E., Jun 15 2018, In : Clinical Cancer Research. 24, 12, p. 2828-2843 16 p.

Research output: Contribution to journalArticle

6 Scopus citations

Gating mechanisms of acid-sensing ion channels

Yoder, N., Yoshioka, C. & Gouaux, E., Mar 15 2018, In : Nature. 555, 7696, p. 397-401 5 p.

Research output: Contribution to journalArticle

43 Scopus citations

Germline contamination and leakage in whole genome somatic single nucleotide variant detection

Sendorek, D. H., Caloian, C., Ellrott, K., Bare, J. C., Yamaguchi, T. N., Ewing, A. D., Houlahan, K. E., Norman, T. C., Margolin, A. A., Stuart, J. M. & Boutros, P. C., Jan 31 2018, In : BMC bioinformatics. 19, 1, 28.

Research output: Contribution to journalArticle

2 Scopus citations

Glycan shield and fusion activation of a deltacoronavirus spike glycoprotein fine-tuned for enteric infections

Xiong, X., Tortorici, M. A., Snijder, J., Yoshioka, C., Walls, A. C., Li, W., McGuire, A. T., Rey, F. A., Bosch, B. J. & Veesler, D., Feb 1 2018, In : Journal of virology. 92, 4, e01628-17.

Research output: Contribution to journalArticle

26 Scopus citations

Highly scalable generation of DNA methylation profiles in single cells

Mulqueen, R. M., Pokholok, D., Norberg, S. J., Torkenczy, K. A., Fields, A. J., Sun, D., Sinnamon, J. R., Shendure, J., Trapnell, C., O'Roak, B., Xia, Z., Steemers, F. J. & Adey, A., Jun 1 2018, In : Nature Biotechnology. 36, 5, p. 428-431 4 p.

Research output: Contribution to journalArticle

48 Scopus citations

Identifying mechanisms of stance control: A single stimulus multiple output model-fit approach

Goodworth, A. D. & Peterka, R. B., Feb 15 2018, In : Journal of Neuroscience Methods. 296, p. 44-56 13 p.

Research output: Contribution to journalArticle

5 Scopus citations

IFNγ-activated dermal lymphatic vessels inhibit cytotoxic T cells in melanoma and inflamed skin

Lane, R. S., Femel, J., Breazeale, A. P., Loo, C. P., Thibault, G., Kaempf, A., Mori, M., Tsujikawa, T., Chang, Y. H. & Lund, A. W., Dec 1 2018, In : Journal of Experimental Medicine. 215, 12, p. 3057-3074 18 p.

Research output: Contribution to journalArticle

20 Scopus citations

Impact of the ST101 clone on fatality among patients with colistin-resistant Klebsiella pneumoniae infection

Can, F., Menekse, S., Ispir, P., Atac, N., Albayrak, O., Demir, T., Karaaslan, D. C., Karahan, S. N., Kapmaz, M., Azap, O. K., Timurkaynak, F., Yavuz, S. S., Basaran, S., Yoruk, F., Azap, A., Koculu, S., Benzonana, N., Lack, N. A., Gönen, M. & Ergonul, O., May 1 2018, In : Journal of Antimicrobial Chemotherapy. 73, 5, p. 1235-1241 7 p.

Research output: Contribution to journalArticle

8 Scopus citations
7 Scopus citations

Improving surgical methods for studying vascular grafts in animal models

Anderson, D. E. J., Pohan, G., Raman, J., Konecny, F., Yim, E. K. F. & Hinds, M., Aug 1 2018, In : Tissue Engineering - Part C: Methods. 24, 8, p. 457-464 8 p.

Research output: Contribution to journalArticle

2 Scopus citations
1 Scopus citations

Intraluminal thrombus is associated with early rupture of abdominal aortic aneurysm

Haller, S. J., Crawford, J. D., Courchaine, K. M., Bohannan, C. J., Landry, G. J., Moneta, G. L., Azarbal, A. F. & Rugonyi, S., Apr 2018, In : Journal of vascular surgery. 67, 4, p. 1051-1058.e1

Research output: Contribution to journalArticle

23 Scopus citations

Kinome rewiring reveals AURKA limits PI3K-pathway inhibitor efficacy in breast cancer

Donnella, H. J., Webber, J. T., Levin, R. S., Camarda, R., Momcilovic, O., Bayani, N., Shah, K. N., Korkola, J. E., Shokat, K. M., Goga, A., Gordan, J. D. & Bandyopadhyay, S., Aug 1 2018, In : Nature Chemical Biology. 14, 8, p. 768-777 10 p.

Research output: Contribution to journalArticle

12 Scopus citations

Lack of acquired resistance in HER2-positive breast cancer cells after long-term HER2 siRNA nanoparticle treatment

Gu, S., Ngamcherdtrakul, W., Reda, M., Hu, Z., Gray, J. W. & Yantasee, W., Jun 2018, In : PloS one. 13, 6, e0198141.

Research output: Contribution to journalArticle

3 Scopus citations

Large-scale automated machine reading discovers new cancer-driving mechanisms

Valenzuela-Escárcega, M. A., Babur, Ö., Hahn-Powell, G., Bell, D., Hicks, T., Noriega-Atala, E., Wang, X., Surdeanu, M., Demir, E. & Morrison, C. T., Jan 1 2018, In : Database. 2018, 2018

Research output: Contribution to journalArticle

8 Scopus citations

Light-sheet fluorescence microscopy for the study of the murine heart

Ding, Y., Bailey, Z., Messerschmidt, V., Nie, J., Bryant, R., Rugonyi, S., Fei, P., Lee, J. & Hsiai, T. K., Sep 15 2018, In : Journal of Visualized Experiments. 2018, 139, e57769.

Research output: Contribution to journalArticle

2 Scopus citations

LSD1 activates a lethal prostate cancer gene network independently of its demethylase function

Sehrawat, A., Gao, L., Wang, Y., Bankhead, A., McWeeney, S. K., King, C. J., Schwartzman, J., Urrutia, J., Bisson, W. H., Coleman, D. J., Joshi, S. K., Kim, D. H., Sampson, D. A., Weinmann, S., Kallakury, B. V. S., Berry, D. L., Haque, R., Van Den Eeden, S. K., Sharma, S., Bearss, J. & 4 others, Beer, T. M., Thomas, G. V., Heiser, L. M. & Alumkal, J. J., May 1 2018, In : Proceedings of the National Academy of Sciences of the United States of America. 115, 18, p. E4179-E4188

Research output: Contribution to journalArticle

39 Scopus citations

Lyophilization and stability of antibody-conjugated mesoporous silica nanoparticle with cationic polymer and PEG for siRNA delivery

Ngamcherdtrakul, W., Sangvanich, T., Reda, M., Gu, S., Bejan, D. & Yantasee, W., 2018, In : International journal of nanomedicine. 13, p. 4015-4027 13 p.

Research output: Contribution to journalArticle

9 Scopus citations

Mechanisms for Zinc and Proton Inhibition of the GluN1/GluN2A NMDA Receptor

Jalali-Yazdi, F., Chowdhury, S., Yoshioka, C. & Gouaux, E., Nov 29 2018, In : Cell. 175, 6, p. 1520-1532.e15

Research output: Contribution to journalArticle

18 Scopus citations

MHC class I loaded ligands from breast cancer cell lines: A potential HLA-I-typed antigen collection

Rozanov, D., Rozanov, N. D., Chiotti, K. E., Reddy, A., Wilmarth, P., David, L., Cha, S. W., Woo, S., Pevzner, P., Bafna, V., Burrows, G. G., Rantala, J. K., Levin, T., Anur, P., Johnson-Camacho, K., Tabatabaei, S., Munson, D. J., Bruno, T. C., Slansky, J. E., Kappler, J. W. & 9 others, Hirano, N., Boegel, S., Fox, B. A., Egelston, C., Simons, D. L., Jimenez, G., Lee, P. P., Gray, J. & Spellman, P., Mar 30 2018, In : Journal of Proteomics. 176, p. 13-23 11 p.

Research output: Contribution to journalArticle

8 Scopus citations

Microenvironment-Mediated Mechanisms of Resistance to HER2 Inhibitors Differ between HER2+ Breast Cancer Subtypes

Watson, S. S., Dane, M., Chin, K-Y., Tatarova, Z., Liu, M., Liby, T., Thompson, W., Smith, R., Nederlof, M., Bucher, E., Kilburn, D., Whitman, M., Sudar, D., Mills, G., Heiser, L., Jonas, O., Gray, J. & Korkola, J., Jan 1 2018, (Accepted/In press) In : Cell Systems.

Research output: Contribution to journalArticle

11 Scopus citations

miR-205 Regulates Basal Cell Identity and Stem Cell Regenerative Potential During Mammary Reconstitution

Lu, Y., Cao, J., Napoli, M., Xia, Z., Zhao, N., Creighton, C. J., Li, W., Chen, X., Flores, E. R., McManus, M. T. & Rosen, J. M., Dec 1 2018, In : Stem Cells. 36, 12, p. 1875-1889 15 p.

Research output: Contribution to journalArticle

2 Scopus citations

MiR-486-5p Downregulation Marks an Early Event in Colorectal Carcinogenesis

Kelley, K. A., Wieghard, N., Chin, Y., Potter, A., Mori, M. T., Wong, M., Chin, K-Y. & Tsikitis, V., Nov 1 2018, In : Diseases of the Colon and Rectum. 61, 11, p. 1290-1296 7 p.

Research output: Contribution to journalArticle

4 Scopus citations

Molecular Cytogenetics Guides Massively Parallel Sequencing of a Radiation-Induced Chromosome Translocation in Human Cells

Cornforth, M. N., Anur, P., Wang, N., Robinson, E., Ray, F. A., Bedford, J. S., Loucas, B. D., Williams, E. S., Peto, M., Spellman, P., Kollipara, R., Kittler, R., Gray, J. & Bailey, S. M., Jul 1 2018, In : Radiation Research. 190, 1, p. 88-97 10 p.

Research output: Contribution to journalArticle

6 Scopus citations

Myeloid-Derived Suppressor Cell Membrane-Coated Magnetic Nanoparticles for Cancer Theranostics by Inducing Macrophage Polarization and Synergizing Immunogenic Cell Death

Yu, G. T., Rao, L., Wu, H., Yang, L. L., Bu, L. L., Deng, W. W., Wu, L., Nan, X., Zhang, W. F., Zhao, X. Z., Liu, W. & Sun, Z. J., Sep 12 2018, In : Advanced Functional Materials. 28, 37, 1801389.

Research output: Contribution to journalArticle

33 Scopus citations

Next Generation Indexing for Genomic Intervals

Jalili, V., Matteucci, M., Goecks, J., Deldjoo, Y. & Ceri, S., Sep 18 2018, (Accepted/In press) In : IEEE Transactions on Knowledge and Data Engineering.

Research output: Contribution to journalArticle

1 Scopus citations

Nile Red derivatives enable improved ratiometric imaging for nerve-specific contrast

Korber, J. R., Barth, C. W. & Gibbs, S., Jul 1 2018, In : Journal of Biomedical Optics. 23, 7, 076002.

Research output: Contribution to journalArticle

3 Scopus citations

Pan-cancer transcriptional signatures predictive of oncogenic mutations reveal that Fbw7 regulates cancer cell oxidative metabolism

Davis, R. J., Gonen, M., Margineantu, D. H., Handeli, S., Swanger, J., Hoellerbauer, P., Paddison, P. J., Gu, H., Raftery, D., Grim, J. E., Hockenbery, D. M., Margolin, A. & Clurman, B. E., May 22 2018, In : Proceedings of the National Academy of Sciences of the United States of America. 115, 21, p. 5462-5467 6 p.

Research output: Contribution to journalArticle

5 Scopus citations

Peptidoglycan induces disseminated intravascular coagulation in baboons through activation of both coagulation pathways

Popescu, N. I., Silasi, R., Keshari, R. S., Girton, A., Burgett, T., Zeerleder, S. S., Gailani, D., Gruber, A., Lupu, F. & Mark Coggeshall, K., Aug 23 2018, In : Blood. 132, 8, p. 849-860 12 p.

Research output: Contribution to journalArticle

5 Scopus citations

Pilot study of novel lab methodology and testing of platelet function in adolescent women with heavy menstrual bleeding

Rocheleau, A. D., Khader, A., Ngo, A. T. P., Boehnlein, C., McDavitt, C., Lattimore, S., Recht, M., McCarty, O. & Haley, K., Mar 1 2018, In : Pediatric Research. 83, 3, p. 693-701 9 p.

Research output: Contribution to journalArticle

1 Scopus citations

Plasma contact factors as therapeutic targets

Tillman, B. F., Gruber, A., McCarty, O. & Gailani, D., Jan 1 2018, (Accepted/In press) In : Blood Reviews.

Research output: Contribution to journalArticle

8 Scopus citations

Platelet procoagulant phenotype is modulated by a p38-MK2 axis that regulates RTN4/Nogo proximal to the endoplasmic reticulum: utility of pathway analysis

Babur, O., Ngo, A. T. P., Rigg, R. A., Pang, J., Rub, Z. T., Buchanan, A. E., Mitrugno, A., David, L., McCarty, O., Demir, E. & Aslan, J., May 1 2018, In : American journal of physiology. Cell physiology. 314, 5, p. C603-C615

Research output: Contribution to journalArticle

6 Scopus citations