Skip to main content

Carl R. Woese Institute for Genomic Biology

Where Science Meets Society

Research Areas

Tabe-Bordbar, S., Emad, A., Zhao, S. D., & Sinha, S. (2018). A closer look at cross-validation for assessing the accuracy of gene regulatory networks and models. Scientific Reports, 8(1), [6620]. DOI: 10.1038/s41598-018-24937-4

Liu, D., Ray, B., Neavin, D. R., Zhang, J., Athreya, A. P., Biernacka, J. M., ... Weinshilboum, R. M. (2018). Beta-defensin 1, aryl hydrocarbon receptor and plasma kynurenine in major depressive disorder: Metabolomics-informed genomics. Translational psychiatry, 8(1), [56]. DOI: 10.1038/s41398-017-0056-8

Khan, R., Nguyen, T. H., Shisler, J., Lin, L. S., Jutla, A., & Colwell, R. (2018). Evaluation of risk of cholera after a natural disaster: Lessons learned from the 2015 Nepal earthquake. Journal of Water Resources Planning and Management, 144(8), [04018044]. DOI: 10.1061/(ASCE)WR.1943-5452.0000929

Biscarri, W., Zhao, S. D., & Brunner, R. J. (2018). A simple and fast method for computing the Poisson binomial distribution function. Computational Statistics and Data Analysis, 122, 92-100. DOI: 10.1016/j.csda.2018.01.007

Berding, K., Holscher, H. D., Arthur, A. E., & Donovan, S. M. (2018). Fecal microbiome composition and stability in 4- to 8-year old children is associated with dietary patterns and nutrient intake. Journal of Nutritional Biochemistry, 56, 165-174. DOI: 10.1016/j.jnutbio.2018.01.002

Dominguez, V. R., & Malhi, R. S. (2018). Foreword. American Anthropologist, 120(2), 328-329. DOI: 10.1111/aman.13041

Bortolini, M. C., Dominguez, V. R., & Malhi, R. S. (2018). Interview with Maria Cátira Bortolini, Anthropological Geneticist. American Anthropologist, 120(2), 343-344. DOI: 10.1111/aman.13042

Tucker, E. K., & Nowak, R. A. (2018). Methylmercury alters proliferation, migration, and antioxidant capacity in human HTR8/SV-neo trophoblast cells. Reproductive Toxicology, 78, 60-68. DOI: 10.1016/j.reprotox.2018.03.008

Miller, D. J. (2018). Review: The epic journey of sperm through the female reproductive tract. Animal, 12(s1), s110-s120. DOI: 10.1017/S1751731118000526

Harris, S. C., Devendran, S., Méndez- García, C., Mythen, S. M., Wright, C. L., Fields, C. J., ... Ridlon, J. M. (Accepted/In press). Bile acid oxidation by Eggerthella lenta strains C592 and DSM 2243T Gut microbes, 1-17. DOI: 10.1080/19490976.2018.1458180

Nievergelt, C. M., Ashley-Koch, A. E., Dalvie, S., Hauser, M. A., Morey, R. A., Smith, A. K., & Uddin, M. (2018). Genomic Approaches to Posttraumatic Stress Disorder: The Psychiatric Genomic Consortium Initiative. Biological Psychiatry, 83(10), 831-839. DOI: 10.1016/j.biopsych.2018.01.020

Vachaspati, P., & Warnow, T. (2018). SIESTA: Enhancing searches for optimal supertrees and species trees. BMC genomics, 19, [252]. DOI: 10.1186/s12864-018-4621-1

Nute, M., Chou, J., Molloy, E. K., & Warnow, T. (2018). The performance of coalescent-based species tree estimation methods under models of missing data. BMC genomics, 19, [286]. DOI: 10.1186/s12864-018-4619-8

Nelson, E. R. (2018). The significance of cholesterol and its metabolite, 27-hydroxycholesterol in breast cancer. Molecular and Cellular Endocrinology, 466, 73-80. DOI: 10.1016/j.mce.2017.09.021

Laurent, H., Goodman, S. H., Stowe, Z. N., Halperin, M., Khan, F., Wright, D., ... Knight, B. (2018). Course of ante-and postnatal depressive symptoms related to mothers' HPA axis regulation. Journal of Abnormal Psychology, 127(4), 404-416. DOI: 10.1037/abn0000348

Swaminathan, S., Abeysekara, N. S., Knight, J. M., Liu, M., Dong, J., Hudson, M. E., ... Cianzio, S. R. (2018). Mapping of new quantitative trait loci for sudden death syndrome and soybean cyst nematode resistance in two soybean populations. Theoretical and Applied Genetics, 131(5), 1047-1062. DOI: 10.1007/s00122-018-3057-y

Doden, H., Sallam, L. A., Devendran, S., Ly, L., Doden, G., Daniel, S. L., ... Ridlon, J. M. (2018). Metabolism of oxo-bile acids and characterization of recombinant 12α- hydroxysteroid dehydrogenases from bile acid 7α-dehydroxylating human gut bacteria. Applied and Environmental Microbiology, 84(10), [e00235-18]. DOI: 10.1128/AEM.00235-18

Lin, H., Chen, C., Wang, J., Qi, J., Jin, D., Kalbarczyk, Z. T., & Iyer, R. K. (2018). Self-healing attack-resilient PMU network for power system operation. IEEE Transactions on Smart Grid, 9(3), 1551-1565. DOI: 10.1109/TSG.2016.2593021

Farrell, A. K., Slatcher, R. B., Tobin, E. T., Imami, L., Wildman, D. E., Luca, F., & Zilioli, S. (2018). Socioeconomic status, family negative emotional climate, and anti-inflammatory gene expression among youth with asthma. Psychoneuroendocrinology, 91, 62-67. DOI: 10.1016/j.psyneuen.2018.02.011

Bardill, J., Bader, A. C., Garrison, N. A., Bolnick, D. A., Raff, J. A., Walker, A., & Malhi, R. S. (2018). Advancing the ethics of paleogenomics. Science, 360(6387), 384-385. DOI: 10.1126/science.aaq1131

Ren, Y., Reddy, J. S., Pottier, C., Sarangi, V., Tian, S., Sinnwell, J. P., ... Asmann, Y. W. (2018). Identification of missing variants by combining multiple analytic pipelines. BMC bioinformatics, 19(1), [139]. DOI: 10.1186/s12859-018-2151-0

Chung, K., Kalbarczyk, Z. T., & Iyer, R. K. (2018). Poster: Indirect cyber attacks by perturbation of environment control: A data driven attack model. In Proceedings of the 5th Annual Symposium and Bootcamp on Hot Topics in the Science of Security, HoTSoS 2018 [3191681] Association for Computing Machinery. DOI: 10.1145/3190619.3191681

Springer, M. S., Murphy, W. J., & Roca, A. L. (2018). Appropriate fossil calibrations and tree constraints uphold the Mesozoic divergence of solenodons from other extant mammals. Molecular Phylogenetics and Evolution, 121, 158-165. DOI: 10.1016/j.ympev.2018.01.007

the STRONG Kids Team (2018). Child body mass index, genotype and parenting in the prediction of restrictive feeding. Pediatric Obesity, 13(4), 239-246. DOI: 10.1111/ijpo.12219

Richardson, K. A., Hannon, P. R., Johnson-Walker, Y. J., Myint, M. S., Flaws, J. A., & Nowak, R. A. (2018). Di (2-ethylhexyl) phthalate (DEHP) alters proliferation and uterine gland numbers in the uteri of adult exposed mice. Reproductive Toxicology, 77, 70-79. DOI: 10.1016/j.reprotox.2018.01.006

Fleming, S. A., Chichlowski, M., Berg, B. M., Donovan, S. M., & Dilger, R. N. (2018). Dietary sialyllactose does not influence measures of recognition memory or diurnal activity in the young pig. Nutrients, 10(4), [395]. DOI: 10.3390/nu10040395

Liang, X., Lu, N., Chang, L. C., Nguyen, T. H., & Massoudieh, A. (2018). Evaluation of bacterial run and tumble motility parameters through trajectory analysis. Journal of Contaminant Hydrology, 211, 26-38. DOI: 10.1016/j.jconhyd.2018.03.002

Pomatto, V., Cottone, E., Cocci, P., Mozzicafreddo, M., Mosconi, G., Nelson, E. R., ... Bovolin, P. (2018). Plasticizers used in food-contact materials affect adipogenesis in 3T3-L1 cells. Journal of Steroid Biochemistry and Molecular Biology, 178, 322-332. DOI: 10.1016/j.jsbmb.2018.01.014

Mythen, S. M., Devendran, S., Méndez-García, C., Cann, I., & Ridlon, J. M. (2018). Targeted synthesis and characterization of a gene cluster encoding NAD(P)H-dependent 3α-, 3β-, and 12α-hydroxysteroid dehydrogenases from Eggerthella CAG: 298, a gut metagenomic sequence. Applied and Environmental Microbiology, 84(7), [e02475-17]. DOI: 10.1128/AEM.02475-17

Vazquez-Bravo, B., Gonçalves, K., Shisler, J. L., & Mariñas, B. J. (2018). Adenovirus Replication Cycle Disruption from Exposure to Polychromatic Ultraviolet Irradiation. Environmental Science and Technology, 52(6), 3652-3659. DOI: 10.1021/acs.est.7b06082

Christensen, S., Molloy, E. K., Vachaspati, P., & Warnow, T. (2018). OCTAL: Optimal Completion of gene trees in polynomial time. Algorithms for Molecular Biology, 13(1), [6]. DOI: 10.1186/s13015-018-0124-5

Massalha, N., Dong, S., Plewa, M. J., Borisover, M., & Nguyen, T. H. (2018). Spectroscopic Indicators for Cytotoxicity of Chlorinated and Ozonated Effluents from Wastewater Stabilization Ponds and Activated Sludge. Environmental Science and Technology, 52(5), 3167-3174. DOI: 10.1021/acs.est.7b05510

Kannan, A., Bhurke, A., Sitruk-Ware, R., Lalitkumar, P. G., Gemzell-Danielsson, K., Williams, A. R. W., ... Bagchi, I. C. (2018). Characterization of Molecular Changes in Endometrium Associated With Chronic Use of Progesterone Receptor Modulators: Ulipristal Acetate Versus Mifepristone. Reproductive Sciences, 25(3), 320-328. DOI: 10.1177/1933719117746764

Winters, R. A., Nettenstrom, L. M., Lopez, D. G., Willenburg, K. L., Vishwanath, R., Bovin, N. V., & Miller, D. J. (2018). Effect of sorting boar spermatozoa by sex chromosomes on oviduct cell binding. Theriogenology, 108, 22-28. DOI: 10.1016/j.theriogenology.2017.11.010

Harris, S. C., Devendran, S., Alves, J. M. P., Mythen, S. M., Hylemon, P. B., & Ridlon, J. M. (2018). Identification of a gene encoding a flavoprotein involved in bile acid metabolism by the human gut bacterium Clostridium scindens ATCC 35704. Biochimica et Biophysica Acta - Molecular and Cell Biology of Lipids, 1863(3), 276-283. DOI: 10.1016/j.bbalip.2017.12.001

Mallott, E. K., Amato, K. R., Garber, P. A., & Malhi, R. S. (2018). Influence of fruit and invertebrate consumption on the gut microbiota of wild white-faced capuchins (Cebus capucinus). American journal of physical anthropology, 165(3), 576-588. DOI: 10.1002/ajpa.23395

Duncan, L. E., Ratanatharathorn, A., Aiello, A. E., Almli, L. M., Amstadter, A. B., Ashley-Koch, A. E., ... Koenen, K. C. (2018). Largest GWAS of PTSD (N=20 070) yields genetic overlap with schizophrenia and sex differences in heritability. Molecular Psychiatry, 23(3), 666-673. DOI: 10.1038/mp.2017.77

STRONG Kids Team (2018). Predictors and Outcomes of Mealtime Emotional Climate in Families with Preschoolers. Journal of Pediatric Psychology, 43(2), 195-206. DOI: 10.1093/jpepsy/jsx109

Raulo, A., Ruokolainen, L., Lane, A., Amato, K., Knight, R., Leigh, S., ... Tecot, S. R. (2018). Social behaviour and gut microbiota in red-bellied lemurs (Eulemur rubriventer): In search of the role of immunity in the evolution of sociality. Journal of Animal Ecology, 87(2), 388-399. DOI: 10.1111/1365-2656.12781

Vidimar, V., Chakravarti, D., Bulun, S. E., Yin, P., Nowak, R., Wei, J. J., & Kim, J. J. (2018). The AKT/BCL-2 Axis Mediates Survival of Uterine Leiomyoma in a Novel 3D Spheroid Model. Endocrinology, 159(3), 1453-1462. DOI: 10.1210/en.2017-03191

Molloy, E. K., & Warnow, T. (2018). To Include or Not to Include: The Impact of Gene Filtering on Species Tree Estimation Methods. Systematic Biology, 67(2), 285-303. DOI: 10.1093/sysbio/syx077

Greenwood, A. D., O'Brien, S. P., Roca, A. L., & Eiden, M. V. (2018). Transmission, evolution, and endogenization: Lessons learned from recent retroviral invasions. Microbiology and Molecular Biology Reviews, 82(1), [e00044-17]. DOI: 10.1128/MMBR.00044-17

Harwood, S. A., Mendenhall, R., Lee, S. S., Riopelle, C., & Huntt, M. B. (Accepted/In press). Everyday Racism in Integrated Spaces: Mapping the Experiences of Students of Color at a Diversifying Predominantly White Institution. Annals of the American Association of Geographers, 1-15. DOI: 10.1080/24694452.2017.1419122

Ryerson, M. R., & Shisler, J. L. (2018). Characterizing the effects of insertion of a 5.2 kb region of a VACV genome, which contains known immune evasion genes, on MVA immunogenicity. Virus Research, 246, 55-64. DOI: 10.1016/j.virusres.2018.01.004

Gernat, T., Rao, V. D., Middendorf, M., Dankowicz, H., Goldenfeld, N., & Robinson, G. E. (2018). Automated monitoring of behavior reveals bursty interaction patterns and rapid spreading dynamics in honeybee social networks. Proceedings of the National Academy of Sciences of the United States of America, 115(7), 1433-1438. DOI: 10.1073/pnas.1713568115

Biswas, S., Smith, G. L., Roy, E. J., Ward, B., & Shisler, J. L. (2018). A comparison of the effect of molluscum contagiosum virus MC159 and MC160 proteins on vaccinia virus virulence in intranasal and intradermal infection routes. Journal of General Virology, 99(2), 246-252. [001006]. DOI: 10.1099/jgv.0.001006

Bustamante, A. C., Armstrong, D. L., & Uddin, M. (2018). Epigenetic profiles associated with major depression in the human brain. Psychiatry research, 260, 439-442. DOI: 10.1016/j.psychres.2017.12.010

Nelson, B. W., Allen, N. B., & Laurent, H. (2018). Infant HPA axis as a potential mechanism linking maternal mental health and infant telomere length. Psychoneuroendocrinology, 88, 38-46. DOI: 10.1016/j.psyneuen.2017.11.008

Mendenhall, R., Kramer, K. Z., & Bellisle, D. (2018). Low- and moderate-income families’ avenues to mobility: Overcoming threats to asset accumulation and remaining in undesirable neighborhoods. Research in Social Stratification and Mobility, 53, 26-39. DOI: 10.1016/j.rssm.2017.12.001

de Flamingh, A., Roca, A. L., & van Aarde, R. J. (2018). Origin and phylogeography of African savannah elephants (Loxodonta africana) in Kruger and nearby parks in southern Africa. Conservation Genetics, 19(1), 155-167. DOI: 10.1007/s10592-017-1005-z

Delker, B. C., Bernstein, R. E., & Laurent, H. K. (2018). Out of harm's way: Secure versus insecure-disorganized attachment predicts less adolescent risk taking related to childhood poverty. Development and Psychopathology, 30(1), 283-296. DOI: 10.1017/S0954579417000621

Mulder, N., Schwartz, R., Brazas, M. D., Brooksbank, C., Gaeta, B., Morgan, S. L., ... Welch, L. (2018). The development and application of bioinformatics core competencies to improve bioinformatics training and education. PLoS Computational Biology, 14(2), [e1005772]. DOI: 10.1371/journal.pcbi.1005772

Bayzid, M. S., & Warnow, T. (2018). Gene tree parsimony for incomplete gene trees: Addressing true biological loss. Algorithms for Molecular Biology, 13(1), [1]. DOI: 10.1186/s13015-017-0120-1

Moreno-Mayar, J. V., Potter, B. A., Vinner, L., Steinrücken, M., Rasmussen, S., Terhorst, J., ... Willerslev, E. (2018). Terminal Pleistocene Alaskan genome reveals first founding population of Native Americans. Nature, 553(7687), 203-207. DOI: 10.1038/nature25173

Pence, B. D., Ryerson, M. R., Cruz, A. G. B., Woods, J. A., & Shisler, J. L. (2018). Voluntary wheel running does not alter mortality to or immunogenicity of vaccinia virus in mice: A pilot study. Frontiers in Physiology, 8(JAN), [1123]. DOI: 10.3389/fphys.2017.01123

de Flamingh, A., Mallott, E. K., Roca, A. L., Boraas, A. S., & Malhi, R. S. (2018). Species identification and mitochondrial genomes of ancient fish bones from the Riverine Kachemak tradition of the Kenai Peninsula, Alaska. Mitochondrial DNA Part B: Resources, 3(1), 409-411. DOI: 10.1080/23802359.2018.1456371

Mapes, J., Anandan, L., Li, Q., Neff, A., Clevenger, C. V., Bagchi, I. C., & Bagchi, M. K. (2018). Aberrantly high expression of the CUB and zona pellucida-like domain-containing protein 1 (CUZD1) in mammary epithelium leads to breast tumorigenesis. Journal of Biological Chemistry, 293(8), 2850-2864. DOI: 10.1074/jbc.RA117.000162

Palkopoulou, E., Lipson, M., Mallick, S., Nielsen, S., Rohland, N., Baleka, S., ... Reich, D. (2018). A comprehensive genomic history of extinct and living elephants. Proceedings of the National Academy of Sciences of the United States of America, 115(11), E2566-E2574. DOI: 10.1073/pnas.1720554115

Josek, T., Walden, K. K. O., Allan, B. F., Alleyne, M., & Robertson, H. M. (Accepted/In press). A foreleg transcriptome for Ixodes scapularis ticks: Candidates for chemoreceptors and binding proteins that might be expressed in the sensory Haller's organ. Ticks and Tick-borne Diseases. DOI: 10.1016/j.ttbdis.2018.05.013

Updyke, E. A., & Allan, B. F. (2018). An experimental evaluation of cross-vane PanelTraps for the collection of SylvaticTriatomines (Hemiptera: Reduviidae). Journal of Medical Entomology, 55(2), 485-489. DOI: 10.1093/jme/tjx224

Eiserhardt, W. L., Antonelli, A., Bennett, D. J., Botigué, L. R., Burleigh, J. G., Dodsworth, S., ... Baker, W. J. (Accepted/In press). A roadmap for global synthesis of the plant tree of life. American journal of botany. DOI: 10.1002/ajb2.1041

Gates-Tanzer, L. T., & Shisler, J. L. (2018). Cellular FLIP long isoform (cFLIPl)-IKKα interactions inhibit IRF7 activation, representing a new cellular strategy to inhibit IFNα expression. Journal of Biological Chemistry, 293(5), 1745-1755. DOI: 10.1074/jbc.RA117.000541

Lipscomb, S. T., Becker, D. R., Laurent, H., Neiderhiser, J. M., Shaw, D. S., Natsuaki, M. N., ... Leve, L. D. (Accepted/In press). Examining morning HPA axis activity as a moderator of hostile, over-reactive parenting on children's skills for success in school. Infant and Child Development. DOI: 10.1002/icd.2083

Armstrong, D., & Wildman, D. E. (2018). Extracellular vesicles and the promise of continuous liquid biopsies. Journal of Pathology and Translational Medicine, 52(1), 1-8. DOI: 10.4132/jptm.2017.05.21

Bustamante, A. C., Aiello, A. E., Guffanti, G., Galea, S., Wildman, D. E., & Uddin, M. (2018). FKBP5 DNA methylation does not mediate the association between childhood maltreatment and depression symptom severity in the Detroit Neighborhood Health Study. Journal of Psychiatric Research, 96, 39-48. DOI: 10.1016/j.jpsychires.2017.09.016

Cianzio, S. R., Arelli, P. R., Swaminathan, S., Lundeen, P., Gebhart, G., Rivera-Velez, N., ... Hudson, M. E. (2018). Genetically diverse soybean cyst nematode-resistant full-sib soybean germplasm lines AR4SCN, AR5SCN, AR6SCN, AR7SCN, and AR8SCN. Journal of Plant Registrations, 12(1), 124-131. DOI: 10.3198/jpr2017.03.0015crg

Viana, J. P. G., Siqueira, M. V. B. M., Araujo, F. L., Grando, C., Sujii, P. S., De Aguiar Silvestre, E., ... Zucchi, M. I. (2018). Genomic diversity is similar between Atlantic Forest restorations and natural remnants for the native tree Casearia sylvestris Sw. PloS one, 13(3), [e0192165]. DOI: 10.1371/journal.pone.0192165

Vlčková, K., Shutt-Phillip, K., Heisterman, M., Pafčo, B., Petrželkov, K. J., Todd, A., ... Gomez, A. (2018). Impact of stress on the gut microbiome of free-ranging western lowland gorillas. Microbiology (United Kingdom), 164(1), 40-44. [000587]. DOI: 10.1099/mic.0.000587

Hylemon, P. B., Harris, S. C., & Ridlon, J. M. (Accepted/In press). Metabolism of hydrogen gases and bile acids in the gut microbiome. FEBS Letters. DOI: 10.1002/1873-3468.13064

Hassan, U., Zhu, R., & Bashir, R. (2018). Multivariate computational analysis of biosensor's data for improved CD64 quantification for sepsis diagnosis. Lab on a Chip, 18(8), 1231-1240. DOI: 10.1039/c8lc00108a

Kim, G. S., Smith, A. K., Nievergelt, C. M., & Uddin, M. (Accepted/In press). Neuroepigenetics of Post-Traumatic Stress Disorder. Progress in Molecular Biology and Translational Science. DOI: 10.1016/bs.pmbts.2018.04.001

Zheng, X., Andruska, N., Lambrecht, M. J., He, S., Parissenti, A., Hergenrother, P. J., ... Shapiro, D. J. (2018). Targeting multidrug-resistant ovarian cancer through estrogen receptor a dependent ATP depletion caused by hyperactivation of the unfolded protein response. Oncotarget, 9(19), 14741-14753. DOI: 10.18632/oncotarget.10819

Halsey, S. J., Allan, B. F., & Miller, J. R. (Accepted/In press). The role of Ixodes scapularis, Borrelia burgdorferi and wildlife hosts in Lyme disease prevalence: A quantitative review. Ticks and Tick-borne Diseases. DOI: 10.1016/j.ttbdis.2018.04.006  

Wickland, D. P., Battu, G., Hudson, K. A., Diers, B. W., & Hudson, M. E. (2017). A comparison of genotyping-by-sequencing analysis methods on low-coverage crop datasets shows advantages of a new workflow, GB-eaSy. BMC Bioinformatics, 18(1), [586]. DOI: 10.1186/s12859-017-2000-6

Xue, C., & Goldenfeld, N. (2017). Coevolution Maintains Diversity in the Stochastic "kill the Winner" Model. Physical Review Letters, 119(26), [268101]. DOI: 10.1103/PhysRevLett.119.268101

Goldenfeld, N., Biancalani, T., & Jafarpour, F. (2017). Universal biology and the statistical mechanics of early life. Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences, 375(2109), [20160341]. DOI: 10.1098/rsta.2016.0341

Nowak, R. A., Bi, J. J., Koohestani, F., Mesquita, F. S., & Erbach, G. T. (2017). Female Reproductive C: Uterine Tumors and the Environment. In Reproductive and Endocrine Toxicology (Vol. 4-15, pp. 438-469). Elsevier Inc.. DOI: 10.1016/B978-0-12-801238-3.95678-2

Dávila, J., Li, Q., & Bagchi, I. C. (2017). Genetic Mouse Models for Female Reproductive Toxicology Studies. In Reproductive and Endocrine Toxicology (Vol. 4-15, pp. 470-494). Elsevier Inc.. DOI: 10.1016/B978-0-12-801238-3.95679-4

Uprety, S., Hong, P. Y., Sadik, N., Dangol, B., Adhikari, R., Jutla, A., ... Nguyen, T. H. (2017). The effect of the 2015 earthquake on the bacterial community compositions in water in Nepal. Frontiers in Microbiology, 8(DEC), [2380]. DOI: 10.3389/fmicb.2017.02380

Weckle, A., McGowen, M. R., Xing, J., Chen, C., Sterner, K. N., Hou, Z. C., ... Wildman, D. E. (2017). Ancestral resurrection of anthropoid estrogen receptor β demonstrates functional consequences of positive selection. Molecular Phylogenetics and Evolution, 117, 2-9. DOI: 10.1016/j.ympev.2017.09.007

Avalos, A., Pan, H., Li, C., Acevedo-Gonzalez, J. P., Rendon, G., Fields, C. J., ... Zhang, G. (2017). A soft selective sweep during rapid evolution of gentle behaviour in an Africanized honeybee. Nature Communications, 8(1), [1550]. DOI: 10.1038/s41467-017-01800-0

Kim, M. J., Oh, H. J., Kim, G. A., Setyawan, E. M. N., Choi, Y. B., Lee, S. H., ... Lee, B. C. (2017). Birth of clones of the world's first cloned dog. Scientific Reports, 7(1), [15235]. DOI: 10.1038/s41598-017-15328-2

Taneja, I., Reddy, B., Damhorst, G., Dave Zhao, S., Hassan, U., Price, Z., ... Zhu, R. (2017). Combining Biomarkers with EMR Data to Identify Patients in Different Phases of Sepsis. Scientific Reports, 7(1), [10800]. DOI: 10.1038/s41598-017-09766-1

Rochette, N. C., & Catchen, J. M. (2017). Deriving genotypes from RAD-seq short-read data using Stacks. Nature Protocols, 12(12), 2640-2659. DOI: 10.1038/nprot.2017.123

Mudd, A. T., Fleming, S. A., Labhart, B., Chichlowski, M., Berg, B. M., Donovan, S. M., & Dilger, R. N. (2017). Dietary sialyllactose influences sialic acid concentrations in the prefrontal cortex and magnetic resonance imaging measures in corpus callosum of young pigs. Nutrients, 9(12), [1297]. DOI: 10.3390/nu9121297

Zimmer, E., & Wildman, D. (2017). Editorial for 25th Anniversary Issue of Molecular Phylogenetics and Evolution. Molecular Phylogenetics and Evolution, 117. DOI: 10.1016/j.ympev.2017.10.024

Andrade, F. C. D., Kramer, K. Z., Monk, J. K., Greenlee, A. J., & Mendenhall, R. (2017). Financial stress and depressive symptoms: the impact of an intervention of the Chicago Earned Income Tax Periodic Payment. Public Health, 153, 99-102. DOI: 10.1016/j.puhe.2017.08.017

Park, C. J., Chen, G., Koo, Y., Lin, P. C. P., Cacioppo, J. A., Prohaska, H., & Ko, C. M. J. (2017). Generation and characterization of an estrogen receptor alpha-iCre knock-in mouse. Genesis, 55(12), [e23084]. DOI: 10.1002/dvg.23084

Cacioppo, J. A., Lin, P. C. P., Hannon, P. R., McDougle, D. R., Gal, A., & Ko, C. (2017). Granulosa cell endothelin-2 expression is fundamental for ovulatory follicle rupture. Scientific Reports, 7(1), [817]. DOI: 10.1038/s41598-017-00943-w

Yu, J., Berga, S. L., Zou, W., Yook, D. G., Pan, J. C., Andrade, A. A., ... Taylor, R. N. (2017). IL-1β Inhibits Connexin 43 and Disrupts Decidualization of Human Endometrial Stromal Cells Through ERK1/2 and p38 MAP Kinase. Endocrinology, 158(12), 4270-4285. DOI: 10.1210/en.2017-00495

Brinkworth, J. F. (2017). Infectious disease and the diversification of the human genome. Human Biology, 89(1), 47-65. DOI: 10.13110/humanbiology.89.1.03

Sánchez-Tapia, M., Aguilar-López, M., Pérez-Cruz, C., Pichardo-Ontiveros, E., Wang, M., Donovan, S. M., ... Torres, N. (2017). Nopal (Opuntia ficus indica) protects from metabolic endotoxemia by modifying gut microbiota in obese rats fed high fat/sucrose diet. Scientific Reports, 7(1), [4716]. DOI: 10.1038/s41598-017-05096-4

Keck, A. S., Sloane, S., Liechty, J. M., Fiese, B. H., & Donovan, S. M. (2017). Productivity, impact, and collaboration differences between transdisciplinary and traditionally trained doctoral students: A comparison of publication patterns. PLoS ONE, 12(12), [e0189391]. DOI: 10.1371/journal.pone.0189391

VanderWaal, K., Gilbertson, M., Okanga, S., Allan, B. F., & Craft, M. E. (2017). Seasonality and pathogen transmission in pastoral cattle contact networks. Royal Society Open Science, 4(12), [170808]. DOI: 10.1098/rsos.170808

Baek, A. E., Yu, Y. R. A., He, S., Wardell, S. E., Chang, C. Y., Kwon, S., ... Nelson, E. R. (2017). The cholesterol metabolite 27 hydroxycholesterol facilitates breast cancer metastasis through its actions on immune cells. Nature Communications, 8(1), [864]. DOI: 10.1038/s41467-017-00910-z

Warren, W. C., Kuderna, L., Alexander, A., Catchen, J., Pérez-Silva, J. G., López-Otín, C., ... Waterhouse, R. M. (2017). The Novel Evolution of the Sperm Whale Genome. Genome biology and evolution, 9(12), 3260-3264. DOI: 10.1093/gbe/evx187

Ryerson, M. R., Richards, M. M., Kvansakul, M., Hawkins, C. J., & Shisler, J. L. (2017). Vaccinia virus encodes a novel inhibitor of apoptosis that associates with the apoptosome. Journal of Virology, 91(23), [e01385-17]. DOI: 10.1128/JVI.01385-17

for The Psychiatric Genomics Consortium Posttraumatic Stress Disorder Workgroup (2017). A putative causal relationship between genetically determined female body shape and posttraumatic stress disorder. Genome Medicine, 9(1), [99]. DOI: 10.1186/s13073-017-0491-4

Rustom, L. E., Boudou, T., Nemke, B. W., Lu, Y., Hoelzle, D. J., Markel, M. D., ... Wagoner Johnson, A. J. (2017). Multiscale Porosity Directs Bone Regeneration in Biphasic Calcium Phosphate Scaffolds. ACS Biomaterials Science and Engineering, 3(11), 2768-2778. DOI: 10.1021/acsbiomaterials.6b00632

Goldenfeld, N. (2017). A statistical mechanical phase transition to turbulence in a model shear flow. Journal of Fluid Mechanics, 830, 1-4. DOI: 10.1017/jfm.2017.597

KEESING, F. E. L. I. C. I. A., OSTFELD, R. I. C. H. A. R. D. S., YOUNG, T. R. U. M. A. N. P., & ALLAN, B. R. I. A. N. F. (2017). Cattle and rainfall affect tick abundance in central Kenya. Parasitology, 1-10. DOI: 10.1017/S003118201700155X

Wei, W., Mesquita, A. C. O., Figueiró, A. D. A., Wu, X., Manjunatha, S., Wickland, D. P., ... Clough, S. J. (2017). Genome-wide association mapping of resistance to a Brazilian isolate of Sclerotinia sclerotiorum in soybean genotypes mostly from Brazil. BMC Genomics, 18(1), [849]. DOI: 10.1186/s12864-017-4160-1

Mudd, A. T., Berding, K., Wang, M., Donovan, S. M., & Dilger, R. N. (2017). Serum cortisol mediates the relationship between fecal Ruminococcus and brain N-acetylaspartate in the young pig. Gut Microbes, 8(6), 589-600. DOI: 10.1080/19490976.2017.1353849

Lescak, E. A., Wund, M. A., Bassham, S., Catchen, J., Prince, D. J., Lucas, R., ... Cresko, W. A. (2017). Ancient three-spined stickleback (Gasterosteus aculeatus) mtDNA lineages are not associated with phenotypic or nuclear genetic variation. Biological Journal of the Linnean Society, 122(3), 579-588. DOI: 10.1093/biolinnean/blx080

Boyd, B. M., Allen, J. M., Nguyen, N. P., Sweet, A. D., Warnow, T., Shapiro, M. D., ... Johnson, K. P. (2017). Phylogenomics using Target-Restricted Assembly Resolves Intrageneric Relationships of Parasitic Lice (Phthiraptera: Columbicola). Systematic Biology, 66(6), 896-911. DOI: 10.1093/sysbio/syx027

Cheng, Q., Juen, J., Bellam, S., Fulara, N., Close, D., Silverstein, J. C., & Schatz, B. (2017). Predicting Pulmonary Function from Phone Sensors. Telemedicine and e-Health, 23(11), 913-919. DOI: 10.1089/tmj.2017.0008

Rahman, H., Currier, E., Johnson, M., Goding, R., Johnson, A. W., & Kersh, M. E. (2017). Primary and Secondary Consequences of Rotator Cuff Injury on Joint Stabilizing Tissues in the Shoulder. Journal of Biomechanical Engineering, 139(11), [110801]. DOI: 10.1115/1.4037917

Matthew, L. E., Piedra, L. M., Wu, C. F., Kramer Diaz, A., Wang, H., Straub, A. P., & Nguyen, T. H. (2017). Social work and engineering: Lessons from a water filtration project in Guatemala. International Social Work, 60(6), 1578-1590. DOI: 10.1177/0020872816655869

Yao, L., Li, H., Martin, R. D., Moreau, C. S., & Malhi, R. S. (2017). Tracing the phylogeographic history of Southeast Asian long-tailed macaques through mitogenomes of museum specimens. Molecular Phylogenetics and Evolution, 116, 227-238. DOI: 10.1016/j.ympev.2017.08.006

Cole, N. C., Wang, A. A., Donovan, S. M., Lee, S. Y., & Teran-Garcia, M. (2017). Variants in Chemosensory Genes Are Associated with Picky Eating Behavior in Preschool-Age Children. Journal of Nutrigenetics and Nutrigenomics, 10(3-4), 84-92. DOI: 10.1159/000478857

Miller, R. J., Han, A., Gates-Tanzer, L. T., Erdman, J. W., Shisler, J. L., Wallig, M. A., & O'Brien, W. D. (2017). Quantitative ultrasound and the pancreas: Demonstration of early detection capability. In 2017 IEEE International Ultrasonics Symposium, IUS 2017 [8091743] IEEE Computer Society. DOI: 10.1109/ULTSYM.2017.8091743

Martínez, O., Bravo Cruz, A., Santos, S., Ramírez, M., Miranda, E., Shisler, J., & Otero, M. (2017). Vaccination with a codon-optimized A27L-containing plasmid decreases virus replication and dissemination after vaccinia virus challenge. Vaccine, 35(44), 6007-6014. DOI: 10.1016/j.vaccine.2017.05.091

Molto, J. E., Loreille, O., Mallott, E. K., Malhi, R. S., Fast, S., Daniels-Higginbotham, J., ... Parr, R. (2017). Complete mitochondrial genome sequencing of a burial from a Romano-Christian cemetery in the Dakhleh Oasis, Egypt: Preliminary indications. Genes, 8(10), [262]. DOI: 10.3390/genes8100262

Athreya, A. P., Banerjee, S. S., Neavin, D., Kaddurah-Daouk, R., Rush, A. J., Frye, M. A., ... Iyer, R. K. (2017). Data-driven longitudinal modeling and prediction of symptom dynamics in major depressive disorder: Integrating factor graphs and learning methods. In 2017 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, CIBCB 2017 [8058559] Institute of Electrical and Electronics Engineers Inc.. DOI: 10.1109/CIBCB.2017.8058559

Banerjee, S. S., El-Hadedy, M., Tan, C. Y., Kalbarczyk, Z. T., Lumetta, S., & Iyer, R. K. (2017). On accelerating pair-HMM computations in programmable hardware. In 2017 27th International Conference on Field Programmable Logic and Applications, FPL 2017 [8056837] Institute of Electrical and Electronics Engineers Inc.. DOI: 10.23919/FPL.2017.8056837

He, S., & Nelson, E. R. (2017). 27-Hydroxycholesterol, an endogenous selective estrogen receptor modulator. Maturitas, 104, 29-35. DOI: 10.1016/j.maturitas.2017.07.014

Paris, J. R., Stevens, J. R., & Catchen, J. M. (2017). Lost in parameter space: a road map for stacks. Methods in Ecology and Evolution, 8(10), 1360-1373. DOI: 10.1111/2041-210X.12775

Moran, R. L., Zhou, M., Catchen, J. M., & Fuller, R. C. (2017). Male and female contributions to behavioral isolation in darters as a function of genetic distance and color distance. Evolution, 71(10), 2428-2444. DOI: 10.1111/evo.13321

Lowe, S. R., Joshi, S., Galea, S., Aiello, A. E., Uddin, M., Koenen, K. C., & Cerdá, M. (2017). Pathways from assaultive violence to post-traumatic stress, depression, and generalized anxiety symptoms through stressful life events: Longitudinal mediation models. Psychological Medicine, 47(14), 2556-2566. DOI: 10.1017/S0033291717001143

Nowak, R. A. (2017). Regression of the male reproductive tract in the female embryo is regulated by the orphan nuclear receptor COUP-TFII. Biology of Reproduction, 97(4), 517-518. DOI: 10.1093/biolre/iox109

Jha, S., Brandt, J., Gentile, A., Kalbarczyk, Z., Bauer, G., Enos, J., ... Kramer, W. (2017). Holistic measurement-driven system assessment. In Proceedings - 2017 IEEE International Conference on Cluster Computing, CLUSTER 2017 (Vol. 2017-September, pp. 797-800). [8049019] Institute of Electrical and Electronics Engineers Inc.. DOI: 10.1109/CLUSTER.2017.124

Titcomb, G., Allan, B. F., Ainsworth, T., Henson, L., Hedlund, T., Pringle, R. M., ... Young, H. S. (2017). Interacting effects of wildlife loss and climate on ticks and tick-borne disease. Proceedings of the Royal Society B: Biological Sciences, 284(1862), [20170475]. DOI: 10.1098/rspb.2017.0475

Athreya, A. P., Armstrong, D., Gundling, W., Wildman, D., Kalbarczyk, Z. T., & Iyer, R. K. (2017). Prediction of adenocarcinoma development using game theory. In 2017 39th Annual International Conference of the IEEE Engineering in Medicine and Biology Society: Smarter Technology for a Healthier World, EMBC 2017 - Proceedings (pp. 1668-1671). [8037161] Institute of Electrical and Electronics Engineers Inc.. DOI: 10.1109/EMBC.2017.8037161

Shpigler, H. Y., Saul, M. C., Corona, F., Block, L., Cash Ahmed, A., Zhao, S. D., & Robinson, G. E. (2017). Deep evolutionary conservation of autism-related genes. Proceedings of the National Academy of Sciences of the United States of America, 114(36), 9653-9658. DOI: 10.1073/pnas.1708127114

Brandt, A. L., Grigorev, K., Afanador-Hernández, Y. M., Paulino, L. A., Murphy, W. J., Núñez, A., ... Roca, A. L. (2017). Mitogenomic sequences support a north–south subspecies subdivision within Solenodon paradoxus. Mitochondrial DNA Part A: DNA Mapping, Sequencing, and Analysis, 28(5), 662-670. DOI: 10.3109/24701394.2016.1167891

VA Mid-Atlantic MIRECC Workgroup, & PGC PTSD Epigenetics Workgroup (2017). Epigenome-wide association of PTSD from heterogeneous cohorts with a common multi-site analysis pipeline. American Journal of Medical Genetics, Part B: Neuropsychiatric Genetics, 174(6), 619-630. DOI: 10.1002/ajmg.b.32568

Donovan, S. M. (2017). Human milk oligosaccharides: Potent weapons in the battle against rotavirus infection. Journal of Nutrition, 147(9), 1605-1606. DOI: 10.3945/jn.117.255836

Stanton, S. C. E., Zilioli, S., Briskin, J. L., Imami, L., Tobin, E. T., Wildman, D. E., ... Slatcher, R. B. (2017). Mothers’ Attachment is Linked to Their Children’s Anti-Inflammatory Gene Expression via Maternal Warmth. Social Psychological and Personality Science, 8(7), 796-805. DOI: 10.1177/1948550616687125

Luchini, V., Musaad, S., Lee, S. Y., & Donovan, S. M. (2017). Observed differences in child picky eating behavior between home and childcare locations. Appetite, 116, 123-131. DOI: 10.1016/j.appet.2017.04.021

Allen, J. M., Boyd, B., Nguyen, N. P., Vachaspati, P., Warnow, T., Huang, D. I., ... Johnson, K. P. (2017). Phylogenomics from whole genome sequences using aTRAM. Systematic Biology, 66(5), 786-798. DOI: 10.1093/sysbio/syw105

Armstrong, D. L., McGowen, M. R., Weckle, A., Pantham, P., Caravas, J., Agnew, D., ... Wildman, D. E. (2017). The core transcriptome of mammalian placentas and the divergence of expression with placental shape. Placenta, 57, 71-78. DOI: 10.1016/j.placenta.2017.04.015

Dong, S., Masalha, N., Plewa, M. J., & Nguyen, T. H. (2017). Toxicity of Wastewater with Elevated Bromide and Iodide after Chlorination, Chloramination, or Ozonation Disinfection. Environmental Science and Technology, 51(16), 9297-9304. DOI: 10.1021/acs.est.7b02345

Varatharajah, Y., Berry, B. M., Kalbarczyk, Z. T., Brinkmann, B. H., Worrell, G. A., & Iyer, R. K. (2017). Inter-ictal Seizure Onset Zone localization using unsupervised clustering and Bayesian Filtering. In 8th International IEEE EMBS Conference on Neural Engineering, NER 2017 (pp. 533-539). [8008407] IEEE Computer Society. DOI: 10.1109/NER.2017.8008407

Gardner, A. M., Muturi, E. J., Overmier, L. D., & Allan, B. F. (2017). Large-Scale Removal of Invasive Honeysuckle Decreases Mosquito and Avian Host Abundance. EcoHealth, 1-12. DOI: 10.1007/s10393-017-1265-6

Campbell-Staton, S. C., Cheviron, Z. A., Rochette, N., Catchen, J., Losos, J. B., & Edwards, S. V. (2017). Winter storms drive rapid phenotypic, regulatory, and genomic shifts in the green anole lizard. Science, 357(6350), 495-498. DOI: 10.1126/science.aam5512

Allan, B. F., Tallis, H., Chaplin-Kramer, R., Huckett, S., Kowal, V. A., Musengezi, J., ... Keesing, F. (2017). Can integrating wildlife and livestock enhance ecosystem services in central Kenya? Frontiers in Ecology and the Environment, 15(6), 328-335. DOI: 10.1002/fee.1501

Dong, S., Nguyen, T. H., & Plewa, M. J. (2017). Comparative mammalian cell cytotoxicity of wastewater with elevated bromide and iodide after chlorination, chloramination, or ozonation. Journal of Environmental Sciences, 58, 296-301. DOI: 10.1016/j.jes.2017.03.030

Sicherer, S. H., Allen, K., Lack, G., Taylor, S. L., Donovan, S. M., & Oria, M. (2017). Critical issues in food allergy: A national academies consensus report. Pediatrics, 140(2), [e20170194]. DOI: 10.1542/peds.2017-0194

Bravo Cruz, A. G., Han, A., Roy, E. J., Guzmán, A. B., Miller, R. J., Driskell, E. A., ... Shisler, J. L. (2017). Deletion of the K1L gene results in a vaccinia virus that is less pathogenic due to muted innate immune responses, yet still elicits protective immunity. Journal of Virology, 91(15), [e00542-17]. DOI: 10.1128/JVI.00542-17

Bayzid, M. S., & Warnow, T. (2017). Gene tree parsimony for incomplete gene trees. In 17th International Workshop on Algorithms in Bioinformatics, WABI 2017 (Vol. 88). [2] Schloss Dagstuhl- Leibniz-Zentrum fur Informatik GmbH, Dagstuhl Publishing. DOI: 10.4230/LIPIcs.WABI.2017.2

Biswas, S., & Shisler, J. L. (2017). Molluscum contagiosum virus MC159 abrogates cIAP1- NEMO interactions and inhibits NEMO polyubiquitination. Journal of Virology, 91(15), [e00276-17]. DOI: 10.1128/JVI.00276-17

Christensen, S., Molloy, E. K., Vachaspati, P., & Warnow, T. (2017). Optimal completion of incomplete gene trees in polynomial time using OCTAL. In 17th International Workshop on Algorithms in Bioinformatics, WABI 2017 (Vol. 88). [27] Schloss Dagstuhl- Leibniz-Zentrum fur Informatik GmbH, Dagstuhl Publishing. DOI: 10.4230/LIPIcs.WABI.2017.27

Zhao, S. D., Cai, T. T., & Li, H. (2017). Optimal detection of weak positive latent dependence between two sequences of multiple tests. Journal of Multivariate Analysis, 160, 169-184. DOI: 10.1016/j.jmva.2017.06.009

Gaither, K., Gomez, R., Akli, L., Mendenhall, R., Bland, M., Fratkin, S., ... DeStefano, L. (2017). Advanced computing for social change - Educating and engaging our students to compete in a changing workforce∗. In PEARC 2017 - Practice and Experience in Advanced Research Computing 2017: Sustainability, Success and Impact (Vol. Part F128771). [a50] Association for Computing Machinery. DOI: 10.1145/3093338.3093391

Schieltz, J. M., Okanga, S., Allan, B. F., & Rubenstein, D. I. (2017). GPS tracking cattle as a monitoring tool for conservation and management. African Journal of Range and Forage Science, 34(3), 173-177. DOI: 10.2989/10220119.2017.1387175

Zhao, S. D., Cai, T. T., Cappola, T. P., Margulies, K. B., & Li, H. (2017). Sparse Simultaneous Signal Detection for Identifying Genetically Controlled Disease Genes. Journal of the American Statistical Association, 112(519), 1032-1046. DOI: 10.1080/01621459.2016.1270825

Kim, J. H., Fiese, B. H., & Donovan, S. M. (2017). Breastfeeding is Natural but Not the Cultural Norm: A Mixed-Methods Study of First-Time Breastfeeding, African American Mothers Participating in WIC. Journal of Nutrition Education and Behavior, 49(7), S151-S161.e1. DOI: 10.1016/j.jneb.2017.04.003

Duka, T., Collins, Z., Anderson, S. M., Raghanti, M. A., Ely, J. J., Hof, P. R., ... Sherwood, C. C. (2017). Divergent lactate dehydrogenase isoenzyme profile in cellular compartments of primate forebrain structures. Molecular and Cellular Neuroscience, 82, 137-142. DOI: 10.1016/j.mcn.2017.04.007

Newell-Fugate, A. E., Lenz, K., Skenandore, C., Nowak, R. A., White, B. A., & Braundmeier-Fleming, A. (2017). Effects of coconut oil on glycemia, inflammation, and urogenital microbial parameters in female Ossabaw mini-pigs. PLoS ONE, 12(7), [e0179542]. DOI: 10.1371/journal.pone.0179542

West, C. E., Kvistgaard, A. S., Peerson, J. M., Donovan, S. M., Peng, Y. M., & Lönnerdal, B. (2017). Effects of osteopontin-enriched formula on lymphocyte subsets in the first 6 months of life: A randomized controlled trial. Pediatric Research, 82(1), 63-71. DOI: 10.1038/pr.2017.77

Dean, C., Fogleman, A. J., Zahnd, W. E., Lipka, A. E., Malhi, R. S., Delfino, K. R., & Jenkins, W. D. (2017). Engaging rural communities in genetic research: challenges and opportunities. Journal of Community Genetics, 8(3), 209-219. DOI: 10.1007/s12687-017-0304-x

Cooke, P. S., Nanjappa, M. K., Ko, C., Prins, G. S., & Hess, R. A. (2017). Estrogens in male physiology. Physiological Reviews, 97(3), 995-1043. DOI: 10.1152/physrev.00018.2016

Baumgarten, S. C., Armouti, M., Ko, C., & Stocco, C. (2017). IGF1R expression in ovarian granulosa cells is essential for steroidogenesis, follicle survival, and fertility in female mice. Endocrinology, 158(7), 2309-2318. DOI: 10.1210/en.2017-00146

Donovan, S. M., & Salas-Salvadó, J. (2017). Introduction to the fourth global summit on the health effects of yogurt. Journal of Nutrition, 147(7), 1449S-1451S. DOI: 10.3945/jn.116.240994

Tan, R., Nguyen, H. H., Foo, E. Y. S., Yau, D. K. Y., Kalbarczyk, Z., Iyer, R. K., & Gooi, H. B. (2017). Modeling and Mitigating Impact of False Data Injection Attacks on Automatic Generation Control. IEEE Transactions on Information Forensics and Security, 12(7), 1609-1624. [7867825]. DOI: 10.1109/TIFS.2017.2676721

Amato, K. R., Van Belle, S., Di Fiore, A., Estrada, A., Stumpf, R., White, B., ... Leigh, S. R. (2017). Patterns in Gut Microbiota Similarity Associated with Degree of Sociality among Sex Classes of a Neotropical Primate. Microbial Ecology, 74(1), 250-258. DOI: 10.1007/s00248-017-0938-6

Boyd, B. M., Allen, J. M., Nguyen, N. P., Vachaspati, P., Quicksall, Z. S., Warnow, T., ... Reed, D. L. (2017). Primates, Lice and Bacteria: Speciation and Genome Evolution in the Symbionts of Hominid Lice. Molecular biology and evolution, 34(7), 1743-1757. DOI: 10.1093/molbev/msx117

Cross, K. J., Clancy, K. B. H., Mendenhall, R., Imoukhuede, P., & Amos, J. R. (2017). The double bind of race and gender: A look into the experiences of women of color in engineering. ASEE Annual Conference and Exposition, Conference Proceedings, 2017-June.

Mendenhall, R., Brown, N. M., & Black, M. L. (2017). The potential of big data in rescuing and recovering black women’s contributions to the Du Bois-Atlanta School and to American sociology. Ethnic and Racial Studies, 40(8), 1231-1233. DOI: 10.1080/01419870.2017.1285421

Meyer, M., Palkopoulou, E., Baleka, S., Stiller, M., Penkman, K. E. H., Alt, K. W., ... Hofreiter, M. (2017). Palaeogenomes of Eurasian straight-tusked elephants challenge the current view of elephant evolution. eLife, 6, [e25413]. DOI: 10.7554/eLife.25413

Comstock, S. S., Li, M., Wang, M., Monaco, M. H., Kuhlenschmidt, T. B., Kuhlenschmidt, M. S., & Donovan, S. M. (2017). Dietary human milk oligosaccharides but not prebiotic oligosaccharides increase circulating natural killer cell and mesenteric lymph node memory T cell populations in noninfected and rotavirus-infected neonatal piglets. Journal of Nutrition, 147(6), 1041-1047. DOI: 10.3945/jn.116.243774

Zhu, R., Zhao, Y. Q., Chen, G., Ma, S., & Zhao, H. (2017). Greedy outcome weighted tree learning of optimal personalized treatment rules. Biometrics, 73(2), 391-400. DOI: 10.1111/biom.12593

Zhao, S. D. (2017). Integrative genetic risk prediction using non-parametric empirical Bayes classification. Biometrics, 73(2), 582-592. DOI: 10.1111/biom.12619

Tuppurainen, E. S. M., Venter, E. H., Shisler, J. L., Gari, G., Mekonnen, G. A., Juleff, N., ... Babiuk, L. A. (2017). Review: Capripoxvirus Diseases: Current Status and Opportunities for Control. Transboundary and Emerging Diseases, 64(3), 729-745. DOI: 10.1111/tbed.12444

Saul, M. C., Seward, C. H., Troy, J. M., Zhang, H., Sloofman, L. G., Lu, X., ... Stubbs, L. (2017). Transcriptional regulatory dynamics drive coordinated metabolic and neural response to social challenge in mice. Genome Research, 27(6), 959-972. DOI: 10.1101/gr.214221.116

Sprabery, R., Estrada, Z. J., Kalbarczyk, Z., Iyer, R., Bobba, R. B., & Campbell, R. (2017). Trustworthy services built on event-based probing for layered defense. In Proceedings - 2017 IEEE International Conference on Cloud Engineering, IC2E 2017 (pp. 215-225). [7923805] Institute of Electrical and Electronics Engineers Inc.. DOI: 10.1109/IC2E.2017.36

Lim, B., Chen, D., An, Y., Kalbarczyk, Z., & Iyer, R. (2017). Attack induced common-mode failures on PLC-based safety system in a nuclear power plant: Practical experience report. In Proceedings - 2017 IEEE 22nd Pacific Rim International Symposium on Dependable Computing, PRDC 2017 (pp. 205-210). [7920614] IEEE Computer Society. DOI: 10.1109/PRDC.2017.34

Parker, C. M., Miller, J. R., Allan, B. F., & Ginsberg, H. (2017). Avian and habitat characteristics influence tick infestation among birds in Illinois. Journal of Medical Entomology, 54(3), 550-558. DOI: 10.1093/jme/tjw235

Goldenfeld, N., & Shih, H. Y. (2017). Erratum to: Turbulence as a Problem in Non-equilibrium Statistical Mechanics (Journal of Statistical Physics, (2017), 167, 3-4, (575-594), 10.1007/s10955-016-1682-x). Journal of Statistical Physics, 167(3-4). DOI: 10.1007/s10955-016-1713-7

Devendran, S., Méndez-García, C., & Ridlon, J. M. (2017). Identification and characterization of a 20β-HSDH from the anaerobic gut bacterium Butyricicoccus desmolans ATCC 43058. Journal of Lipid Research, 58(5), 916-925. DOI: 10.1194/jlr.M074914

Silva, E., Frost, D., Li, L., Bovin, N., & Miller, D. J. (2017). Lactadherin is a candidate oviduct Lewis X trisaccharide receptor on porcine spermatozoa. Andrology, 5(3), 589-597. DOI: 10.1111/andr.12340

Wright, D. B., Laurent, H. K., & Ablow, J. C. (2017). Mothers Who Were Neglected in Childhood Show Differences in Neural Response to Their Infant’s Cry. Child Maltreatment, 22(2), 158-166. DOI: 10.1177/1077559516683503

Goldenfeld, N., & Shih, H. Y. (2017). Turbulence as a Problem in Non-equilibrium Statistical Mechanics. Journal of Statistical Physics, 167(3-4), 575-594. DOI: 10.1007/s10955-016-1682-x

Catchen, J. M., Hohenlohe, P. A., Bernatchez, L., Funk, W. C., Andrews, K. R., & Allendorf, F. W. (2017). Unbroken: RADseq remains a powerful tool for understanding the genetics of adaptation in natural populations. Molecular ecology resources, 17(3), 362-365. DOI: 10.1111/1755-0998.12669

Lindo, J., Achilli, A., Perego, U. A., Archer, D., Valdiosera, C., Petzelt, B., ... Malhi, R. S. (2017). Ancient individuals from the North American Northwest Coast reveal 10,000 years of regional genetic continuity. Proceedings of the National Academy of Sciences of the United States of America, 114(16), 4093-4098. DOI: 10.1073/pnas.1620410114

Estrada, Z. J., Sprabery, R., Yan, L., Yu, Z., Campbell, R., Kalbarczyk, Z., & Iyer, R. K. (2017). Using OS design patterns to provide reliability and security as-a-service for VM-based clouds. In VEE 2017 - Proceedings of the 2017 ACM SIGPLAN/SIGOPS International Conference on Virtual Execution Environments (pp. 157-170). Association for Computing Machinery, Inc. DOI: 10.1145/3050748.3050759

Ruiz-Rodriguez, C. T., Brandt, J. R., Oliverio, R., Ishida, Y., Guedj, N., Garrett, E. F., ... Roca, A. L. (2017). Polymorphisms of the Toll-Like Receptor 2 of Goats (Capra hircus) may be Associated with Somatic Cell Count in Milk. Animal Biotechnology, 28(2), 112-119. DOI: 10.1080/10495398.2016.1232267

Rushmore, J., Allison, A. B., Edwards, E. E., Bagal, U., Altizer, S., Cranfield, M. R., ... Yabsley, M. J. (2017). Erratum to: Screening wild and semi-free ranging great apes for putative sexually transmitted diseases: Evidence of Trichomonadidae infections ((2015), 10.1002/ajp.22442). American Journal of Primatology, 79(4), 1-2. DOI: 10.1002/ajp.22645

Bulgari, O., Dong, X., Roca, A. L., Caroli, A. M., & Loor, J. J. (2017). Innate immune responses induced by lipopolysaccharide and lipoteichoic acid in primary goat mammary epithelial cells. Journal of Animal Science and Biotechnology, 8(1), [29]. DOI: 10.1186/s40104-017-0162-8

Lee, J. S., Yu, X., Wagoner Johnson, A. J., & Murphy, W. L. (2017). Mineral binding peptides with enhanced binding stability in serum. Biomaterials Science, 5(4), 663-668. DOI: 10.1039/c6bm00928j

Branscomb, E., Biancalani, T., Goldenfeld, N., & Russell, M. (2017). Escapement mechanisms and the conversion of disequilibria; the engines of creation. Physics Reports, 677, 1-60. DOI: 10.1016/j.physrep.2017.02.001

Lan, Z. J., Krause, M. S., Redding, S. D., Li, X., Wu, G. Z., Zhou, H. X., ... Lei, Z. M. (2017). Selective deletion of Pten in theca-interstitial cells leads to androgen excess and ovarian dysfunction in mice. Molecular and Cellular Endocrinology, 444, 26-37. DOI: 10.1016/j.mce.2017.01.043

Jafarpour, F., Biancalani, T., & Goldenfeld, N. (2017). Noise-induced symmetry breaking far from equilibrium and the emergence of biological homochirality. Physical Review E, 95(3), [032407]. DOI: 10.1103/PhysRevE.95.032407

Donovan, S. M. (2017). Introduction to the special focus issue on the impact of diet on gut microbiota composition and function and future opportunities for nutritional modulation of the gut microbiome to improve human health. Gut Microbes, 8(2), 75-81. DOI: 10.1080/19490976.2017.1299309

Davis, E. C., Wang, M., & Donovan, S. M. (2017). The role of early life nutrition in the establishment of gastrointestinal microbial composition and function. Gut Microbes, 8(2), 143-171. DOI: 10.1080/19490976.2016.1278104

Uddin, M., Jansen, S., & Telzer, E. H. (2017). Adolescent depression linked to socioeconomic status? Molecular approaches for revealing premorbid risk factors. BioEssays, 39(3), [1600194]. DOI: 10.1002/bies.201600194

Di Martino, C., Sarkar, S., Ganesan, R., Kalbarczyk, Z. T., & Iyer, R. K. (2017). Analysis and diagnosis of SLA violations in a production SaaS cloud. IEEE Transactions on Reliability, 66(1), 54-75. [7835304]. DOI: 10.1109/TR.2016.2635033

Mapes, J., Li, Q., Kannan, A., Anandan, L., Laws, M., Lydon, J. P., ... Bagchi, M. K. (2017). CUZD1 is a critical mediator of the JAK/STAT5 signaling pathway that controls mammary gland development during pregnancy. PLoS Genetics, 13(3), [e1006654]. DOI: 10.1371/journal.pgen.1006654

Boddy, A. M., Harrison, P. W., Montgomery, S. H., Caravas, J. A., Raghanti, M. A., Phillips, K. A., ... Wildman, D. E. (2017). Evidence of a Conserved Molecular Response to Selection for Increased Brain Size in Primates. Genome biology and evolution, 9(3), 700-713. DOI: 10.1093/gbe/evx028

Polak, S. J., Lee, J. S., Murphy, W. L., Tadier, S., Grémillard, L., Lightcap, I. V., & Wagoner Johnson, A. J. (2017). Microstructural control of modular peptide release from microporous biphasic calcium phosphate. Materials Science and Engineering C, 72, 268-277. DOI: 10.1016/j.msec.2016.11.054

Laurent, H. K., Duncan, L. G., Lightcap, A., & Khan, F. (2017). Mindful parenting predicts mothers' and infants' hypothalamic-pituitary-adrenal activity during a dyadic stressor. Developmental Psychology, 53(3), 417-424. DOI: 10.1037/dev0000258

Barakat, R., Lin, P. C. P., Rattan, S., Brehm, E., Canisso, I. F., Abosalum, M. E., ... Ko, C. M. (2017). Prenatal exposure to DEHP induces premature reproductive senescence in male mice. Toxicological Sciences, 156(1), 96-108. DOI: 10.1093/toxsci/kfw248

Chung, K., Formicola, V., Kalbarczyk, Z. T., Iyer, R. K., Withers, A., & Slagell, A. J. (2017). Attacking supercomputers through targeted alteration of environmental control: A data driven case study. In 2016 IEEE Conference on Communications and Network Security, CNS 2016 (pp. 406-410). [7860528] Institute of Electrical and Electronics Engineers Inc.. DOI: 10.1109/CNS.2016.7860528

Shen, Y., Huang, C., Lin, J., Wu, W., Ashbolt, N. J., Liu, W. T., & Nguyen, T. H. (2017). Effect of Disinfectant Exposure on Legionella pneumophila Associated with Simulated Drinking Water Biofilms: Release, Inactivation, and Infectivity. Environmental Science and Technology, 51(4), 2087-2095. DOI: 10.1021/acs.est.6b04754

Israeli-Ruimy, V., Bule, P., Jindou, S., Dassa, B., Moraïs, S., Borovok, I., ... Bayer, E. A. (2017). Complexity of the Ruminococcus flavefaciens FD-1 cellulosome reflects an expansion of family-related protein-protein interactions. Scientific Reports, 7, [42355]. DOI: 10.1038/srep42355

Pham, C., Wang, L., Tak, B. C., Baset, S., Tang, C., Kalbarczyk, Z., & Iyer, R. K. (2017). Failure Diagnosis for Distributed Systems Using Targeted Fault Injection. IEEE Transactions on Parallel and Distributed Systems, 28(2), 503-516. [7484300]. DOI: 10.1109/TPDS.2016.2575829

Mallott, E. K., Garber, P. A., & Malhi, R. S. (2017). Integrating feeding behavior, ecological data, and DNA barcoding to identify developmental differences in invertebrate foraging strategies in wild white-faced capuchins (Cebus capucinus). American Journal of Physical Anthropology, 162(2), 241-254. DOI: 10.1002/ajpa.23113

Polk, J. D., Stumpf, R. M., & Rosengren, K. S. (2017). Limb dominance, foot orientation and functional asymmetry during walking gait. Gait and Posture, 52, 140-146. DOI: 10.1016/j.gaitpost.2016.11.028

Sharif, M., Silva, E., Shah, S. T. A., & Miller, D. J. (2017). Redistribution of soluble N-ethylmaleimide-sensitive-factor attachment protein receptors in mouse sperm membranes prior to the acrosome reaction. Biology of Reproduction, 96(2), 352-365. [bio143735]. DOI: 10.1095/biolreprod.116.143735

Varatharajah, Y., Iyer, R. K., Berry, B. M., Worrell, G. A., & Brinkmann, B. H. (2017). Seizure Forecasting and the Preictal State in Canine Epilepsy. International Journal of Neural Systems, 27(1), [1650046]. DOI: 10.1142/S0129065716500465

Athreya, A. P., Gaglio, A. J., Kalbarczyk, Z. T., Iyer, R. K., Cairns, J., Kalari, K. R., ... Wang, L. (2017). Unsupervised single-cell analysis in triple-negative breast cancer: A case study. In Proceedings - 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016 (pp. 556-563). [7822581] Institute of Electrical and Electronics Engineers Inc.. DOI: 10.1109/BIBM.2016.7822581

Horesh, D., Lowe, S. R., Galea, S., Aiello, A. E., Uddin, M., & Koenen, K. C. (2017). An in-depth look into PTSD-depression comorbidity: A longitudinal study of chronically-exposed Detroit residents. Journal of Affective Disorders, 208, 653-661. DOI: 10.1016/j.jad.2016.08.053

Biancalani, T., Jafarpour, F., & Goldenfeld, N. (2017). Giant Amplification of Noise in Fluctuation-Induced Pattern Formation. Physical Review Letters, 118(1), [018101]. DOI: 10.1103/PhysRevLett.118.018101

Mendenhall, R., Henderson, L., & Scott, B. M. (2017). African American mothers' parenting in the midst of violence and fear: Finding meaning and transcendence. In Black Women's Mental Health: Balancing Strength and Vulnerability (pp. 183-197). State University of New York Press.

Ma, Y., Andrisse, S., Chen, Y., Childress, S., Xue, P., Wang, Z., ... Wu, S. (2017). Androgen receptor in the ovary theca cells plays a critical role in androgen-induced reproductive dysfunction. Endocrinology, 158(1), 98-108. DOI: 10.1210/en.2016-1608

Amarasiri, M., Kitajima, M., Nguyen, T. H., Okabe, S., & Sano, D. (2017). Bacteriophage removal efficiency as a validation and operational monitoring tool for virus reduction in wastewater reclamation: Review. Water Research, 121, 258-269. DOI: 10.1016/j.watres.2017.05.035

Fukagawa, N. K., Anci, K. E., Donovan, S., Miller, J. W., Starke-Reed, P., & Worden, A. (2017). Celebrating 75 years of nutrition reviews. Nutrition Reviews, 75(1). DOI: 10.1093/nutrit/nuw052

Mendenhall, R., Linear, T. I. A., McKee, M. W., Lamers, N. A., & Mouawad, M. B. (2017). Chicago African American mothers' power of resistance: Designing Spaces of Hope in global contexts. Advances in Education in Diverse Communities: Research, Policy and Praxis, 12, 409-428. DOI: 10.1108/S1479-358X20140000012019

Cole, N. C., An, R., Lee, S. Y., & Donovan, S. M. (2017). Correlates of picky eating and food neophobia in young children: A systematic review and meta-analysis. Nutrition Reviews, 75(7), 516-532. DOI: 10.1093/nutrit/nux024

Korczak, R., Kamil, A., Fleige, L., Donovan, S. M., & Slavin, J. L. (2017). Dietary fiber and digestive health in children. Nutrition Reviews, 75(4), 241-259. DOI: 10.1093/nutrit/nuw068

Armstrong, A., Alleyne, A., & Johnson, A. W. (2017). Easy-to-use 3D printer for fabrication of biological scaffolds. In Mechatronics; Estimation and Identification; Uncertain Systems and Robustness; Path Planning and Motion Control; Tracking Control Systems; Multi-Agent and Networked Systems; Manufacturing; Intelligent Transportation and Vehicles; Sensors and Actuators; Diagnostics and Detection; Unmanned, Ground and Surface Robotics; Motion and Vibration Control Applications (Vol. 2). American Society of Mechanical Engineers. DOI: 10.1115/DSCC2017-5147

Sivaguru, M., Kabir, M. M., Gartia, M. R., Biggs, D. S. C., Sivaguru, B. S., Sivaguru, V. A., ... Toussaint, K. C. (2017). Enhancing resolution and contrast in second-harmonic generation microscopy using an advanced maximum likelihood estimation restoration method. In Multiphoton Microscopy in the Biomedical Sciences XVII (Vol. 10069). [1006908] SPIE. DOI: 10.1117/12.2256534

Vachaspati, P., & Warnow, T. (2017). Enhancing searches for optimal trees using SIESTA. In Comparative Genomics - 15th International Workshop, RECOMB CG 2017, Proceedings (Vol. 10562 LNBI, pp. 232-255). (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 10562 LNBI). Springer Verlag. DOI: 10.1007/978-3-319-67979-2_13

Vachaspati, P., & Warnow, T. (2017). FastRFS: Fast and accurate Robinson-Foulds Supertrees using constrained exact optimization. Bioinformatics, 33(5), 631-639. DOI: 10.1093/bioinformatics/btw600

Morris, D. J., & Ridlon, J. M. (2017). Glucocorticoids and gut bacteria: “The GALF Hypothesis” in the metagenomic era. Steroids, 125, 1-13. DOI: 10.1016/j.steroids.2017.06.002

Dong, S., Li, J., Kim, M. H., Park, S. J., Eden, J. G., Guest, J. S., & Nguyen, T. H. (2017). Human health trade-offs in the disinfection of wastewater for landscape irrigation: Microplasma ozonation: Vs. chlorination. Environmental Science: Water Research and Technology, 3(1), 106-118. DOI: 10.1039/c6ew00235h

Donovan, S. M., & Comstock, S. S. (2017). Human milk oligosaccharides influence neonatal mucosal and systemic immunity. Annals of Nutrition and Metabolism, 69(2), 42-51. DOI: 10.1159/000452818

Lu, R., Zhang, C., Piatkovsky, M., Ulbricht, M., Herzberg, M., & Nguyen, T. H. (2017). Improvement of virus removal using ultrafiltration membranes modified with grafted zwitterionic polymer hydrogels. Water Research, 116, 86-94. DOI: 10.1016/j.watres.2017.03.023

Han, K. A., Shin, W. H., Jung, S., Seol, W., Seo, H., Ko, C. M., & Chung, K. C. (2017). Leucine-rich repeat kinase 2 exacerbates neuronal cytotoxicity through phosphorylation of histone deacetylase 3 and histone deacetylation. Human molecular genetics, 26(1), 1-18. DOI: 10.1093/hmg/ddw363

Randrianandrasana, M., Wu, W. Y., Carney, D. A., Johnson, A. J. W., & Berenbaum, M. R. (2017). Structural and mechanical properties of cocoons of Antherina suraka (Saturniidae, Lepidoptera), an endemic species used for silk production in Madagascar. Journal of Insect Science, 17(1). DOI: 10.1093/jisesa/iew112

Li, X., Alemzadeh, H., Chen, D., Kalbarczyk, Z., Iyer, R. K., & Kesavadas, T. (2017). Surgeon Training in Telerobotic Surgery via a Hardware-in-the-Loop Simulator. Journal of Healthcare Engineering, 2017, [6702919]. DOI: 10.1155/2017/6702919

Chen, S., McCutchen, M., Cao, P., Qadeer, S., & Iyer, R. K. (2017). SVAuth – A single-sign-on integration solution with runtime verification. In Runtime Verification - 17th International Conference, RV 2017, Proceedings (Vol. 10548 LNCS, pp. 349-358). (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 10548 LNCS). Springer Verlag. DOI: 10.1007/978-3-319-67531-2_21

Cui, Y., Zhu, R., & Kosorok, M. (2017). Tree based weighted learning for estimating individualized treatment rules with censored data. Electronic Journal of Statistics, 11(2), 3927-3953. DOI: 10.1214/17-EJS1305

Alfaqih, M. A., Nelson, E. R., Liu, W., Safi, R., Jasper, J. S., Macias, E., ... Freedland, S. J. (2017). CYP27A1 loss dysregulates cholesterol homeostasis in prostate cancer. Cancer Research, 77(7), 1662-1673. DOI: 10.1158/0008-5472.CAN-16-2738

Athreya, A. P., Kalari, K. R., Cairns, J., Gaglio, A. J., Wills, Q. F., Niu, N., ... Wang, L. (2017). Model-based unsupervised learning informs metformininduced cell-migration inhibition through an AMPK-independent mechanism in breast cancer. Oncotarget, 8(16), 27199-27215. DOI: 10.18632/oncotarget.16109

Lucas, T., Wegner, R., Pierce, J., Lumley, M. A., Laurent, H. K., & Granger, D. A. (2017). Perceived discrimination, racial identity, and multisystem stress response to social evaluative threat among African American men and women. Psychosomatic Medicine, 79(3), 293-305. DOI: 10.1097/PSY.0000000000000406

Shoaib, T., Carmichael, A., Corman, R. E., Shen, Y., Nguyen, T. H., Ewoldt, R. H., & Espinosa-Marzal, R. M. (2017). Self-adaptive hydrogels to mineralization. Soft Matter, 13(32), 5469-5480. DOI: 10.1039/c7sm01058c

Bauza, V., Ocharo, R. M., Nguyen, T. H., & Guest, J. S. (2017). Soil ingestion is associated with child diarrhea in an urban slum of Nairobi, Kenya. American Journal of Tropical Medicine and Hygiene, 96(3), 569-575. DOI: 10.4269/ajtmh.16-0543

Nelson, E. R. (2018). The significance of cholesterol and its metabolite, 27-hydroxycholesterol in breast cancer. Molecular and Cellular Endocrinology, 466, 73-80. DOI: 10.1016/j.mce.2017.09.021

Min, E., Kandel, M. E., Ko, C. J., Popescu, G., Jung, W., & Best-Popescu, C. (2016). Label-free, multi-scale imaging of ex-vivo mouse brain using spatial light interference microscopy. Scientific Reports, 6, [39667]. DOI: 10.1038/srep39667

Small, C. M., Bassham, S., Catchen, J., Amores, A., Fuiten, A. M., Brown, R. S., ... Cresko, W. A. (2016). The genome of the Gulf pipefish enables understanding of evolutionary innovations. Genome Biology, 17(1), [258]. DOI: 10.1186/s13059-016-1126-6

Athreya, A. P., Ngiam, K. Y., Luo, Z., Tai, E. S., Kalbarczyk, Z., & Iyer, R. K. (2016). Towards longitudinal analysis of a population's electronic health records using factor graphs. In Proceedings - 3rd IEEE/ACM International Conference on Big Data Computing, Applications and Technologies, BDCAT 2016 (pp. 79-86). Association for Computing Machinery, Inc. DOI: 10.1145/3006299.3006309

Castro, J. J., Gomez, A., White, B. A., Mangian, H. J., Loften, J. R., & Drackley, J. K. (2016). Changes in the intestinal bacterial community, short-chain fatty acid profile, and intestinal development of preweaned Holstein calves. 1. Effects of prebiotic supplementation depend on site and age. Journal of Dairy Science, 99(12), 9682-9702. DOI: 10.3168/jds.2016-11006

Castro, J. J., Gomez, A., White, B., Loften, J. R., & Drackley, J. K. (2016). Changes in the intestinal bacterial community, short-chain fatty acid profile, and intestinal development of preweaned Holstein calves. 2. Effects of gastrointestinal site and age. Journal of Dairy Science, 99(12), 9703-9715. DOI: 10.3168/jds.2016-11007

Oakley, O. R., Kim, K. J., Lin, P. C., Barakat, R., Cacioppo, J. A., Li, Z., ... Ko, C. M. (2016). Estradiol synthesis in gut-associated lymphoid tissue: Leukocyte regulation by a sexually monomorphic system. Endocrinology, 157(12), 4579-4587. DOI: 10.1210/en.2016-1391

Bustamante, A. C., Aiello, A. E., Galea, S., Ratanatharathorn, A., Noronha, C., Wildman, D. E., & Uddin, M. (2016). Glucocorticoid receptor DNA methylation, childhood maltreatment and major depression. Journal of Affective Disorders, 206, 181-188. DOI: 10.1016/j.jad.2016.07.038

Wildman, D. E. (2016). IFPA award in placentology lecture: Phylogenomic origins and evolution of the mammalian placenta. Placenta, 48, S31-S39. DOI: 10.1016/j.placenta.2016.04.004

Wang, M., Monaco, M. H., & Donovan, S. M. (2016). Impact of early gut microbiota on immune and metabolic development and function. Seminars in Fetal and Neonatal Medicine, 21(6), 380-387. DOI: 10.1016/j.siny.2016.04.004

Yu, N., Lee, T. G., Rosa, D. P., Hudson, M., & Diers, B. W. (2016). Impact of Rhg1 copy number, type, and interaction with Rhg4 on resistance to Heterodera glycines in soybean. Theoretical and Applied Genetics, 129(12), 2403-2412. DOI: 10.1007/s00122-016-2779-y

Feng, Z., Lu, R., Yuan, B., Zhou, Z., Wu, Q., & Nguyen, T. H. (2016). Influence of solution chemistry on the inactivation of particle-associated viruses by UV irradiation. Colloids and Surfaces B: Biointerfaces, 148, 622-628. DOI: 10.1016/j.colsurfb.2016.09.025

Kruger Ben Shabat, S., Sasson, G., Doron-Faigenboim, A., Durman, T., Yaacoby, S., Berg Miller, M. E., ... Mizrahi, I. (2016). Specific microbiome-dependent mechanisms underlie the energy harvest efficiency of ruminants. ISME Journal, 10(12), 2958-2972. DOI: 10.1038/ismej.2016.62

Durgam, S. S., Stewart, A. A., Sivaguru, M., Wagoner Johnson, A. J., & Stewart, M. C. (2016). Tendon-derived progenitor cells improve healing of collagenase-induced flexor tendinitis. Journal of Orthopaedic Research, 34(12), 2162-2171. DOI: 10.1002/jor.23251

Li, X., Alemzadeh, H., Chen, D., Kalbarczyk, Z., Iyer, R. K., & Kesavadas, T. (2016). A hardware-in-the-loop simulator for safety training in robotic surgery. In IROS 2016 - 2016 IEEE/RSJ International Conference on Intelligent Robots and Systems (Vol. 2016-November, pp. 5291-5296). [7759778] Institute of Electrical and Electronics Engineers Inc.. DOI: 10.1109/IROS.2016.7759778

Snyder-Mackler, N., Sanz, J., Kohn, J. N., Brinkworth, J. F., Morrow, S., Shaver, A. O., ... Tung, J. (2016). Social status alters immune regulation and response to infection in macaques. Science, 354(6315), 1041-1045. DOI: 10.1126/science.aah3580

Lindo, J., Huerta-Sánchez, E., Nakagome, S., Rasmussen, M., Petzelt, B., Mitchell, J., ... Malhi, R. S. (2016). A time transect of exomes from a Native American population before and after European contact. Nature Communications, 7, [13175]. DOI: 10.1038/ncomms13175

Nelson, E. R., & Habibi, H. R. (2016). Thyroid hormone regulates vitellogenin by inducing estrogen receptor alpha in the goldfish liver. Molecular and Cellular Endocrinology, 436, 259-267. DOI: 10.1016/j.mce.2016.08.045

Uricchio, L. H., Warnow, T., & Rosenberg, N. A. (2016). An analytical upper bound on the number of loci required for all splits of a species tree to appear in a set of gene trees. BMC Bioinformatics, 17, [417]. DOI: 10.1186/s12859-016-1266-4

Nguyen, N. P., Nute, M., Mirarab, S., & Warnow, T. (2016). HIPPI: Highly accurate protein family classification with ensembles of HMMs. BMC Genomics, 17, [765]. DOI: 10.1186/s12864-016-3097-0

Nute, M., & Warnow, T. (2016). Scaling statistical multiple sequence alignment to large datasets. BMC Genomics, 17, [764]. DOI: 10.1186/s12864-016-3101-8

Xue, C., & Goldenfeld, N. (2016). Stochastic predator-prey dynamics of transposons in the human genome. Physical Review Letters, 117(20), [208101]. DOI: 10.1103/PhysRevLett.117.208101

Dong, S., Lu, J., Plewa, M. J., & Nguyen, T. H. (2016). Comparative Mammalian Cell Cytotoxicity of Wastewaters for Agricultural Reuse after Ozonation. Environmental Science and Technology, 50(21), 11752-11759. DOI: 10.1021/acs.est.6b04796

Vlčková, K., Gomez, A., Petrželková, K. J., Whittier, C. A., Todd, A. F., Yeoman, C. J., ... Leigh, S. R. (2016). Effect of Antibiotic Treatment on the Gastrointestinal Microbiome of Free-Ranging Western Lowland Gorillas (Gorilla g. gorilla). Microbial Ecology, 72(4), 943-954. DOI: 10.1007/s00248-016-0745-5

Brannon, P. M., Weaver, C. M., Anderson, C. A. M., Donovan, S. M., Murphy, S. P., & Yaktine, A. L. (2016). Scanning for new evidence to prioritize updates to the Dietary Reference Intakes: Case studies for thiamin and phosphorus1,2. American Journal of Clinical Nutrition, 104(5), 1366-1377. DOI: 10.3945/ajcn.115.128256

Stephens, Z. D., Hudson, M. E., Mainzer, L. S., Taschuk, M., Weber, M. R., & Iyer, R. K. (2016). Simulating next-generation sequencing datasets from empirical mutation and sequencing models. PLoS ONE, 11(11), [e0167047]. DOI: 10.1371/journal.pone.0167047

Comstock, S. S., & Donovan, S. M. (2016). Human Milk Oligosaccharides as Modulators of Intestinal and Systemic Immunity. In Prebiotics and Probiotics in Human Milk: Origins and Functions of Milk-Borne Oligosaccharides and Bacteria (pp. 223-248). Elsevier Inc.. DOI: 10.1016/B978-0-12-802725-7.00008-7

Rustom, L. E., Boudou, T., Lou, S., Pignot-Paintrand, I., Nemke, B. W., Lu, Y., ... Wagoner Johnson, A. J. (2016). Micropore-induced capillarity enhances bone distribution in vivo in biphasic calcium phosphate scaffolds. Acta Biomaterialia, 44, 144-154. DOI: 10.1016/j.actbio.2016.08.025

Cheng, Q., Shang, J., Juen, J., Han, J., & Schatz, B. (2016). Mining discriminative patterns to predict health status for cardiopulmonary patients. In ACM-BCB 2016 - 7th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics (pp. 41-49). Association for Computing Machinery, Inc. DOI: 10.1145/2975167.2975171

Lee, T. G., Diers, B. W., & Hudson, M. E. (2016). An efficient method for measuring copy number variation applied to improvement of nematode resistance in soybean. Plant Journal, 88(1), 143-153. DOI: 10.1111/tpj.13240

Zhu, R., Zhao, Q., Zhao, H., & Ma, S. (2016). Integrating multidimensional omics data for cancer outcome. Biostatistics, 17(4), 605-618. DOI: 10.1093/biostatistics/kxw010

Li, Y., Adur, M. K., Kannan, A., Davila, J., Zhao, Y., Nowak, R. A., ... Li, Q. (2016). Progesterone alleviates Endometriosis via inhibition of uterine cell proliferation, inflammation and angiogenesis in an immunocompetent mouse model. PLoS ONE, 11(10), [e0165347]. DOI: 10.1371/journal.pone.0165347

Bravo Cruz, A. G., & Shisler, J. L. (2016). Vaccinia virus K1 ankyrin repeat protein inhibits NF-κB activation by preventing RelA acetylation. Journal of General Virology, 97(10), 2691-2702. [000576]. DOI: 10.1099/jgv.0.000576

Krishna, V. B., Lee, K., Weaver, G. A., Iyer, R. K., & Sanders, W. H. (2016). F-DETA: A framework for detecting electricity theft attacks in smart grids. In Proceedings - 46th Annual IEEE/IFIP International Conference on Dependable Systems and Networks, DSN 2016 (pp. 407-418). [7579759] Institute of Electrical and Electronics Engineers Inc.. DOI: 10.1109/DSN.2016.44

Alemzadeh, H., Chen, D., Li, X., Kesavadas, T., Kalbarczyk, Z. T., & Iyer, R. K. (2016). Targeted attacks on teleoperated surgical robots: Dynamic model-based detection and mitigation. In Proceedings - 46th Annual IEEE/IFIP International Conference on Dependable Systems and Networks, DSN 2016 (pp. 395-406). [7579758] Institute of Electrical and Electronics Engineers Inc.. DOI: 10.1109/DSN.2016.43

Wei, J., McFarlin, B. L., & Wagoner Johnson, A. J. (2016). A multi-indent approach to detect the surface of soft materials during nanoindentation. Journal of Materials Research, 31(17), 2672-2685. DOI: 10.1557/jmr.2016.265

Malhi, R. S. (2016). 2015 Gabriel W. Lasker Award. Human Biology, 88(4).

Bayles, B. R., Brauman, K. A., Adkins, J. N., Allan, B. F., Ellis, A. M., Goldberg, T. L., ... Ristaino, J. B. (2016). Ecosystem Services Connect Environmental Change to Human Health Outcomes. EcoHealth, 13(3), 443-449. DOI: 10.1007/s10393-016-1137-5

Ishida, Y., Van Coeverden de Groot, P. J., Leggett, K. E. A., Putnam, A. S., Fox, V. E., Lai, J., ... Roca, A. L. (2016). Genetic connectivity across marginal habitats: the elephants of the Namib Desert. Ecology and Evolution, 6(17), 6189-6201. DOI: 10.1002/ece3.2352

Hughes, C. E., Rogers, M. P., Owings, A. C., Petzelt, B., Mitchell, J., Harry, H., ... Malhi, R. S. (2016). Genetic structure of first nation communities in the pacific northwest. Human Biology, 88(4), 251-263. DOI: 10.13110/humanbiology.88.4.0251

Hoffberg, S. L., Kieran, T. J., Catchen, J. M., Devault, A., Faircloth, B. C., Mauricio, R., & Glenn, T. C. (2016). RADcap: sequence capture of dual-digest RADseq libraries with identifiable duplicates and reduced missing data. Molecular ecology resources, 16(5), 1264-1278. DOI: 10.1111/1755-0998.12566

Pai, A. A., Baharian, G., Pagé Sabourin, A., Brinkworth, J. F., Nédélec, Y., Foley, J. W., ... Barreiro, L. B. (2016). Widespread Shortening of 3’ Untranslated Regions and Increased Exon Inclusion Are Evolutionarily Conserved Features of Innate Immune Responses to Infection. PLoS Genetics, 12(9), [e1006338]. DOI: 10.1371/journal.pgen.1006338

Hansen, T. A., Mollerup, S., Nguyen, N. P., White, N. E., Coghlan, M., Alquezar-Planas, D. E., ... Hansen, A. J. (2016). High diversity of picornaviruses in rats from different continents revealed by deep sequencing. Emerging microbes & infections, 5(8), e90. DOI: 10.1038/emi.2016.90

Saltzman, J. A., Pineros-Leano, M., Liechty, J. M., Bost, K. K., Fiese, B. H., Harrison, K., ... the STRONG Kids Team (2016). Eating, feeding, and feeling: Emotional responsiveness mediates longitudinal associations between maternal binge eating, feeding practices, and child weight. International Journal of Behavioral Nutrition and Physical Activity, 13(1), [89]. DOI: 10.1186/s12966-016-0415-5

Gates, L. T., & Shisler, J. L. (2016). CFLIPL Interrupts IRF3-CBP-DNA interactions to inhibit IRF3-driven transcription. Journal of Immunology, 197(3), 923-933. DOI: 10.4049/jimmunol.1502611

Bennett, G., Malone, M., Sauther, M. L., Cuozzo, F. P., White, B., Nelson, K. E., ... Amato, K. R. (2016). Host age, social group, and habitat type influence the gut microbiota of wild ring-tailed lemurs (Lemur catta). American journal of primatology, 78(8), 883-892. DOI: 10.1002/ajp.22555

Baek, A. E., & Nelson, E. R. (2016). The Contribution of Cholesterol and Its Metabolites to the Pathophysiology of Breast Cancer. Hormones and Cancer, 7(4), 219-228. DOI: 10.1007/s12672-016-0262-5

Gugala, N. A., Ishida, Y., Georgiadis, N. J., & Roca, A. L. (2016). Development and characterization of microsatellite markers in the African forest elephant (Loxodonta cyclotis). BMC Research Notes, 9(1), [364]. DOI: 10.1186/s13104-016-2167-3

Ma, L., Liu, T. W., Wallig, M. A., Dobrucki, I. T., Dobrucki, L. W., Nelson, E. R., ... Smith, A. M. (2016). Efficient Targeting of Adipose Tissue Macrophages in Obesity with Polysaccharide Nanocarriers. ACS Nano, 10(7), 6952-6962. DOI: 10.1021/acsnano.6b02878

Mendenhall, R., Van Moer, M., McKee, M., Brown, N., Lourentzou, I., Zerai, A., ... Flynn, K. (2016). Rescuing lost history: Using big data to recover black women's lived experiences. In Proceedings of XSEDE 2016: Diversity, Big Data, and Science at Scale (Vol. 17-21-July-2016). [a56] Association for Computing Machinery. DOI: 10.1145/2949550.2949642

Lewis, J. A., Mendenhall, R., Harwood, S. A., & Browne Huntt, M. (2016). "Ain't I a Woman?": Perceived Gendered Racial Microaggressions Experienced by Black Women. Counseling Psychologist, 44(5), 758-780. DOI: 10.1177/0011000016641193

Kumar, I., Swaminathan, K., Hudson, K., & Hudson, M. E. (2016). Evolutionary divergence of phytochrome protein function in Zea mays PIF3 signaling. Journal of Experimental Botany, 67(14), 4231-4240. DOI: 10.1093/jxb/erw217

Guerra, A. S., Eckerlin, R. P., Dowling, A. P. G., Durden, L. A., Robbins, R. G., Dittmar, K., ... Young, H. S. (2016). Host-Parasite Associations in Small Mammal Communities in Semiarid Savanna Ecosystems of East Africa. Journal of Medical Entomology, 53(4), 851-860. DOI: 10.1093/jme/tjw048

Gal, A., Lin, P. C., Cacioppo, J. A., Hannon, P. R., Mahoney, M. M., Wolfe, A., ... Ko, C. M. (2016). Loss of Fertility in the Absence of Progesterone Receptor Expression in Kisspeptin Neurons of Female Mice. PLoS ONE, 11(7), [e0159534]. DOI: 10.1371/journal.pone.0159534

Stumpf, R. M., Gomez, A., Amato, K. R., Yeoman, C. J., Polk, J. D., Wilson, B. A., ... Leigh, S. R. (2016). Microbiomes, metagenomics, and primate conservation: New strategies, tools, and applications. Biological Conservation, 199, 56-66. DOI: 10.1016/j.biocon.2016.03.035

Hong, Z., Kalbarczyk, Z., & Iyer, R. K. (2016). A Data-Driven Approach to Soil Moisture Collection and Prediction. In 2016 IEEE International Conference on Smart Computing, SMARTCOMP 2016 [7501673] Institute of Electrical and Electronics Engineers Inc.. DOI: 10.1109/SMARTCOMP.2016.7501673

Kim, N. H., Leea, G., Sherer, N. A., Martini, K. M., Goldenfeld, N., & Kuhlman, T. E. (2016). Real-time transposable element activity in individual live cells. Proceedings of the National Academy of Sciences of the United States of America, 113(26), 7278-7283. DOI: 10.1073/pnas.1601833113

Hüter, C., Friák, M., Weikamp, M., Neugebauer, J., Goldenfeld, N., Svendsen, B., & Spatschek, R. (2016). Nonlinear elastic effects in phase field crystal and amplitude equations: Comparison to ab initio simulations of bcc metals and graphene. Physical Review B, 93(21), [214105]. DOI: 10.1103/PhysRevB.93.214105

Despres, J., Forano, E., Lepercq, P., Comtet-Marre, S., Jubelin, G., Yeoman, C. J., ... Mosoni, P. (2016). Erratum to Unraveling the pectinolytic function of Bacteroides xylanisolvens using a RNA-seq approach and mutagenesis [BMC Genomics, (2016), 17] DOI: 10.1186/s12864-016-2472-1. BMC Genomics, 17(1), [426]. DOI: 10.1186/s12864-016-2758-3

Banerjee, S. S., Athreya, A. P., Mainzer, L. S., Jongeneel, C. V., Hwu, W. M., Kalbarczyk, Z. T., & Iyer, R. K. (2016). Efficient and scalable workflows for genomic analyses. In DIDC 2016 - Proceedings of the ACM International Workshop on Data-Intensive Distributed Computing (pp. 27-36). Association for Computing Machinery, Inc. DOI: 10.1145/2912152.2912156

Yu, J., Berga, S. L., Johnston-MacAnanny, E. B., Sidell, N., Bagchi, I. C., Bagchi, M. K., & Taylor, R. N. (2016). Endometrial stromal decidualization responds reversibly to hormone stimulation and withdrawal. Endocrinology, 157(6), 2432-2446. DOI: 10.1210/en.2015-1942

Braasch, I., Gehrke, A. R., Smith, J. J., Kawasaki, K., Manousaki, T., Pasquier, J., ... Volff, J. N. (2016). Erratum: The spotted gar genome illuminates vertebrate evolution and facilitates human-teleost comparisons (Nature Genetics (2016) 48 (427-437)). Nature Genetics, 48(6). DOI: 10.1038/ng0616-700c

Baker, J. L., Dunn, K. A., Mingrone, J., Wood, B. A., Karpinski, B. A., Sherwood, C. C., ... Bielawski, J. P. (2016). Functional divergence of the nuclear receptor NR2C1 as a modulator of pluripotentiality during hominid evolution. Genetics, 203(2), 905-922. DOI: 10.1534/genetics.115.183889

Donovan, S. M., & Lönnerdal, B. (2016). Introduction: Emerging Roles of Bioactive Components in Pediatric Nutrition. Journal of Pediatrics, 173, S1-S3. DOI: 10.1016/j.jpeds.2016.02.069

Hughes, C. E., Hunter, C. D., Vargas, P. T., Schlosser, M. D., & Malhi, R. S. (2016). Police Endorse Color-Blind Racial Beliefs More Than Laypersons. Race and Social Problems, 8(2), 160-170. DOI: 10.1007/s12552-016-9170-0

Musaad, S. M. A., Donovan, S. M., & Fiese, B. H. (2016). The Independent and Cumulative Effect of Early Life Risk Factors on Child Growth: A Preliminary Report. Childhood Obesity, 12(3), 193-201. DOI: 10.1089/chi.2016.0018

Donovan, S. M. (2016). The Role of Lactoferrin in Gastrointestinal and Immune Development and Function: A Preclinical Perspective. Journal of Pediatrics, 173, S16-S28. DOI: 10.1016/j.jpeds.2016.02.072

Tan, R., Nguyen, H. H., Foo, E. Y. S., Dong, X., Yau, D. K. Y., Kalbarczyk, Z., ... Gooi, H. B. (2016). Optimal False Data Injection Attack against Automatic Generation Control in Power Grids. In 2016 ACM/IEEE 7th International Conference on Cyber-Physical Systems, ICCPS 2016 - Proceedings [7479109] Institute of Electrical and Electronics Engineers Inc.. DOI: 10.1109/ICCPS.2016.7479109

Braundmeier-Fleming, A., Russell, N. T., Yang, W., Nas, M. Y., Yaggie, R. E., Berry, M., ... Klumpp, D. J. (2016). Stool-based biomarkers of interstitial cystitis/bladder pain syndrome. Scientific Reports, 6, [26083]. DOI: 10.1038/srep26083

Jenkins, W. D., Lipka, A. E., Fogleman, A. J., Delfino, K. R., Malhi, R. S., Hendricks, B., & Cristescu, M. E. (2016). Variance in disease risk: Rural populations and genetic diversity. Genome, 59(7), 519-525. DOI: 10.1139/gen-2016-0077

Despres, J., Forano, E., Lepercq, P., Comtet-Marre, S., Jubelin, G., Chambon, C., ... Mosoni, P. (2016). Xylan degradation by the human gut Bacteroides xylanisolvens XB1AT involves two distinct gene clusters that are linked at the transcriptional level. BMC Genomics, 17(1), [326]. DOI: 10.1186/s12864-016-2680-8

Feinstein, L., Ferrando-Martínez, S., Leal, M., Zhou, X., Sempowski, G. D., Wildman, D. E., ... Aiello, A. E. (2016). Population Distributions of Thymic Function in Adults: Variation by Sociodemographic Characteristics and Health Status. Biodemography and Social Biology, 62(2), 208-221. DOI: 10.1080/19485565.2016.1172199

Ridlon, J. M., Wolf, P. G., & Gaskins, H. R. (2016). Taurocholic acid metabolism by gut microbes and colon cancer. Gut Microbes, 7(3), 201-215. DOI: 10.1080/19490976.2016.1150414

Welch, L., Brooksbank, C., Schwartz, R., Morgan, S. L., Gaeta, B., Kilpatrick, A. M., ... Warnow, T. (2016). Applying, Evaluating and Refining Bioinformatics Core Competencies (An Update from the Curriculum Task Force of ISCB’s Education Committee). PLoS Computational Biology, 12(5), [e1004943]. DOI: 10.1371/journal.pcbi.1004943

Li, Q., Davila, J., Kannan, A., Flaws, J. A., Bagchi, M. K., & Bagchi, I. C. (2016). Chronic exposure to bisphenol a affects uterine function during early pregnancy in mice. Endocrinology, 157(5), 1764-1774. DOI: 10.1210/en.2015-2031

Shim, J. E., Kim, J., Lee, Y., Harrison, K., Bost, K., McBride, B., ... Fies, B. (2016). Fruit and Vegetable Intakes of Preschool Children Are Associated With Feeding Practices Facilitating Internalization of Extrinsic Motivation. Journal of Nutrition Education and Behavior, 48(5), 311-317.e1. DOI: 10.1016/j.jneb.2016.01.003

La, E. M., Lich, K. H., Wells, R., Ellis, A. R., Swartz, M. S., Zhu, R., & Morrissey, J. P. (2016). Increasing access to state psychiatric hospital Beds: Exploring supply-side solutions. Psychiatric Services, 67(5), 523-528. DOI: 10.1176/appi.ps.201400570

Aiello, A. E., Dowd, J. B., Jayabalasingham, B., Feinstein, L., Uddin, M., Simanek, A. M., ... Pawelec, G. (2016). PTSD is associated with an increase in aged T cell phenotypes in adults living in Detroit. Psychoneuroendocrinology, 67, 133-141. DOI: 10.1016/j.psyneuen.2016.01.024

Springer, Y. P., Hoekman, D., Johnson, P. T. J., Duffy, P. A., Hufft, R. A., Barnett, D. T., ... Yabsley, M. J. (2016). Tick-, mosquito-, and rodent-borne parasite sampling designs for the National Ecological Observatory Network. Ecosphere, 7(5), [e01271]. DOI: 10.1002/ecs2.1271

Nguyen, N. P., Warnow, T., Pop, M., & White, B. (2016). A perspective on 16S rRNA operational taxonomic unit clustering using sequence similarity. npj Biofilms and Microbiomes, 2, [16004]. DOI: 10.1038/npjbiofilms.2016.4

Gall, A. M., Shisler, J. L., & Mariñas, B. J. (2016). Inactivation Kinetics and Replication Cycle Inhibition of Adenovirus by Monochloramine. Environmental Science and Technology Letters, 3(4), 185-189. DOI: 10.1021/acs.estlett.6b00079

Alemzadeh, H., Raman, J., Leveson, N., Kalbarczyk, Z., & Iyer, R. K. (2016). Adverse events in robotic surgery: A retrospective study of 14 years of fda data. PLoS ONE, 11(4), [e0151470]. DOI: 10.1371/journal.pone.0151470

Alfano, N., Kolokotronis, S. O., Tsangaras, K., Roca, A. L., Xu, W., Eiden, M. V., & Greenwood, A. D. (2016). Erratum to Episodic diversifying selection shaped the genomes of gibbon ape leukemia virus and related gammaretroviruses [J Virol, 90, 4 (2016) 1757-1772]. Journal of Virology, 90(8), 4254. DOI: 10.1128/JVI.00210-16

Saltzman, J. A., Liechty, J. M., Bost, K. K., Fiese, B. H., Harrison, K., Bost, K., ... the STRONG Kids Program (2016). Parent binge eating and restrictive feeding practices: Indirect effects of parent's responses to child's negative emotion. Eating Behaviors, 21, 150-154. DOI: 10.1016/j.eatbeh.2016.02.001

Braasch, I., Gehrke, A. R., Smith, J. J., Kawasaki, K., Manousaki, T., Pasquier, J., ... Volff, J. N. (2016). The spotted gar genome illuminates vertebrate evolution and facilitates human-teleost comparisons. Nature Genetics, 48(4), 427-437. DOI: 10.1038/ng.3526

Lu, R., Li, Q., & Nguyen, T. H. (2016). Random sequential adsorption of human adenovirus 2 onto polyvinylidene fluoride surface influenced by extracellular polymeric substances. Journal of Colloid and Interface Science, 466, 120-127. DOI: 10.1016/j.jcis.2015.12.017

Haward, S. J., Poole, R. J., Alves, M. A., Oliveira, P. J., Goldenfeld, N., & Shen, A. Q. (2016). Tricritical spiral vortex instability in cross-slot flow. Physical Review E, 93(3), [031101]. DOI: 10.1103/PhysRevE.93.031101

Gomez, A., Petrzelkova, K. J., Burns, M. B., Yeoman, C. J., Amato, K. R., Vlckova, K., ... Blekhman, R. (2016). Gut Microbiome of Coexisting BaAka Pygmies and Bantu Reflects Gradients of Traditional Subsistence Patterns. Cell Reports, 14(9), 2142-2153. DOI: 10.1016/j.celrep.2016.02.013

Wingo, A. P., Almli, L. M., Stevens, J. S., Klengel, T., Uddin, M., Li, Y., ... Ressler, K. J. (2016). Erratum: DICER1 and microRNA regulation in post-traumatic stress disorder with comorbid depression (Nature Communications (2015) 6 (10106) DOI: 10.1038/ncomms10106). Nature Communications, 7, [10958]. DOI: 10.1038/ncomms10958

Liang, X., Chang, L. C., Massoudieh, A., Lu, N., & Nguyen, T. H. (2016). Quantitative inference of bacterial motility behavior. In Proceedings - 2015 International Conference on Computational Science and Computational Intelligence, CSCI 2015 (pp. 368-373). [7424119] Institute of Electrical and Electronics Engineers Inc.. DOI: 10.1109/CSCI.2015.97

Yu, Y. R. A., O'Koren, E. G., Hotten, D. F., Kan, M. J., Kopin, D., Nelson, E. R., ... Gunn, M. D. (2016). A protocol for the comprehensive flow cytometric analysis of immune cells in normal and inflamed murine non-lymphoid tissues. PLoS ONE, 11(3), [e0150606]. DOI: 10.1371/journal.pone.0150606

Gall, A. M., Shisler, J. L., & Mariñas, B. J. (2016). Characterizing Bacteriophage PR772 as a Potential Surrogate for Adenovirus in Water Disinfection: A Comparative Analysis of Inactivation Kinetics and Replication Cycle Inhibition by Free Chlorine. Environmental Science and Technology, 50(5), 2522-2529. DOI: 10.1021/acs.est.5b04713

Shih, H. Y., Hsieh, T. L., & Goldenfeld, N. (2016). Ecological collapse and the emergence of travelling waves at the onset of shear turbulence. Nature Physics, 12(3), 245-248. DOI: 10.1038/nphys3548

Darfour-Oduro, K. A., Megens, H. J., Roca, A., Groenen, M. A. M., & Schook, L. B. (2016). Evidence for adaptation of porcine Toll-like receptors. Immunogenetics, 68(3), 179-189. DOI: 10.1007/s00251-015-0892-8

Chung, K., Kamhoua, C. A., Kwiat, K. A., Kalbarczyk, Z. T., & Iyer, R. K. (2016). Game Theory with Learning for Cyber Security Monitoring. In Proceedings - 17th IEEE International Symposium on High Assurance Systems Engineering, HASE 2016 (Vol. 2016-March, pp. 1-8). [7423125] IEEE Computer Society. DOI: 10.1109/HASE.2016.48

Brown, N. M., Mendenhall, R., Black, M. L., Moer, M. V., Zerai, A., & Flynn, K. (2016). Mechanized Margin to Digitized Center: Black Feminism's Contributions to Combatting Erasure within the Digital Humanities. International Journal of Humanities & Arts Computing: A Journal of Digital Humanities, 10(1), 110-125. DOI: 10.3366/ijhac.2016.0163

Amato, K. R., Martinez-Mota, R., Righini, N., Raguet-Schofield, M., Corcione, F. P., Marini, E., ... Leigh, S. R. (2016). Phylogenetic and ecological factors impact the gut microbiota of two Neotropical primate species. Oecologia, 180(3), 717-733. DOI: 10.1007/s00442-015-3507-z

Bhurke, A. S., Bagchi, I. C., & Bagchi, M. K. (2016). Progesterone-Regulated Endometrial Factors Controlling Implantation. American Journal of Reproductive Immunology, 75(3), 237-245. DOI: 10.1111/aji.12473

Okur, H. S. K., Das, A., Taylor, R. N., Bagchi, I. C., & Bagchi, M. K. (2016). Roles of estrogen receptor-α and the coactivator MED1 during human endometrial decidualization. Molecular Endocrinology, 30(3), 302-313. DOI: 10.1210/me.2015-1274

Despres, J., Forano, E., Lepercq, P., Comtet-Marre, S., Jubelin, G., Yeoman, C. J., ... Mosoni, P. (2016). Unraveling the pectinolytic function of Bacteroides xylanisolvens using a RNA-seq approach and mutagenesis. BMC Genomics, 17(1), [147]. DOI: 10.1186/s12864-016-2472-1

Shen, Y., Huang, C., Monroy, G. L., Janjaroen, D., Derlon, N., Lin, J., ... Nguyen, T. H. (2016). Response of Simulated Drinking Water Biofilm Mechanical and Structural Properties to Long-Term Disinfectant Exposure. Environmental Science and Technology, 50(4), 1779-1787. DOI: 10.1021/acs.est.5b04653

Darfour-Oduro, K. A., Megens, H. J., Roca, A. L., Groenen, M. A. M., & Schook, L. B. (2016). Evolutionary patterns of Toll-like receptor signaling pathway genes in the Suidae. BMC Evolutionary Biology, 16(1), [602]. DOI: 10.1186/s12862-016-0602-7

Mereness, A. L., Murphy, Z. C., Forrestel, A. C., Butler, S., Ko, C. M., Richards, J. A. S., & Sellix, M. T. (2016). Conditional deletion of Bmal1 in ovarian theca cells disrupts ovulation in female mice. Endocrinology, 157(2), 913-927. DOI: 10.1210/en.2015-1645

Gomez, A., Rothman, J. M., Petrzelkova, K., Yeoman, C. J., Vlckova, K., Umaña, J. D., ... Leigh, S. R. (2016). Erratum: Temporal variation selects for diet-microbe co-metabolic traits in the gut of Gorilla spp (The ISME Journal (2016) 10, 532; (DOI:10.1038/ismej.2015.252)). ISME Journal, 10(2). DOI: 10.1038/ismej.2015.252

Cook, M. D., Allen, J. M., Pence, B. D., Wallig, M. A., Gaskins, H. R., White, B. A., & Woods, J. A. (2016). Exercise and gut immune function: Evidence of alterations in colon immune cell homeostasis and microbiome characteristics with exercise training. Immunology and Cell Biology, 94(2), 158-163. DOI: 10.1038/icb.2015.108

Lipovich, L., Hou, Z. C., Jia, H., Sinkler, C., Mcgowen, M., Sterner, K. N., ... Wildman, D. E. (2016). High-throughput RNA sequencing reveals structural differences of orthologous brain-expressed genes between western lowland gorillas and humans. Journal of Comparative Neurology, 524(2), 288-308. DOI: 10.1002/cne.23843

Chang, H. X., Domier, L. L., Radwan, O., Yendrek, C. R., Hudson, M. E., & Hartman, G. L. (2016). Identification of multiple phytotoxins produced by fusarium virguliforme including a phytotoxic effector (fvnis1) associated with sudden death syndrome foliar symptoms. Molecular Plant-Microbe Interactions, 29(2), 96-108. DOI: 10.1094/MPMI-09-15-0219-R

Gomez, A., Rothman, J. M., Petrzelkova, K., Yeoman, C. J., Vlckova, K., Umaña, J. D., ... Leigh, S. R. (2016). Temporal variation selects for diet-microbe co-metabolic traits in the gut of Gorilla spp. ISME Journal, 10(2), 514-526. DOI: 10.1038/ismej.2015.146

Goldenfeld, N. (2016). Samuel Frederick Edwards: Founder of modern polymer and softmatter theory. Proceedings of the National Academy of Sciences of the United States of America, 113(1), 10-11. DOI: 10.1073/pnas.1523001113

Estrada, Z. J., Pham, C., Deng, F., Kalbarczyk, Z., Iyer, R. K., & Yan, L. (2016). Dynamic VM Dependability Monitoring Using Hypervisor Probes. In Proceedings - 2015 11th European Dependable Computing Conference, EDCC 2015 (pp. 61-72). [7371955] Institute of Electrical and Electronics Engineers Inc.. DOI: 10.1109/EDCC.2015.9

Ridlon, J. M., Harris, S. C., Bhowmik, S., Kang, D. J., & Hylemon, P. B. (2016). Consequences of bile salt biotransformations by intestinal bacteria. Gut Microbes, 7(1), 22-39. DOI: 10.1080/19490976.2015.1127483

Krishna, V. B., Iyer, R. K., & Sanders, W. H. (2016). ARIMA-based modeling and validation of consumption readings in power grids. In Critical Information Infrastructures Security - 10th International Conference, CRITIS 2015, Revised Selected Papers (Vol. 9578, pp. 199-210). (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 9578). Springer Verlag. DOI: 10.1007/978-3-319-33331-1_16

Jeraldo, P., Hernandez, A., Nielsen, H. B., Chen, X., White, B. A., Goldenfeld, N., ... Chia, N. (2016). Capturing one of the human gut microbiome's most wanted: Reconstructing the genome of a novel butyrate-producing, clostridial scavenger from metagenomic sequence data. Frontiers in Microbiology, 7(MAY), [783]. DOI: 10.3389/fmicb.2016.00783

MacKay, A. J., Muturi, E. J., Ward, M. P., & Allan, B. F. (2016). Cascade of ecological consequences for West Nile virus transmission when aquatic macrophytes invade stormwater habitats. Ecological Applications, 26(1), 219-232. DOI: 10.1890/15-0050/suppinfo

Nelson, E. R., Li, S., Kennedy, M., Payne, S., Kilibarda, K., Groth, J., ... Bachelder, R. E. (2016). Chemotherapy enriches for an invasive triple-negative breast tumor cell subpopulation expressing a precursor form of N-cadherin on the cell surface. Oncotarget, 7(51), 84030-84042. DOI: 10.18632/oncotarget.12767

Cui, P., Löber, U., Alquezar-Planas, D. E., Ishida, Y., Courtiol, A., Timms, P., ... Greenwood, A. D. (2016). Comprehensive profiling of retroviral integration sites using target enrichment methods from historical koala samples without an assembled reference genome. PeerJ, 2016(3), [1847]. DOI: 10.7717/peerj.1847

Nelson, E. R. (2016). Detection of endogenous selective estrogen receptor modulators such as 27-hydroxycholesterol. In Methods in Molecular Biology (pp. 431-443). (Methods in Molecular Biology; Vol. 1366). Humana Press Inc.. DOI: 10.1007/978-1-4939-3127-9_34

Fuzawa, M., Ku, K. M., Palma-Salgado, S. P., Nagasaka, K., Feng, H., Juvik, J. A., ... Nguyen, T. H. (2016). Effect of leaf surface chemical properties on efficacy of sanitizer for rotavirus inactivation. Applied and Environmental Microbiology, 82(20), 6214-6222. DOI: 10.1128/AEM.01778-16

Lu, R., Li, Q., Yin, Z., Xagoraraki, I., Tarabara, V. V., & Nguyen, T. H. (2016). Effect of virus influent concentration on its removal by microfiltration: The case of human adenovirus 2. Journal of Membrane Science, 497, 120-127. DOI: 10.1016/j.memsci.2015.08.065

Griffon, D. J., Cho, J., Wagner, J. R., Charavaryamath, C., Wei, J., & Wagoner Johnson, A. (2016). Effects of Hypoxia and Chitosan on Equine Umbilical Cord-Derived Mesenchymal Stem Cells. Stem Cells International, 2016, [2987140]. DOI: 10.1155/2016/2987140

Cerny, K. L., Ribeiro, R. A. C., Jeoung, M., Ko, C. M., & Bridges, P. J. (2016). Estrogen receptor alpha (ESR1)-dependent regulation of the mouse oviductal transcriptome. PLoS ONE, 11(1), [e0147685]. DOI: 10.1371/journal.pone.0147685

Mirarab, S., Bayzid, M. S., & Warnow, T. (2016). Evaluating summarymethods for multilocus species tree estimation in the presence of incomplete lineage sorting. Systematic Biology, 65(3), 366-380. DOI: 10.1093/sysbio/syu063

Burnett, L. A., & Nowak, R. A. (2016). Exosomes mediate embryo and maternal interactions at implantation and during pregnancy. Frontiers in Bioscience - Scholar, 8(1), 79-96. DOI: 10.2741/S448

Cacioppo, J. A., Koo, Y., Lin, P. C. P., Osmulski, S. A., Ko, C. D., & Ko, C. (2016). Generation of an estrogen receptor beta-iCre knock-in mouse. Genesis, 54(1), 38-52. DOI: 10.1002/dvg.22911

Lonnerdal, B., Kvistgaard, A. S., Peerson, J. M., Donovan, S. M., & Peng, Y. M. (2016). Growth, nutrition, and cytokine response of breast-fed infants and infants fed formula with added bovine osteopontin. Journal of Pediatric Gastroenterology and Nutrition, 62(4), 650-657. DOI: 10.1097/MPG.0000000000001005

Koohestani, F., Qiang, W., MacNeill, A. L., Druschitz, S. A., Serna, V. A., Adur, M., ... Nowak, R. A. (2016). Halofuginone suppresses growth of human uterine leiomyoma cells in a mouse xenograft model. Human Reproduction, 31(7), 1540-1551. DOI: 10.1093/humrep/dew094

Eerkens, J. W., Carlson, T., Malhi, R. S., Blake, J., Bartelink, E. J., Barfod, G. H., ... Marshall, C. K. (2016). Isotopic and genetic analyses of a mass grave in central California: Implications for precontact hunter-gatherer warfare. American Journal of Physical Anthropology, 159(1), 116-125. DOI: 10.1002/ajpa.22843

Ruiz-Rodriguez, C. T., Ishida, Y., Murray, N. D., O'brien, S. J., Graves, J. A. M., Greenwood, A. D., & Roca, A. L. (2016). Koalas (Phascolarctos cinereus) from Queensland are genetically distinct from 2 populations in Victoria. Journal of Heredity, 107(7), 573-580. DOI: 10.1093/jhered/esw049

Berding, K., Wang, M., Monaco, M. H., Alexander, L. S., Mudd, A. T., Chichlowski, M., ... Donovan, S. M. (2016). Prebiotics and bioactive milk fractions affect gut development, microbiota, and neurotransmitter expression in piglets. Journal of Pediatric Gastroenterology and Nutrition, 63(6), 688-697. DOI: 10.1097/MPG.0000000000001200

Wang, H., Li, M., Brockman, K., & Nguyen, T. H. (2016). Reduction of MS2 bacteriophage and rotavirus in biosand filters. Environmental Science: Water Research and Technology, 2(3), 483-491. DOI: 10.1039/c5ew00297d

Geissler, C., Amuna, P., Kattelmann, K. K., Zotor, F. B., & Donovan, S. M. (2016). The enutrition academy: Supporting a newgeneration of nutritional scientistsaround the world. Advances in Nutrition, 7(1), 190-198. DOI: 10.3945/an.115.010728

Tarver, J. E., Dos Reis, M., Mirarab, S., Moran, R. J., Parker, S., O'Reilly, J. E., ... Pisani, D. (2016). The interrelationships of placental mammals and the limits of phylogenetic inference. Genome Biology and Evolution, 8(2), 330-344. DOI: 10.1093/gbe/evv261

the STRONG Kids Research Team, & Wiley, A. (2016). The placemat protocol: Measuring preschoolers' healthy-meal schemas with pretend meals. Appetite, 96, 209-218. DOI: 10.1016/j.appet.2015.09.005

Nugent, N. R., Goldberg, A., & Uddin, M. (2016). Topical Review: The Emerging Field of Epigenetics: Informing Models of Pediatric Trauma and Physical Health. Journal of Pediatric Psychology, 41(1), 55-64. DOI: 10.1093/jpepsy/jsv018

Fredericks, L. P., Forgacs, D., Yu, J., & Allan, B. F. (2016). An expanded reverse line blot hybridization protocol for the simultaneous detection of numerous tick-borne pathogens in North America. Journal of Medical Entomology, 53(3), 721-726. DOI: 10.1093/jme/tjv251

Cheng, Q., Juen, J., Bellam, S., Fulara, N., Close, D., Silverstein, J. C., & Schatz, B. (2016). Classification Models for Pulmonary Function using Motion Analysis from Phone Sensors. AMIA ... Annual Symposium proceedings. AMIA Symposium, 2016, 401-410.

Alfano, N., Kolokotronis, S. O., Tsangaras, K., Roca, A. L., Xu, W., Eiden, M. V., & Greenwood, A. D. (2016). Eepisodic diversifying selection shaped the genomes of gibbon ape leukemia virus and related gammaretroviruses. Journal of Virology, 90(4), 1757-1772. DOI: 10.1128/JVI.02745-15

Alfano, N., Michaux, J., Morand, S., Aplin, K., Tsangaras, K., Löber, U., ... Greenwood, A. D. (2016). Endogenous gibbon ape leukemia virus identified in a rodent (Melomys burtoni subsp.) from Wallacea (Indonesia). Journal of Virology, 90(18), 8169-8180. DOI: 10.1128/JVI.00723-16

Barakat, R., Oakley, O., Kim, H., Jin, J., & Ko, C. M. J. (2016). Extra-gonadal sites of estrogen biosynthesis and function. BMB Reports, 49(9), 488-496. DOI: 10.5483/BMBRep.2016.49.9.141

Berding, K., & Donovan, S. M. (2016). Microbiome and nutrition in autism spectrum disorder: Current knowledge and research needs. Nutrition Reviews, 74(12), 723-736. DOI: 10.1093/nutrit/nuw048

Donovan, S. M., Fiese, B., Liechty, J. M., & Keck, A. (2016). Publication patterns of PhD students in the Illinois Transdisciplinary Obesity Prevention Program versus traditional programs. Journal of Nutrition Education and Behavior, 48, S118. [http://www.jneb.org/article/S1499-4046(16)30454-7/fulltext?rss=yes]. DOI: http://dx.doi.org/10.1016/j.jneb.2016.04.343

Lescak, E. A., Bassham, S. L., Catchen, J., Gelmond, O., Sherbick, M. L., Van Hippel, F. A., & Cresko, W. A. (2015). Evolution of stickleback in 50 years on earthquake-uplifted islands. Proceedings of the National Academy of Sciences of the United States of America, 112(52), E7204-E7212. DOI: 10.1073/pnas.1512020112

Li, Q., Alemzadeh, H., Kalbarczyk, Z., & Iyer, R. K. (2015). A fault-tolerant hardware architecture for robust wearable heart rate monitoring. In Proceedings of the 2015 9th International Conference on Pervasive Computing Technologies for Healthcare, PervasiveHealth 2015 (pp. 185-192). [7349396] Institute of Electrical and Electronics Engineers Inc.. DOI: 10.4108/icst.pervasivehealth.2015.259289

Wingo, A. P., Almli, L. M., Stevens, J. J., Klengel, T., Uddin, M., Li, Y., ... Ressler, K. J. (2015). DICER1 and microRNA regulation in post-traumatic stress disorder with comorbid depression. Nature Communications, 6, [10106]. DOI: 10.1038/ncomms10106

Kitchen, A., Non, A. L., Gravlee, C. C., Mulligan, C. J., Warinner, C., Lewis, C. M., ... Raff, J. (2015). Anthropological Genetics. American Anthropologist, 117(4), 736-737. DOI: 10.1111/aman.12364

Poellmann, M. J., Estrada, J. B., Boudou, T., Berent, Z. T., Franck, C., & Johnson, A. J. W. (2015). Differences in Morphology and Traction Generation of Cell Lines Representing Different Stages of Osteogenesis. Journal of Biomechanical Engineering, 137(12), [124503]. DOI: 10.1115/1.4031848

Malhi, R. S., & Bader, A. C. (2015). Engaging Native Americans in Genomics Research. American Anthropologist, 117(4), 743-744. DOI: 10.1111/aman.12369

Goldenfeld, N. (2015). Leo Philip Kadanoff: Maestro who connected physics on multiple scales. Nature Physics, 11(12). DOI: 10.1038/nphys3590

Dong, Y., Li, C., Luan, F., Li, Z., Li, H., Cui, Y., ... Malhi, R. S. (2015). Low mitochondrial DNA diversity in an ancient population from China: Insight into social organization at the fujia site. Human Biology, 87(1), 71-84. DOI: 10.13110/humanbiology.87.1.0071

Schatz, B. R. (2015). National surveys of population health: Big data analytics for mobile health monitors. Big Data, 3(4), 219-229. DOI: 10.1089/big.2015.0021

Mota, N., Sumner, J. A., Lowe, S. R., Neumeister, A., Uddin, M., Aiello, A. E., ... Pietrzak, R. H. (2015). The rs1049353 polymorphism in the CNR1 gene interacts with childhood abuse to predict posttraumatic threat symptoms. Journal of Clinical Psychiatry, 76(12), e1622-e1623. DOI: 10.4088/JCP.15l10084

Weckle, A., Aiello, A. E., Uddin, M., Galea, S., Coulborn, R. M., Soliven, R., ... Wildman, D. E. (2015). Rapid fractionation and isolation of whole blood components in samples obtained from a community-based setting. Journal of Visualized Experiments, 2015(105), [e52227]. DOI: 10.3791/52227

Amato, K. R., Yeoman, C. J., Cerda, G., Schmitt, C. A., Cramer, J. D., Miller, M. E. B., ... Leigh, S. R. (2015). Variable responses of human and non-human primate gut microbiomes to a Western diet. Microbiome, 3. DOI: 10.1186/s40168-015-0120-7

Taylor, M. K., Carpenter, J., Stone, M., Hernandez, L. M., Rauh, M. J., Laurent, H. K., & Granger, D. A. (2015). Genetic and environmental modulation of neurotrophic and anabolic stress response: Counterbalancing forces. Physiology and Behavior, 151, 1-8. DOI: 10.1016/j.physbeh.2015.06.027

Choi, H. S., Jain, V., Krueger, B., Marshall, V., Kim, C. H., Shisler, J. L., ... Renne, R. (2015). Kaposi’s Sarcoma-Associated Herpesvirus (KSHV) Induces the Oncogenic miR-17-92 Cluster and Down-Regulates TGF-β Signaling. PLoS Pathogens, 11(11), [e1005255]. DOI: 10.1371/journal.ppat.1005255

Sans, M., Figueiro, G., Hughes, C. E., Lindo, J., Hidalgo, P. C., & Malhi, R. S. (2015). A south American prehistoric mitogenome: Context, continuity, and the origin of haplogroup C1d. PLoS ONE, 10(10), [e0141808]. DOI: 10.1371/journal.pone.0141808

Yan, X., Hu, Z., Feng, Y., Hu, X., Yuan, J., Zhao, S. D., ... Zhang, L. (2015). Comprehensive Genomic Characterization of Long Non-coding RNAs across Human Cancers. Cancer Cell, 28(4), 529-540. [2143]. DOI: 10.1016/j.ccell.2015.09.006

Tobin, E. T., Kane, H. S., Saleh, D. J., Wildman, D. E., Breen, E. C., Secord, E., & Slatcher, R. B. (2015). Asthma-related immune responses in youth with asthma: Associations with maternal responsiveness and expressions of positive and negative affect in daily life. Psychosomatic Medicine, 77(8), 892-902. DOI: 10.1097/PSY.0000000000000236

Li, Y. R., Zhao, S. D., Li, J., Bradfield, J. P., Mohebnasab, M., Steel, L., ... Sullivan, K. E. (2015). Genetic sharing and heritability of paediatric age of onset autoimmune diseases. Nature Communications, 6, [8442]. DOI: 10.1038/ncomms9442

Mirarab, S., Bayzid, M. S., Boussau, B., & Warnow, T. (2015). Response to Comment on "Statistical binning enables an accurate coalescent-based estimation of the avian tree". Science, 350(6257), [171]. DOI: 10.1126/science.aaa7719

Jafarpour, F., Biancalani, T., & Goldenfeld, N. (2015). Noise-Induced Mechanism for Biological Homochirality of Early Life Self-Replicators. Physical Review Letters, 115(15), [158101]. DOI: 10.1103/PhysRevLett.115.158101

Bader, A. C., & Malhi, R. S. (2015). Case study on ancestry estimation in an alaskan native family: Identity and safeguards against reductionism. Human Biology, 87(4), 338-351.

Jacobs, C. E., Main, M. B., & Roca, A. L. (2015). A conservation-based approach to compensation for livestock depredation: The Florida panther case study. PLoS ONE, 10(9), [e139203]. DOI: 10.1371/journal.pone.0139203

Cracraft, J., Houde, P., Ho, S. Y. W., Mindell, D. P., Fjeldså, J., Lindow, B., ... Jarvis, E. D. (2015). Response to Comment on "Whole-genome analyses resolve early branches in the tree of life of modern birds". Science, 349(6255), 1460-b. DOI: 10.1126/science.aab1578

Biancalani, T., Deville, L., & Goldenfeld, N. (2015). Erratum: Framework for analyzing ecological trait-based models in multidimensional niche spaces (Physical Review E - Statistical, Nonlinear, and Soft Matter Physics (2015) 91 (052107)). Physical Review E - Statistical, Nonlinear, and Soft Matter Physics, 92(3), [039902]. DOI: 10.1103/PhysRevE.92.039902

Martino, C. D., Kramer, W., Kalbarczyk, Z., & Iyer, R. (2015). Measuring and Understanding Extreme-Scale Application Resilience: A Field Study of 5,000,000 HPC Application Runs. In Proceedings - 2015 45th Annual IEEE/IFIP International Conference on Dependable Systems and Networks, DSN 2015 (Vol. 2015-September, pp. 25-36). [7266835] IEEE Computer Society. DOI: 10.1109/DSN.2015.50

Logue, M. W., Amstadter, A. B., Baker, D. G., Duncan, L., Koenen, K. C., Liberzon, I., ... Uddin, M. (2015). The Psychiatric Genomics Consortium Posttraumatic Stress Disorder Workgroup: Posttraumatic Stress Disorder Enters the Age of Large-Scale Genomic Collaboration. Neuropsychopharmacology, 40(10), 2287-2297. DOI: 10.1038/npp.2015.118

Li, Y. R., Li, J., Zhao, S. D., Bradfield, J. P., Mentch, F. D., Maggadottir, S. M., ... Wise, C. A. (2015). Meta-analysis of shared genetic architecture across ten pediatric autoimmune diseases. Nature Medicine, 21(9), 1018-1027. DOI: 10.1038/nm.3933

Ben David, Y., Dassa, B., Borovok, I., Lamed, R., Koropatkin, N. M., Martens, E. C., ... Moraïs, S. (2015). Ruminococcal cellulosome systems from rumen to human. Environmental Microbiology, 17(9), 3407-3426. DOI: 10.1111/1462-2920.12868

Pawar, S., Laws, M. J., Bagchi, I. C., & Bagchi, M. K. (2015). Uterine epithelial estrogen receptor-α controls decidualization via a paracrine mechanism. Molecular Endocrinology, 29(9), 1362-1374. DOI: 10.1210/me.2015-1142

Abraham, J., Iyer, R., Gizopoulos, D., Alexandrescu, D., & Zorian, Y. (2015). The future of fault tolerant computing. In Proceedings of the 21st IEEE International On-Line Testing Symposium, IOLTS 2015 (pp. 108-109). [7229841] Institute of Electrical and Electronics Engineers Inc.. DOI: 10.1109/IOLTS.2015.7229841

Raghavan, M., Steinrücken, M., Harris, K., Schiffels, S., Rasmussen, S., DeGiorgio, M., ... Zollikofer, C. P. E. (2015). Genomic evidence for the Pleistocene and recent population history of Native Americans. Science, 349(6250), [aab3884]. DOI: 10.1126/science.aab3884

Hartmann, S., Hasenkamp, N., Mayer, J., Michaux, J., Morand, S., Mazzoni, C. J., ... Greenwood, A. D. (2015). Endogenous murine leukemia retroviral variation across wild European and inbred strains of house mouse. BMC Genomics, 16(1), [613]. DOI: 10.1186/s12864-015-1766-z

Hoeflinger, J. L., Kashtanov, D. O., Cox, S. B., Dowd, S. E., Jouni, Z. E., Donovan, S. M., & Miller, M. J. (2015). Characterization of the intestinal lactobacilli community following galactooligosaccharides and polydextrose supplementation in the neonatal piglet. PLoS ONE, 10(8), [e0135494]. DOI: 10.1371/journal.pone.0135494

Fang, X., Nevo, E., Han, L., Levanon, E. Y., Zhao, J., Avivi, A., ... Krogh, A. (2015). Erratum: Genome-wide adaptive complexes to underground stresses in blind mole rats Spalax (Nature Communications (2015) 5 (3966) DOI: 10.1038/ncomms4966). Nature Communications, 6, [8051]. DOI: 10.1038/ncomms9051

Liechty, J. M., Saltzman, J. A., Musaad, S. M., Harrison, K., Bost, K., McBride, B., ... The STRONG Kids Team, S. T. R. O. N. G. K. T. (2015). Health literacy and parent attitudes about weight control for children. Appetite, 91, 200-208. DOI: 10.1016/j.appet.2015.04.010

Musaad, S. M. A., Donovan, S. M., & Fiese, B. H. (2015). Parental perception of child weight in the first two years-of-life: A potential link between infant feeding and preschoolers' diet. Appetite, 91, 90-100. DOI: 10.1016/j.appet.2015.03.029

Ganu, R. S., Ishida, Y., Koutmos, M., Kolokotronis, S. O., Roca, A. L., Garrow, T. A., & Schook, L. B. (2015). Evolutionary analyses and natural selection of Betaine-Homocysteine Smethyltransferase (BHMT) and BHMT2 Genes. PLoS ONE, 10(7), [A2384]. DOI: 10.1371/journal.pone.0134084

Lu, L., Ku, K. M., Palma-Salgado, S. P., Storm, A. P., Feng, H., Juvik, J. A., & Nguyen, T. H. (2015). Influence of epicuticular physicochemical properties on porcine rotavirus adsorption to 24 leafy green vegetables and tomatoes. PLoS ONE, 10(7), [e0132841]. DOI: 10.1371/journal.pone.0132841

Li, Q., Li, Y., Moose, S. P., & Hudson, M. E. (2015). Transposable elements, mRNA expression level and strand-specificity of small RNAs are associated with non-additive inheritance of gene expression in hybrid plants. BMC Plant Biology, 15(1), [168]. DOI: 10.1186/s12870-015-0549-7

Logue, M. W., Smith, A. K., Baldwin, C., Wolf, E. J., Guffanti, G., Ratanatharathorn, A., ... Miller, M. W. (2015). An analysis of gene expression in PTSD implicates genes involved in the glucocorticoid receptor pathway and neural responses to stress. Psychoneuroendocrinology, 57, 1-13. DOI: 10.1016/j.psyneuen.2015.03.016

Juen, J., Cheng, Q., & Schatz, B. (2015). A Natural Walking Monitor for Pulmonary Patients Using Mobile Phones. IEEE Journal of Biomedical and Health Informatics, 19(4), 1399-1405. [7096915]. DOI: 10.1109/JBHI.2015.2427511

Schatz, B. (2015). Guest editorial: Predictive modeling in health informatics. IEEE Journal of Biomedical and Health Informatics, 19(4), [7165719]. DOI: 10.1109/JBHI.2015.2431354

Roch, S., & Warnow, T. (2015). On the Robustness to Gene Tree Estimation Error (or lack thereof) of Coalescent-Based Species Tree Methods. Systematic Biology, 64(4), 663-676. DOI: 10.1093/sysbio/syv016

LaDeau, S. L., Allan, B. F., Leisnham, P. T., & Levy, M. Z. (2015). The ecological foundations of transmission potential and vector-borne disease in urban landscapes. Functional Ecology, 29(7), 889-901. DOI: 10.1111/1365-2435.12487

Meyers, J. L., Salling, M. C., Almli, L. M., Ratanatharathorn, A., Uddin, M., Galea, S., ... Koenen, K. C. (2015). Frequency of alcohol consumption in humans; the role of metabotropic glutamate receptors and downstream signaling pathways. Translational Psychiatry, 5(6), [A070]. DOI: 10.1038/tp.2015.70

Rasmussen, M., Sikora, M., Albrechtsen, A., Korneliussen, T. S., Moreno-Mayar, J. V., Poznik, G. D., ... Willerslev, E. (2015). The ancestry and affiliations of Kennewick Man. Nature, 523(7561), 455-458. DOI: 10.1038/nature14625

Bayzid, M. S., Mirarab, S., Boussau, B., & Warnow, T. (2015). Weighted statistical binning: Enabling statistically consistent genome-scale phylogenetic analyses. PLoS ONE, 10(6), [e0129183]. DOI: 10.1371/journal.pone.0129183

Gardner, A. M., Allan, B. F., Frisbie, L. A., & Muturi, E. J. (2015). Asymmetric effects of native and exotic invasive shrubs on ecology of the West Nile virus vector Culex pipiens (Diptera: Culicidae). Parasites and Vectors, 8(1), [329]. DOI: 10.1186/s13071-015-0941-z

Nguyen, N. P. D., Mirarab, S., Kumar, K., & Warnow, T. (2015). Ultra-large alignments using phylogeny-aware profiles. Genome Biology, 16(1), [124]. DOI: 10.1186/s13059-015-0688-z

Mirarab, S., & Warnow, T. (2015). ASTRAL-II: Coalescent-based species tree estimation with many hundreds of taxa and thousands of genes. Bioinformatics, 31(12), i44-i52. DOI: 10.1093/bioinformatics/btv234

Di Martino, C., Jha, S., Kramer, W., Kalbarczyk, Z., & Iyer, R. K. (2015). LogDiver: A tool for measuring resilience of extreme-scale systems and applications. In FTXS 2015 - Proceedings of the 2015 Workshop on Fault Tolerance for HPC at eXtreme Scale, Part of HPDC 2015 (pp. 11-18). Association for Computing Machinery, Inc. DOI: 10.1145/2751504.2751511

Newell-Fugate, A. E., Taibl, J. N., Alloosh, M., Sturek, M., Bahr, J. M., Nowak, R. A., & Krisher, R. L. (2015). Effects of obesity and metabolic syndrome on steroidogenesis and folliculogenesis in the female Ossabaw mini-pig. PLoS ONE, 10(6), [e0128749]. DOI: 10.1371/journal.pone.0128749

Kapheim, K. M., Pan, H., Li, C., Salzberg, S. L., Puiu, D., Magoc, T., ... Zhang, G. (2015). Genomic signatures of evolutionary transitions from solitary to group living. Science, 348(6239). DOI: 10.1126/science.aaa4788

Perry, D. M., Tabb, K. M., & Mendenhall, R. (2015). Examining the effects of urban neighborhoods on the mental health of adolescent African American males: A qualitative systematic review. Journal of Negro Education, 84(3), 254-268.

Wang, M., Li, M., Wu, S., Lebrilla, C. B., Chapkin, R. S., Ivanov, I., & Donovan, S. M. (2015). Fecal microbiota composition of breast-fed infants is correlated with human milk oligosaccharides consumed. Journal of Pediatric Gastroenterology and Nutrition, 60(6), 825-833. DOI: 10.1097/MPG.0000000000000752

Kaya, H. S., Hantak, A. M., Stubbs, L. J., Taylor, R. N., Bagchi, I. C., & Bagchi, M. K. (2015). Roles of progesterone receptor A and B isoforms during human endometrial decidualization. Molecular Endocrinology, 29(6), 882-895. DOI: 10.1210/me.2014-1363

Wang, M., & Donovan, S. M. (2015). Human microbiota-associated swine: Current progress and future opportunities. ILAR Journal, 56(1), 63-73. DOI: 10.1093/ilar/ilv006

Demmer, R. T., Gelb, S., Suglia, S. F., Keyes, K. M., Aiello, A. E., Colombo, P. C., ... Kubzansky, L. D. (2015). Sex differences in the association between depression, anxiety, and type 2 diabetes mellitus. Psychosomatic Medicine, 77(4), 467-477. DOI: 10.1097/PSY.0000000000000169

Alfano, N., Courtiol, A., Vielgrader, H., Timms, P., Roca, A. L., & Greenwood, A. D. (2015). Variation in koala microbiomes within and between individuals: Effect of body region and captivity status. Scientific Reports, 5, [10189]. DOI: 10.1038/srep10189

Biancalani, T., Deville, L., & Goldenfeld, N. (2015). Framework for analyzing ecological trait-based models in multidimensional niche spaces. Physical Review E - Statistical, Nonlinear, and Soft Matter Physics, 91(5), [052107]. DOI: 10.1103/PhysRevE.91.052107

Daigneault, B. W., Mcnamara, K. A., Purdy, P. H., Krisher, R. L., Knox, R. V., Rodriguez-Zas, S. L., & Miller, D. J. (2015). Enhanced fertility prediction of cryopreserved boar spermatozoa using novel sperm function assessment. Andrology, 3(3), 558-568. DOI: 10.1111/andr.12035

Gomez, A., Petrzelkova, K., Yeoman, C. J., Vlckova, K., Mrázek, J., Koppova, I., ... Leigh, S. R. (2015). Gut microbiome composition and metabolomic profiles of wild western lowland gorillas (Gorilla gorilla gorilla) reflect host ecology. Molecular Ecology, 24(10), 2551-2565. DOI: 10.1111/mec.13181

Sadd, B. M., Barribeau, S. M., Bloch, G., de Graaf, D. C., Dearden, P., Elsik, C. G., ... Worley, K. C. (2015). The genomes of two key bumblebee species with primitive eusocial organization. Genome Biology, 16(1), [76]. DOI: 10.1186/s13059-015-0623-3

Cao, P., Badger, E., Kalbarczyk, Z., Iyer, R., & Slagell, A. (2015). Preemptive intrusion detection: Theoretical framework and real-world measurements. In Proceedings of the 2015 Symposium and Bootcamp on the Science of Security, HotSoS 2015 (Vol. 21-22-April-2015). [2746199] Association for Computing Machinery. DOI: 10.1145/2746194.2746199

Cao, P., Badger, E. C., Kalbarczyk, Z. T., Iyer, R. K., Withers, A., & Slagell, A. J. (2015). Towards an unified security testbed and security analytics framework. In Proceedings of the 2015 Symposium and Bootcamp on the Science of Security, HotSoS 2015 (Vol. 21-22-April-2015). [2746218] Association for Computing Machinery. DOI: 10.1145/2746194.2746218

Darfour-Oduro, K. A., Megens, H. J., Roca, A. L., Groenen, M. A. M., & Schook, L. B. (2015). Adaptive evolution of Toll-like receptors (TLRs) in the family Suidae. PLoS ONE, 10(4), [e0124069]. DOI: 10.1371/journal.pone.0124069

Mauris, J., Dieckow, J., Schob, S., Pulli, B., Hatton, M. P., Jeong, S., ... Argüeso, P. (2015). Loss of CD147 results in impaired epithelial cell differentiation and malformation of the meibomian gland. Cell Death and Disease, 6(4), [e1726]. DOI: 10.1038/cddis.2015.98

Kapheim, K. M., Rao, V. D., Yeoman, C. J., Wilson, B. A., White, B. A., Goldenfeld, N., & Robinson, G. E. (2015). Caste-specific differences in hindgut microbial communities of honey bees (Apis mellifera). PLoS ONE, 10(4), [e0123911]. DOI: 10.1371/journal.pone.0123911

Gall, A. M., Shisler, J. L., & Mariñas, B. J. (2015). Analysis of the viral replication cycle of adenovirus serotype 2 after inactivation by free chlorine. Environmental Science and Technology, 49(7), 4584-4590. DOI: 10.1021/acs.est.5b00301

Lipka, A. E., Kandianis, C. B., Hudson, M. E., Yu, J., Drnevich, J., Bradbury, P. J., & Gore, M. A. (2015). From association to prediction: Statistical methods for the dissection and selection of complex traits in plants. Current Opinion in Plant Biology, 24, 110-118. DOI: 10.1016/j.pbi.2015.02.010

GOBLET Consortium (2015). GOBLET: The Global Organisation for Bioinformatics Learning, Education and Training. PLoS Computational Biology, 11(4), [e1004143]. DOI: 10.1371/journal.pcbi.1004143

Lowe, S. R., Meyers, J. L., Galea, S., Aiello, A. E., Uddin, M., Wildman, D. E., & Koenen, K. C. (2015). RORA and posttraumatic stress trajectories: Main effects and interactions with childhood physical abuse history. Brain and Behavior, 5(4), 1-11. DOI: 10.1002/brb3.323

Gundling, W. E., & Wildman, D. E. (2015). A review of inter- and intraspecific variation in the eutherian placenta. Philosophical transactions of the Royal Society of London. Series B, Biological sciences, 370(1663), 20140072. DOI: 10.1098/rstb.2014.0072

Schneider, S. C., Parker, C. M., Miller, J. R., Page Fredericks, L., & Allan, B. F. (2015). Assessing the Contribution of Songbirds to the Movement of Ticks and Borrelia burgdorferi in the Midwestern United States During Fall Migration. EcoHealth, 12(1), 164-173. DOI: 10.1007/s10393-014-0982-3

Mallott, E. K., Malhi, R. S., & Garber, P. A. (2015). Brief communication: High-Throughput sequencing of fecal DNA to Identify Insects Consumed by Wild Weddell's Saddleback Tamarins (Saguinus weddelli, Cebidae, Primates) in Bolivia. American Journal of Physical Anthropology, 156(3), 474-481. DOI: 10.1002/ajpa.22654

Wang, L., Kalbarczyk, Z., Iyer, R. K., & Iyengar, A. (2015). VM-μcheckpoint: Design, modeling, and assessment of lightweight in-memory VM checkpointing. IEEE Transactions on Dependable and Secure Computing, 12(2), 243-255. [6824750]. DOI: 10.1109/TDSC.2014.2327967

Kemp, B. M., Lindo, J., Bolnick, D. A., Malhi, R. S., & Chatters, J. C. (2015). Response to comment on "Late Pleistocene human skeleton and mtDNA link paleoamericans and modern Native Americans". Science, 347(6224), 835b. DOI: 10.1126/science.1261188

The Avian Phylogenomics Consortium (2015). Phylogenomic analyses data of the avian phylogenomics project. GigaScience, 4(1), [4]. DOI: 10.1186/s13742-014-0038-1

Kistler, L., Ratan, A., Godfrey, L. R., Crowley, B. E., Hughes, C. E., Lei, R., ... Perry, G. H. (2015). Comparative and population mitogenomic analyses of Madagascar's extinct, giant 'subfossil' lemurs. Journal of Human Evolution, 79, 45-54. DOI: 10.1016/j.jhevol.2014.06.016

Witt, K. E., Judd, K., Kitchen, A., Grier, C., Kohler, T. A., Ortman, S. G., ... Malhi, R. S. (2015). DNA analysis of ancient dogs of the Americas: Identifying possible founding haplotypes and reconstructing population histories. Journal of Human Evolution, 79, 105-118. DOI: 10.1016/j.jhevol.2014.10.012

Roca, A. L., Ishida, Y., Brandt, A. L., Benjamin, N. R., Zhao, K., & Georgiadis, N. J. (2015). Elephant natural history: A genomic perspective. Annual Review of Animal Biosciences, 3, 139-167. DOI: 10.1146/annurev-animal-022114-110838

Cacioppo, J. A., Koo, Y., Lin, P. C. P., Gal, A., & Ko, C. (2015). Generation and characterization of an endothelin-2 iCre mouse. Genesis, 53(2), 245-256. DOI: 10.1002/dvg.22845

Guiblet, W. M., Zhao, K., O'Brien, S. J., Massey, S. E., Roca, A. L., & Oleksyk, T. K. (2015). SmileFinder: A resampling-based approach to evaluate signatures of selection from genome-wide sets of matching allele frequency data in two or more diploid populations. GigaScience, 4(1), [1]. DOI: 10.1186/2047-217X-4-1

Ishida, Y., McCallister, C., Nikolaidis, N., Tsangaras, K., Helgen, K. M., Greenwood, A. D., & Roca, A. L. (2015). Sequence variation of koala retrovirus transmembrane protein p15E among koalas from different geographic regions. Virology, 475, 28-36. DOI: 10.1016/j.virol.2014.10.036

Hudson, K. A., & Hudson, M. E. (2015). A classification of basic helix-loop-helix transcription factors of soybean. International Journal of Genomics, 2015, [603182]. DOI: 10.1155/2015/603182

Chou, J., Gupta, A., Yaduvanshi, S., Davidson, R., Nute, M., Mirarab, S., & Warnow, T. (2015). A comparative study of SVDquartets and other coalescent-based species tree estimation methods. BMC Genomics, 16, 1-11. DOI: 10.1186/1471-2164-16-S10-S2

Vachaspati, P., & Warnow, T. (2015). ASTRID: Accurate species TRees from internode distances. BMC Genomics, 16, 1-13. DOI: 10.1186/1471-2164-16-S10-S3

Stephens, Z. D., Lee, S. Y., Faghri, F., Campbell, R. H., Zhai, C., Efron, M. J., ... Robinson, G. E. (2015). Big data: Astronomical or genomical? PLoS Biology, 13(7). DOI: 10.1371/journal.pbio.1002195

Jeraldo, P., Hernández, Á., White, B. A., O'Brien, D., Ahlquist, D., Boardman, L., & Chia, N. (2015). Draft genome sequences of 24 microbial strains assembled from direct sequencing from 4 stool samples. Genome Announcements, 3(3), [e00526-15]. DOI: 10.1128/genomeA.00526-15

Zhao, Y., Gong, P., Chen, Y., Nwachukwu, J. C., Srinivasan, S., Ko, C. M., ... Katzenellenbogen, B. S. (2015). Dual suppression of estrogenic and inflammatory activities for targeting of endometriosis. Science Translational Medicine, 7(271), [271ra9]. DOI: 10.1126/scitranslmed.3010626

Wardell, S. E., Nelson, E. R., Chao, C. A., Alley, H. M., & McDonnell, D. P. (2015). Evaluation of the pharmacological activities of RAD1901, a selective estrogen receptor degrader. Endocrine-Related Cancer, 22(5), 713-724. DOI: 10.1530/ERC-15-0287

Roca, A. L. (2015). Evolution: The Island of Misfit Mammoths. Current Biology, 25(13), R549-R551. DOI: 10.1016/j.cub.2015.05.006

Lee, T. G., Kumar, I., Diers, B. W., & Hudson, M. E. (2015). Evolution and selection of Rhg1, a copy-number variant nematode-resistance locus. Molecular Ecology, 24(8), 1774-1791. DOI: 10.1111/mec.13138

Grinberg, I. R., Yin, G., Borovok, I., Berg Miller, M. E., Yeoman, C. J., Dassa, B., ... Lamed, R. (2015). Functional phylotyping approach for assessing intraspecific diversity of Ruminococcus albus within the rumen microbiome. FEMS Microbiology Letters, 362(3), [fnu047]. DOI: 10.1093/femsle/fnu047

Dicker, L. H., & Zhao, S. D. (2015). High-dimensional classification via nonparametric empirical Bayes and maximum likelihood inference. Biometrika, 103(1), 21-34. DOI: 10.1093/biomet/asv067

Shisler, J. L. (2015). Immune evasion strategies of molluscum contagiosum virus. Advances in Virus Research, 92, 201-252. DOI: 10.1016/bs.aivir.2014.11.004

Harrison, K., Peralta, M., Bost, K. K., McBride, B. A., Donovan, S. M., Grigsby-Toussaint, D. S., ... STRONG Kids Team, K. T. (2015). Parent and Child Media Exposure, Preschooler Dietary Intake, and Preschooler Healthy-Meal Schemas in the Context of Food Insecurity. Journal of Communication, 65(3), 443-464. DOI: 10.1111/jcom.12153

Mirarab, S., Nguyen, N., Guo, S., Wang, L. S., Kim, J., & Warnow, T. (2015). PASTA: Ultra-large multiple sequence alignment for nucleotide and amino-acid sequences. Journal of Computational Biology, 22(5), 377-386. DOI: 10.1089/cmb.2014.0156

Baldwin, E. A., Walther-Antonio, M., MacLean, A. M., Gohl, D. M., Beckman, K. B., Chen, J., ... Chia, N. (2015). Persistent microbial dysbiosis in preterm premature rupture of membranes from onset until delivery. PeerJ, 2015(11), [e1398]. DOI: 10.7717/peerj.1398

Davidson, R., Vachaspati, P., Mirarab, S., & Warnow, T. (2015). Phylogenomic species tree estimation in the presence of incomplete lineage sorting and horizontal gene transfer. BMC Genomics, 16, 1-12. DOI: 10.1186/1471-2164-16-S10-S1

Ishida, Y., Zhao, K., Greenwood, A. D., & Roca, A. L. (2015). Proliferation of Endogenous Retroviruses in the Early Stages of a Host Germ Line Invasion. Molecular Biology and Evolution, 32(1), 109-120. DOI: 10.1093/molbev/msu275

Davila, J., Laws, M. J., Kannan, A., Li, Q., Taylor, R. N., Bagchi, M. K., & Bagchi, I. C. (2015). Rac1 Regulates Endometrial Secretory Function to Control Placental Development. PLoS Genetics, 11(8), [e1005458]. DOI: 10.1371/journal.pgen.1005458

Shen, Y., Monroy, G. L., Derlon, N., Janjaroen, D., Huang, C., Morgenroth, E., ... Nguyen, T. H. (2015). Role of biofilm roughness and hydrodynamic conditions in legionella pneumophila adhesion to and detachment from simulated drinking water biofilms. Environmental Science and Technology, 49(7), 4274-4282. DOI: 10.1021/es505842v

Rushmore, J., Allison, A. B., Edwards, E. E., Bagal, U., Altizer, S., Cranfield, M. R., ... Yabsley, M. J. (2015). Screening wild and semi-free ranging great apes for putative sexually transmitted diseases: Evidence of Trichomonadidae infections. American Journal of Primatology, 77(10), 1075-1085. DOI: 10.1002/ajp.22442

Dong, X., Lin, H., Tan, R., Iyer, R. K., & Kalbarczyk, Z. (2015). Software-defined networking for smart grid resilience: Opportunities and challenges. In CPSS 2015 - Proceedings of the 1st ACM Workshop on Cyber-Physical System Security, Part of ASIACCS 2015 (pp. 61-68). Association for Computing Machinery, Inc. DOI: 10.1145/2732198.2732203

Romero-Maraccini, O. C., Shisler, J. L., & Nguyen, T. H. (2015). Solar and temperature treatments affect the ability of human rotavirus Wa to bind to host cells and synthesize viral RNA. Applied and Environmental Microbiology, 81(12), 4090-4097. DOI: 10.1128/AEM.00027-15

Alemzadeh, H., Chen, D., Lewis, A., Kalbarczyk, Z., Raman, J., Leveson, N., & Iyer, R. (2015). Systems-theoretic safety assessment of robotic telesurgical systems. In Computer Safety, Reliability, and Security - 34th International Conference, SAFECOMP 2015, Proceedings (Vol. 9337, pp. 213-227). (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 9337). Springer Verlag. DOI: 10.1007/978-3-319-24255-2_16

Jameson Kiesling, N. M., Yi, S. V., Xu, K., Gianluca Sperone, F., & Wildman, D. E. (2015). The tempo and mode of New World monkey evolution and biogeography in the context of phylogenomic analysis. Molecular Phylogenetics and Evolution, 82(PB), 386-399. DOI: 10.1016/j.ympev.2014.03.027

Huang, E. Y., Inoue, T., Leone, V. A., Dalal, S., Touw, K., Wang, Y., ... Chang, E. B. (2015). Using corticosteroids to reshape the gut microbiome: Implications for inflammatory bowel diseases. Inflammatory Bowel Diseases, 21(5), 963-972. DOI: 10.1097/MIB.0000000000000332

Allen, J. M., Miller, M. E. B., Pence, B. D., Whitlock, K., Nehra, V., Gaskins, H. R., ... Woods, J. A. (2015). Voluntary and forced exercise differentially alters the gut microbiome in C57BL/6J Mice. Journal of Applied Physiology, 118(8), 1059-1066. DOI: 10.1152/japplphysiol.01077.2014

Gall, A. M., Mariñas, B. J., Lu, Y., & Shisler, J. L. (2015). Waterborne Viruses: A Barrier to Safe Drinking Water. PLoS Pathogens, 11(6), [e1004867]. DOI: 10.1371/journal.ppat.1004867

Lu, N., Massoudieh, A., Liang, X., Kamai, T., Zilles, J. L., Nguyen, T. H., & Ginn, T. R. (2015). A kinetic model of gene transfer via natural transformation of Azotobacter vinelandii. Environmental Science: Water Research and Technology, 1(3), 363-374. DOI: 10.1039/c5ew00023h

Liu, Y., Dong, S., Kuhlenschmidt, M. S., Kuhlenschmidt, T. B., Drnevich, J., & Nguyen, T. H. (2015). Inactivation mechanisms of: Cryptosporidium parvum oocysts by solar ultraviolet irradiation. Environmental Science: Water Research and Technology, 1(2), 188-198. DOI: 10.1039/c4ew00079j

Braundmeier, A. G., Lenz, K. M., Inman, K. S., Chia, N., Jeraldo, P., Walther-António, M. R. S., ... White, B. A. (2015). Individualized medicine and the microbiome in reproductive tract. Frontiers in Physiology, 6(APR), [97]. DOI: 10.3389/fphys.2015.00097

Estrada, Z. J., Deng, F., Stephens, Z., Pham, C., Kalbarczyk, Z., & Iyer, R. K. (2015). Performance comparison and tuning of virtual machines for sequence alignment software. Scalable Computing, 16(1), 71-84. DOI: 10.12694/scpe.v16i1.1061

Motti, J. M. B., Hagelberg, E., Lindo, J., Malhi, R. S., Bravi, C. M., & Guichón, R. A. (2015). Primer genoma mitocondrial en restos humanos de la costa de Santa Cruz, Argentina. Magallania, 43(2), 119-131.

Straughen, J. K., Sipahi, L., Uddin, M., Misra, D. P., & Misra, V. K. (2015). Racial differences in IGF1 methylation and birth weight. Clinical Epigenetics, 7(1), [47]. DOI: 10.1186/s13148-015-0080-6

Lu, N., Massoudieh, A., Liang, X., Hu, D., Kamai, T., Ginn, T. R., ... Nguyen, T. H. (2015). Swimming motility reduces Azotobacter vinelandii deposition to silica surfaces. Journal of Environmental Quality, 44(5), 1366-1375. DOI: 10.2134/jeq2015.03.0141

O'Loughlin, J. L., Samuelson, D. R., Braundmeier-Fleming, A. G., White, B. A., Haldorson, G. J., Stone, J. B., ... Konkel, M. E. (2015). The intestinal microbiota influences Campylobacter jejuni colonization and extraintestinal dissemination in mice. Applied and Environmental Microbiology, 81(14), 4642-4650. DOI: 10.1128/AEM.00281-15

Nguyen, N. P., Mirarab, S., Kumar, K., & Warnow, T. (2015). Ultra-large alignments using ensembles of hidden Markov models. In Research in Computational Molecular Biology - 19th Annual International Conference, RECOMB 2015, Proceedings (Vol. 9029, pp. 259-260). (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 9029). Springer Verlag. DOI: 10.1007/978-3-319-16706-0_26