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Computing Genomes for Reproductive Health: Publications

Racioppi, L., Nelson, E., Huang, W., Mukherjee, D., Lawrence, S. A., Lento, W., ... McDonnell, D. P. (2019). CaMKK2 in myeloid cells is a key regulator of the immune-suppressive microenvironment in breast cancer. Nature communications, 10(1), [2450].

Salem, W., Li, K., Krapp, C., Ingles, S. A., Bartolomei, M. S., Chung, K., ... McGinnis, L. K. (2019). Imatinib treatments have long-term impact on placentation and embryo survival. Scientific Reports, 9(1), [2535].

For the Alzheimer’s Disease Neuroimaging Initiative, & Iyer, R. K. (2019). Predicting Short-term MCI-to-AD Progression Using Imaging, CSF, Genetic Factors, Cognitive Resilience, and Demographics. Scientific Reports, 9(1), [2235].

Kern, S., & Laurent, H. K. (2019). Childhood abuse predicts affective symptoms via HPA reactivity during mother-infant stress. Psychoneuroendocrinology, 107, 19-25.

Pafčo, B., Sharma, A. K., Petrželková, K. J., Vlčková, K., Todd, A., Yeoman, C. J., ... Gomez, A. (2019). Gut microbiome composition of wild western lowland gorillas is associated with individual age and sex factors. American journal of physical anthropology, 169(3), 575-585.

Shahoei, S. H., & Nelson, E. (2019). Nuclear receptors, cholesterol homeostasis and the immune system. Journal of Steroid Biochemistry and Molecular Biology, 191, [105364].

Saboo, K. V., Varatharajah, Y., Berry, B. M., Sperling, M. R., Gorniak, R., Davis, K. A., ... Iyer, R. K. (2019). A Computationally Efficient Model for Predicting Successful Memory Encoding Using Machine-Learning-based EEG Channel Selection. In 9th International IEEE EMBS Conference on Neural Engineering, NER 2019 (pp. 323-327). [8717057] (International IEEE/EMBS Conference on Neural Engineering, NER; Vol. 2019-March). IEEE Computer Society.

Ochoa-Alvarez, I., Li, H., Baumgarte, F., Hergenrother, C., Voges, J., & Hernaez, M. (2019). AliCo: A New Efficient Representation for SAM Files. In A. Bilgin, J. A. Storer, J. Serra-Sagrista, & M. W. Marcellin (Eds.), Proceedings - DCC 2019: 2019 Data Compression Conference (pp. 93-102). [8712770] (Data Compression Conference Proceedings; Vol. 2019-March). Institute of Electrical and Electronics Engineers Inc..

Goyal, M., Tatwawadi, K., Chandak, S., & Ochoa-Alvarez, I. (2019). DeepZip: Lossless Data Compression Using Recurrent Neural Networks. In A. Bilgin, J. A. Storer, J. Serra-Sagrista, & M. W. Marcellin (Eds.), Proceedings - DCC 2019: 2019 Data Compression Conference [8712659] (Data Compression Conference Proceedings; Vol. 2019-March). Institute of Electrical and Electronics Engineers Inc..

Schablitsky, J. M., Witt, K. E., Madrigal, J. R., Ellegaard, M. R., Malhi, R. S., & Schroeder, H. (2019). Ancient DNA analysis of a nineteenth century tobacco pipe from a Maryland slave quarter. Journal of Archaeological Science, 105, 11-18.

Nute, M., Saleh, E., & Warnow, T. (2019). Evaluating statistical multiple sequence alignment in comparison to other alignment methods on protein data sets. Systematic biology, 68(3), 396-411.

Bader, A. C., & Malhi, R. S. (2019). How Subjectivity Strengthens Research: Developing an Integrative Approach to Investigating Human Diet in the Pacific Northwest Coast. American Anthropologist, 121(2), 476-478.

Malhi, R. S., Antón, S. C., & Fuentes, A. (2019). Increasing Diversity in Evolutionary Anthropological Sciences—the IDEAS Program. American Anthropologist, 121(2), 478-479.

Shah, N., Nute, M. G., Warnow, T., & Pop, M. (2019). Misunderstood parameter of NCBI BLAST impacts the correctness of bioinformatics workflows. Bioinformatics (Oxford, England), 35(9), 1613-1614.

Barakat, R., Seymore, T., Lin, P. C. P., Park, C. J., & Ko, C. (2019). Prenatal exposure to an environmentally relevant phthalate mixture disrupts testicular steroidogenesis in adult male mice. Environmental Research, 194-201.

Chung, K., Kalbarczyk, Z. T., & Iyer, R. K. (2019). Availability attacks on computing systems through alteration of environmental control: Smart malware approach. In G. S. Ramachandran, & J. Ortiz (Eds.), ICCPS 2019 - Proceedings of the 2019 ACM/IEEE International Conference on Cyber-Physical Systems (pp. 1-12). (ICCPS 2019 - Proceedings of the 2019 ACM/IEEE International Conference on Cyber-Physical Systems). Association for Computing Machinery, Inc.

Parker, A. T., Gardner, A. M., Perez, M., Allan, B. F., & Muturi, E. J. (2019). Container Size Alters the Outcome of Interspecific Competition Between Aedes aegypti (Diptera: Culicidae) and Aedes albopictus. Journal of medical entomology, 56(3), 708-715.

Banerjee, S. S., Kalbarczyk, Z. T., & Iyer, R. K. (2019). AcMC 2: Accelerated Markov Chain Monte Carlo for Probabilistic Models. In ASPLOS 2019 - 24th International Conference on Architectural Support for Programming Languages and Operating Systems (pp. 515-528). (International Conference on Architectural Support for Programming Languages and Operating Systems - ASPLOS). Association for Computing Machinery.

Laurent, H. K. (2019). Challenges in Characterizing the “Mommy Brain”. Parenting, 19(1-2), 94-96.

Devendran, S., Shrestha, R., Alves, J. M. P., Wolf, P. G., Ly, L., Hernandez, A. G., ... Ridlon, J. M. (2019). Clostridium scindens ATCC 35704: Integration of nutritional requirements, the complete genome sequence, and global transcriptional responses to bile acids. Applied and environmental microbiology, 85(7), [e00052-19].

Najafi, A., Daghigh Kia, H., Mehdipour, M., Shamsollahi, M., & Miller, D. J. (2019). Does fennel extract ameliorate oxidative stress frozen-thawed ram sperm? Cryobiology, 87, 47-51.

Kim, D. H., Park, H. J., Park, H. S., Lee, J. U., Ko, C., Gye, M. C., & Choi, J. M. (2019). Estrogen receptor α in T cells suppresses follicular helper T cell responses and prevents autoimmunity. Experimental and Molecular Medicine, 51(4), [41].

Landesman, W. J., Mulder, K., Allan, B. F., Bashor, L. A., Keesing, F., LoGiudice, K., & Ostfeld, R. S. (2019). Potential effects of blood meal host on bacterial community composition in Ixodes scapularis nymphs. Ticks and Tick-borne Diseases, 10(3), 523-527.

Ma, L., & Nelson, E. (2019). Oxysterols and nuclear receptors. Molecular and Cellular Endocrinology, 484, 42-51.

Kim, B. M., Amores, A., Kang, S., Ahn, D. H., Kim, J. H., Kim, I. C., ... Park, H. (2019). Antarctic blackfin icefish genome reveals adaptations to extreme environments. Nature Ecology and Evolution, 3(3), 469-478.

Sun, Q., Zhu, R., Wang, T., & Zeng, D. (2019). Counting process-based dimension reduction methods for censored outcomes. Biometrika, 106(1), 181-186.

Parker, A. T., & Allan, B. F. (2019). Do gutter guards affect mosquito production in roof gutter habitats? Journal of the American Mosquito Control Association, 35(1), 67-70.

Amato, K. R., G. Sanders, J., Song, S. J., Nute, M., Metcalf, J. L., Thompson, L. R., ... R. Leigh, S. (2019). Evolutionary trends in host physiology outweigh dietary niche in structuring primate gut microbiomes. ISME Journal, 13(3), 576-587.

Roch, S., Nute, M., & Warnow, T. (2019). Long-Branch Attraction in Species Tree Estimation: Inconsistency of Partitioned Likelihood and Topology-Based Summary Methods. Systematic biology, 68(2), 281-297.

Welsh, E. C., Keesing, F., & Allan, B. F. (2019). Oxpecker (Buphagus erythrorhynchus, Buphagus africanus) and tick abundances in acaricide-treated livestock areas. African Journal of Ecology, 57(1), 155-159.

Park, C. J., Barakat, R., Ulanov, A., Li, Z. L., Lin, P. C., Chiu, K., ... Ko, C. (2019). Sanitary pads and diapers contain higher phthalate contents than those in common commercial plastic products. Reproductive Toxicology, 84, 114-121.

Masonbrink, R., Maier, T. R., Muppirala, U., Seetharam, A. S., Lord, E., Juvale, P. S., ... Baum, T. J. (2019). The genome of the soybean cyst nematode (Heterodera glycines) reveals complex patterns of duplications involved in the evolution of parasitism genes. BMC genomics, 20(1), [119].

Zhang, Q., Rao, S., & Warnow, T. (2019). Constrained incremental tree building: New absolute fast converging phylogeny estimation methods with improved scalability and accuracy. Algorithms for Molecular Biology, 14(1), [2].

Nowak, R. A. (2019). An interview with Professor Virendra B. Mahesh. Biology of reproduction, 100(2), 301-304.

Yu, L., Wang, L., Mao, C., Duraki, D., Kim, J. E., Huang, R., ... Shapiro, D. J. (2019). Estrogen-independent Myc overexpression confers endocrine therapy resistance on breast cancer cells expressing ERαY537S and ERαD538G mutations. Cancer Letters, 442, 373-382.

Tisha, A. L., Armstrong, A. A., Wagoner Johnson, A. J., & Lopez-Ortiz, C. (2019). Skeletal Muscle Adaptations and Passive Muscle Stiffness in Cerebral Palsy: A Literature Review and Conceptual Model. Journal of Applied Biomechanics, 35(1), 68-79.

Khan, F., & Laurent, H. K. (2019). Assessing the Impact of Mindfulness and Life Stress on Maternal Well-Being. Mindfulness, 10(1), 26-35.

Mi, X., Zou, F., & Zhu, R. (2019). Bagging and deep learning in optimal individualized treatment rules. Biometrics.

Dufort y Álvarez, G., Seroussi, G., Smircich, P., Sotelo, J., Ochoa-Alvarez, I., & Martín, Á. (2019). Compression of Nanopore FASTQ Files. In F. Ortuño, O. Valenzuela, I. Rojas, F. Rojas, & F. Ortuño (Eds.), Bioinformatics and Biomedical Engineering - 7th International Work-Conference, IWBBIO 2019, Proceedings (pp. 36-47). (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 11465 LNBI). Springer-Verlag.

Josek, T., Gardner, A. M., Hedlund, T. J., Parker, A. T., Allmann Updyke, E., & Allan, B. F. (2019). Fatal attraction: lone star ticks (Amblyomma americanum) exhibit preference for human female breath over male breath. Experimental and Applied Acarology, 77(1), 59-64.

Kucewicz, M. T., Saboo, K., Berry, B. M., Kremen, V., Miller, L. R., Khadjevand, F., ... Worrell, G. A. (2019). Human verbal memory encoding is hierarchically distributed in a continuous processing stream. eNeuro, 6(1), [e0214-18.2018].

Tang, X., Bi, X., & Qu, P. (2019). Individualized Multilayer Tensor Learning With an Application in Imaging Analysis. Journal of the American Statistical Association.

Wang, Y., Araud, E., Shisler, J. L., Nguyen, T. H., & Yuan, B. (2019). Influence of algal organic matter on MS2 bacteriophage inactivation by ultraviolet irradiation at 220 nm and 254 nm. Chemosphere, 214, 195-202.

Fogleman, A. J., Zahnd, W. E., Lipka, A. E., Malhi, R. S., Ganai, S., Delfino, K. R., & Jenkins, W. D. (Accepted/In press). Knowledge, attitudes, and perceived barriers towards genetic testing across three rural Illinois communities. Journal of Community Genetics.

Nelson, B. W., Wright, D. B., Allen, N. B., & Laurent, H. K. (2019). Maternal stress and social support prospectively predict infant inflammation. Brain, Behavior, and Immunity.

Rustom, L. E., Poellmann, M. J., & Wagoner Johnson, A. J. (2019). Mineralization in micropores of calcium phosphate scaffolds. Acta Biomaterialia, 83, 435-455.

Warnow, T. (2019). New Divide-and-Conquer Techniques for Large-Scale Phylogenetic Estimation. In M. A. Vega-Rodríguez, I. Holmes, & C. Martín-Vide (Eds.), Algorithms for Computational Biology - 6th International Conference, AlCoB 2019, Proceedings (pp. 3-21). (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 11488 LNBI). Springer-Verlag.

Feng, Z., Lin, L., Zhu, R., & Zhu, L. (2019). Nonparametric variable selection and its application to additive models. Annals of the Institute of Statistical Mathematics.

Duffy, D. M., Ko, C., Jo, M., Brannstrom, M., & Curry, T. E. (2019). Ovulation: Parallels with inflammatory processes. Endocrine reviews, 40(2), 369-416.

Kramer, K., Andrade, F. C. D., Greenlee, A. J., Mendenhall, R., Bellisle, D., & Lemons Blanks, R. (2019). Periodic Earned Income Tax Credit (EITC) Payment, Financial Stress and Wellbeing: A Longitudinal Study. Journal of Family and Economic Issues.

Xiang, D., Zhao, S. D., & Tony Cai, T. (2019). Signal classification for the integrative analysis of multiple sequences of large-scale multiple tests. Journal of the Royal Statistical Society. Series B: Statistical Methodology.

Dawson, D. N., Volpe, V. V., & Laurent, H. K. (2019). Synergistic Effects of Psychological Intimate Partner Violence Exposure and Gender Discrimination on Postnatal Mental Health Trajectories. Journal of Interpersonal Violence.

Le, T., Sy, A., Molloy, E. K., Zhang, Q. R., Rao, S., & Warnow, T. (2019). Using INC Within Divide-and-Conquer Phylogeny Estimation. In M. A. Vega-Rodríguez, I. Holmes, & C. Martín-Vide (Eds.), Algorithms for Computational Biology - 6th International Conference, AlCoB 2019, Proceedings (pp. 167-178). (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 11488 LNBI). Springer-Verlag.

Lin, H., Kalbarczyk, Z. T., & Iyer, R. K. (2018). Impact of Malicious SCADA Commands on Power Grids' Dynamic Responses. In 2018 IEEE International Conference on Communications, Control, and Computing Technologies for Smart Grids, SmartGridComm 2018 [8587462] (2018 IEEE International Conference on Communications, Control, and Computing Technologies for Smart Grids, SmartGridComm 2018). Institute of Electrical and Electronics Engineers Inc..

Stephens, Z., Wang, C., Iyer, R. K., & Kocher, J. P. (2018). Detection and visualization of complex structural variants from long reads. BMC bioinformatics, 19, [508].

Moreno-Mayar, J. V., Vinner, L., de Barros Damgaard, P., de la Fuente, C., Chan, J., Spence, J. P., ... Willerslev, E. (2018). Early human dispersals within the Americas. Science (New York, N.Y.), 362(6419).

Pei, Y., Shahoei, S. H., Li, Y., Reece, P. J., Nelson, E., Gooding, J. J., & Kilian, K. A. (2018). Vertical Integration of Cell-Laden Hydrogels with Bioinspired Photonic Crystal Membranes. Advanced Materials Interfaces, 5(23), [1801233].

Lee, G., Sherer, N. A., Kim, N. H., Rajic, E., Kaur, D., Urriola, N., ... Kuhlman, T. E. (2018). Testing the retroelement invasion hypothesis for the emergence of the ancestral eukaryotic cell. Proceedings of the National Academy of Sciences of the United States of America, 115(49), 12465-12470.

Winters, R. A., Hamilton, D. N., Bhatnagar, A. S., Fitzgerald, R., Bovin, N., & Miller, D. J. (2018). Porcine sperm binding to oviduct cells and glycans as supplements to traditional laboratory semen analysis. Journal of animal science, 96(12), 5265-5275.

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].

Summer internship for INdigenous peoples in Genomics (SING) Consortium (2018). A framework for enhancing ethical genomic research with Indigenous communities. Nature communications, 9(1), [2957].

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].

Sun, P. P., Araud, E. M., Huang, C., Shen, Y., Monroy, G. L., Zhong, S., ... Nguyen, T. H. (2018). Disintegration of simulated drinking water biofilms with arrays of microchannel plasma jets. npj Biofilms and Microbiomes, 4(1), [24].

Shen, Y., Huang, P. C., Huang, C., Sun, P., Monroy, G. L., Wu, W., ... Nguyen, T. H. (2018). Effect of divalent ions and a polyphosphate on composition, structure, and stiffness of simulated drinking water biofilms. npj Biofilms and Microbiomes, 4(1), [15].

Hernandez, J., Volland, A., Leyshon, B. J., Juda, M., Ridlon, J. M., Johnson, R. W., & Steelman, A. J. (2018). Effect of imidacloprid ingestion on immune responses to porcine reproductive and respiratory syndrome virus. Scientific Reports, 8(1), [11615].

Zhang, J., Zhang, X., Tang, H., Zhang, Q., Hua, X., Ma, X., ... Ming, R. R. (2018). Erratum to: Allele-defined genome of the autopolyploid sugarcane Saccharum spontaneum L. (Nature Genetics, (2018), 50, 11, (1565-1573), 10.1038/s41588-018-0237-2). Nature Genetics, 50(12).

Yi, M., Zhu, R., & Stephens, R. M. (2018). GradientScanSurv—An exhaustive association test method for gene expression data with censored survival outcome. PloS one, 13(12), [e0207590].

Gardner, A. M., Muturi, E. J., & Allan, B. F. (2018). Discovery and exploitation of a natural ecological trap for a mosquito disease vector. Proceedings of the Royal Society B: Biological Sciences, 285(1891), [20181962].

Collins, K., & Warnow, T. (2018). PASTA for proteins. Bioinformatics, 34(22), 3939-3941.

Xu, J., Huang, C., Shi, X., Dong, S., Yuan, B., & Nguyen, T. H. (2018). Role of drinking water biofilms on residual chlorine decay and trihalomethane formation: An experimental and modeling study. Science of the Total Environment, 642, 516-525.

Molloy, E. K., & Warnow, T. (2018). Statistically consistent divide-and-conquer pipelines for phylogeny estimation using NJMerge.

Zhang, J., Zhang, X., Tang, H., Zhang, Q., Hua, X., Ma, X., ... Ming, R. R. (2018). Allele-defined genome of the autopolyploid sugarcane Saccharum spontaneum L. Nature Genetics, 50(11), 1565-1573.

Nowak, R. A. (2018). An interview with Dr Patricia A. Martin-DeLeon. Biology of reproduction, 99(5), 899-902.

Dong, S., Massalha, N., Plewa, M. J., & Nguyen, T. H. (2018). The impact of disinfection Ct values on cytotoxicity of agricultural wastewaters: Ozonation vs. chlorination. Water Research, 144, 482-490.

Zheng, X., Xue, L., & Qu, P. (2018). Time-varying correlation structure estimation and local-feature detection for spatio-temporal data. Journal of Multivariate Analysis, 168, 221-239.

Hale, V. L., Jeraldo, P., Chen, J., Mundy, M., Yao, J., Priya, S., ... Chia, N. (2018). Distinct microbes, metabolites, and ecologies define the microbiome in deficient and proficient mismatch repair colorectal cancers. Genome medicine, 10(1).

Jha, S., Brandt, J., Gentile, A., Kalbarczyk, Z. T., & Iyer, R. K. (2018). Characterizing Supercomputer Traffic Networks Through Link-Level Analysis. In Proceedings - 2018 IEEE International Conference on Cluster Computing, CLUSTER 2018 (pp. 562-570). [8514916] (Proceedings - IEEE International Conference on Cluster Computing, ICCC; Vol. 2018-September). Institute of Electrical and Electronics Engineers Inc..

Banerjee, S. S., Athreya, A. P., Kalbarczyk, Z. T., Lumetta, S. S., & Iyer, R. K. (2018). A ML-based runtime system for executing dataflow graphs on heterogeneous processors. In SoCC 2018 - Proceedings of the 2018 ACM Symposium on Cloud Computing (SoCC 2018 - Proceedings of the 2018 ACM Symposium on Cloud Computing). Association for Computing Machinery, Inc.

Yuan, J., Hu, Z., Mahal, B. A., Zhao, S. D., Kensler, K. H., Pi, J., ... Zhang, L. (2018). Integrated Analysis of Genetic Ancestry and Genomic Alterations across Cancers. Cancer Cell, 34(4), 549-560.e9.

Bi, X., & Qu, P. (2018). A mixed-effects estimating equation approach to nonignorable missing longitudinal data with Refreshment samples. Statistica Sinica, 28(4), 1653-1675.

Ho-Shui-Ling, A., Bolander, J., Rustom, L. E., Wagoner Johnson, A. J., Luyten, F. P., & Picart, C. (2018). Bone regeneration strategies: Engineered scaffolds, bioactive molecules and stem cells current stage and future perspectives. Biomaterials, 180, 143-162.

Keesing, F., Ostfeld, R. S., Okanga, S., Huckett, S., Bayles, B. R., Chaplin-Kramer, R., ... Allan, B. F. (2018). Consequences of integrating livestock and wildlife in an African savanna. Nature Sustainability, 1(10), 566-573.

Lin, H., Kalbarczyk, Z. T., & Iyer, R. K. (Accepted/In press). RAINCOAT: RAndomization of Network Communication in Power Grid Cyber INfrastructure to Mislead Attackers. IEEE Transactions on Smart Grid.

Harwood, S. A., Mendenhall, R., Lee, S. S., Riopelle, C., & Huntt, M. B. (2018). 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, 108(5), 1245-1259.

Gassen, J., Prokosch, M. L., Makhanova, A., Eimerbrink, M. J., White, J. D., Proffitt Leyva, R. P., ... Hill, S. E. (2018). Behavioral immune system activity predicts downregulation of chronic basal inflammation. PloS one, 13(9), [e0203961].

Alexander, C., Cross, T. W. L., Devendran, S., Neumer, F., Theis, S., Ridlon, J. M., ... Swanson, K. S. (2018). Effects of prebiotic inulin-Type fructans on blood metabolite and hormone concentrations and faecal microbiota and metabolites in overweight dogs. Clay Minerals, 120(6), 711-720.

Moran, R. L., Zhou, M., Catchen, J. M., & Fuller, B. C. (2018). Hybridization and postzygotic isolation promote reinforcement of male mating preferences in a diverse group of fishes with traditional sex roles. Ecology and Evolution, 8(18), 9282-9294.

Löber, U., Hobbs, M., Dayaram, A., Tsangaras, K., Jones, K., Alquezar-Planas, D. E., ... Greenwood, A. D. (2018). Degradation and remobilization of endogenous retroviruses by recombination during the earliest stages of a germ-line invasion. Proceedings of the National Academy of Sciences of the United States of America, 115(34), 8609-8614.

Pattabiraman, S., & Warnow, T. (2018). Are Profile Hidden Markov Models Identifiable? In ACM-BCB 2018 - Proceedings of the 2018 ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics (pp. 448-456). (ACM-BCB 2018 - Proceedings of the 2018 ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics). Association for Computing Machinery, Inc.

Stephens, Z. D., & Iyer, R. K. (2018). Measuring the Mappability Spectrum of Reference Genome Assemblies. In ACM-BCB 2018 - Proceedings of the 2018 ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics (pp. 47-52). Association for Computing Machinery, Inc.

Potter, B. A., Baichtal, J. F., Beaudoin, A. B., Fehren-Schmitz, L., Haynes, C. V., Holliday, V. T., ... Surovell, T. A. (2018). Current evidence allows multiple models for the peopling of the Americas. Science Advances, 4(8), [eaat5473].

Athreya, A., Iyer, R. K., Neavin, D., Wang, L., Weinshilboum, R., Kaddurah-Daouk, R., ... Bobo, W. (2018). Augmentation of physician assessments with multi-omics enhances predictability of drug response: A case study of major depressive disorder. IEEE Computational Intelligence Magazine, 13(3), 20-31. [8416980].

Barakat, R., Lin, P. C., Park, C. J., Best, C., Bakry, H. H., Abosalem, M. E., ... Ko, C. (2018). Corrigendum to "Prenatal Exposure to DEHP Induces Neuronal Degeneration and Neurobehavioral Abnormalities in Adult Male Mice". Toxicological sciences : an official journal of the Society of Toxicology, 164(2).

Khan, R., Nguyen, T. H., Shisler, J. L., 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].

Zhang, Q., Rao, S., & Warnow, T. (2018). New absolute fast converging phylogeny estimation methods with improved scalability and accuracy. In L. Parida, & E. Ukkonen (Eds.), 18th International Workshop on Algorithms in Bioinformatics, WABI 2018 [8] (Leibniz International Proceedings in Informatics, LIPIcs; Vol. 113). Schloss Dagstuhl- Leibniz-Zentrum fur Informatik GmbH, Dagstuhl Publishing.

Nelson, K. L., Boehm, A. B., Davies-Colley, R. J., Dodd, M. C., Kohn, T., Linden, K. G., ... Zepp, R. G. (2018). Sunlight-mediated inactivation of health-relevant microorganisms in water: a review of mechanisms and modeling approaches. Environmental Science: Processes and Impacts, 20(8), 1089-1122.

Jha, S., Banerjee, S. S., Cyriac, J., Kalbarczyk, Z. T., & Iyer, R. K. (2018). AVFI: Fault Injection for Autonomous Vehicles. In Proceedings - 48th Annual IEEE/IFIP International Conference on Dependable Systems and Networks Workshops, DSN-W 2018 (pp. 55-56). [8416212] (Proceedings - 48th Annual IEEE/IFIP International Conference on Dependable Systems and Networks Workshops, DSN-W 2018). Institute of Electrical and Electronics Engineers Inc..

Banerjee, S. S., Jha, S., Cyriac, J., Kalbarczyk, Z. T., & Iyer, R. K. (2018). Hands off the wheel in autonomous vehicles? A systems perspective on over a million miles of field data. In Proceedings - 48th Annual IEEE/IFIP International Conference on Dependable Systems and Networks, DSN 2018 (pp. 586-597). [8416518] Institute of Electrical and Electronics Engineers Inc..

Shih, H. Y., Mickalide, H., Fraebel, D. T., Goldenfeld, N. D., & Kuehn, S. (2018). Biophysical constraints determine the selection of phenotypic fluctuations during directed evolution. Physical Biology, 15(6), [065003].

Leathlobhair, M. N., Perri, A. R., Irving-Pease, E. K., Witt, K. E., Linderholm, A., Haile, J., ... Frantz, L. A. F. (2018). The evolutionary history of dogs in the Americas. Science, 361(6397), 81-85.

Brandt, A. L., Green, M. L., Ishida, Y., Roca, A. L., Novakofski, J. E., & Mateus-Pinilla, N. E. (2018). Influence of the geographic distribution of prion protein gene sequence variation on patterns of chronic wasting disease spread in white-tailed deer (Odocoileus virginianus). Prion, 12(3-4), 204-215.

Saul, M. C., Blatti, C., Yang, W., Bukhari, S. A., Shpigler, H. Y., Troy, J. M., ... Sinha, S. (2018). Cross-species systems analysis of evolutionary toolkits of neurogenomic response to social challenge. Genes, Brain and Behavior, e12502.

Josek, T., Walden, K. K. O., Allan, B. F., Alleyne, M., & Robertson, H. M. (2018). 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, 9(5), 1317-1327.

Lipscomb, S. T., Becker, D. R., Laurent, H. K., Neiderhiser, J. M., Shaw, D. S., Natsuaki, M. N., ... Leve, L. D. (2018). 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, 27(4), [e2083].

Athreya, A. P., Gaglio, A. J., Cairns, J., Kalari, K. R., Weinshilboum, R. M., Wang, L., ... Iyer, R. K. (2018). Machine learning helps identify new drug mechanisms in triple-negative breast cancer. IEEE Transactions on Nanobioscience, 17(3), 251-259. [8401331].

Bassham, S., Catchen, J. M., Lescak, E., von Hippel, F. A., & Cresko, W. A. (2018). Repeated selection of alternatively adapted haplotypes creates sweeping genomic remodeling in stickleback. Genetics, 209(3), 921-939.

Zhou, W., Davis, E. A., Li, K., Nowak, R. A., & Dailey, M. J. (2018). Sex differences influence intestinal epithelial stem cell proliferation independent of obesity. Physiological Reports, 6(13), [e13746].

Vachaspati, P., & Warnow, T. (2018). SVDquest: Improving SVDquartets species tree estimation using exact optimization within a constrained search space. Molecular Phylogenetics and Evolution, 124, 122-136.

Halsey, S. J., Allan, B. F., & Miller, J. R. (2018). The role of Ixodes scapularis, Borrelia burgdorferi and wildlife hosts in Lyme disease prevalence: A quantitative review. Ticks and Tick-borne Diseases, 9(5), 1103-1114.

Brandt, J. R., De Groot, P. J. V. C., Witt, K. E., Engelbrektsson, P. K., Helgen, K. M., Malhi, R. S., ... Roca, A. L. (2018). Genetic Structure and Diversity Among Historic and Modern Populations of the Sumatran Rhinoceros (Dicerorhinus sumatrensis). Journal of Heredity, 109(5), 553-565.

Varatharajah, Y., Berry, B., Cimbalnik, J., Kremen, V., Van Gompel, J., Stead, M., ... Worrell, G. (2018). Integrating artificial intelligence with real-time intracranial EEG monitoring to automate interictal identification of seizure onset zones in focal epilepsy. Journal of Neural Engineering, 15(4), [046035].

Karig, D., Michael Martini, K., Lu, T., DeLateur, N. A., Goldenfeld, N. D., & Weiss, R. (2018). Stochastic Turing patterns in a synthetic bacterial population. Proceedings of the National Academy of Sciences of the United States of America, 115(26), 6572-6577.

Mendenhall, R., Cross, K. J., Amos, J. R., Clancy, K. B. H., Imoukhuede, P., & Cromley, J. G. (2018). Intersecting identities of women in engineering. ASEE Annual Conference and Exposition, Conference Proceedings, 2018-June.

Vlčková, K., Pafčo, B., Petrželková, K. J., Modrý, D., Todd, A., Yeoman, C. J., ... Gomez, A. (2018). Relationships between gastrointestinal parasite infections and the fecal microbiome in free-ranging western lowland gorillas. Frontiers in Microbiology, 9(JUN), [1202].

Scheib, C. L., Li, H., Desai, T., Link, V., Kendall, C., Dewar, G., ... Kivisild, T. (2018). Ancient human parallel lineages within North America contributed to a coastal expansion. Science, 360(6392), 1024-1027.

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.

Dong, S., Li, J., Kim, M. H., Cho, J., Park, S. J., Nguyen, T. H., & Eden, J. G. (2018). Deactivation of Legionella Pneumophila in municipal wastewater by ozone generated in arrays of microchannel plasmas. Journal of Physics D: Applied Physics, 51(25), [255501].

Dominguez, V. R., & Malhi, R. S. (2018). Foreword. American Anthropologist, 120(2), 328-329.

Showmaker, K. C., Walden, K. K. O., Fields, C. J., Lambert, K. N., & Hudson, M. (2018). Genome sequence of the soybean cyst nematode (Heterodera glycines) endosymbiont "Candidatus Cardinium hertigii" strain cHgTN10. Genome Announcements, 6(26), [e00624-18].

Grigorev, K., Kliver, S., Dobrynin, P., Komissarov, A., Wolfsberger, W., Krasheninnikova, K., ... Oleksyk, T. K. (2018). Innovative assembly strategy contributes to understanding the evolution and conservation genetics of the endangered Solenodon paradoxus from the island of Hispaniola. GigaScience, 7(6), [giy025].

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

Hylemon, P. B., Harris, S. C., & Ridlon, J. M. (2018). Metabolism of hydrogen gases and bile acids in the gut microbiome. FEBS Letters, 592(12), 2070-2082.

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.

Soliman, A., MacKay, A. J., Schmidt, A., Allan, B., & Wang, S. (Accepted/In press). Quantifying the geographic distribution of building coverage across the US for urban sustainability studies. Computers, Environment and Urban Systems.

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

Clayton, J. B., Gomez, A., Amato, K., Knights, D., Travis, D. A., Blekhman, R., ... Johnson, T. J. (2018). The gut microbiome of nonhuman primates: Lessons in ecology and evolution. American journal of primatology, 80(6), [e22867].

Mallott, E. K., Garber, P. A., & Malhi, R. S. (2018). Trnl outperforms rbcl as a DNA metabarcoding marker when compared with the observed plant component of the diet of wild white-faced capuchins (cebus capucinus, primates). PloS one, 13(6), [e0199556].

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 2243TGut Microbes, 1-17.

Vachaspati, P., & Warnow, T. (2018). SIESTA: Enhancing searches for optimal supertrees and species trees. BMC genomics, 19, [252].

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].

Nelson, E. (2018). The significance of cholesterol and its metabolite, 27-hydroxycholesterol in breast cancer. Molecular and Cellular Endocrinology, 466, 73-80.

Josek, T., Allan, B. F., & Alleyne, M. (2018). Morphometric Analysis of Chemoreception Organ in Male and Female Ticks (Acari: Ixodidae). Journal of medical entomology, 55(3), 547-552.

Lindo, J., Rogers, M., Mallott, E. K., Petzelt, B., Mitchell, J., Archer, D., ... DeGiorgio, M. (2018). Patterns of Genetic Coding Variation in a Native American Population before and after European Contact. American Journal of Human Genetics, 102(5), 806-815.

Li, Q., Lawrence, C. R., Nowak, R. A., Flaws, J. A., Bagchi, M. K., & Bagchi, I. C. (2018). Bisphenol A and phthalates modulate peritoneal macrophage function in female mice involving SYMD2-H3K36 dimethylation. Endocrinology, 159(5), 2216-2228.

Lee-Thacker, S., Choi, Y., Taniuchi, I., Takarada, T., Yoneda, Y., Ko, C., & Jo, M. (2018). Core binding factor b expression in ovarian granulosa cells is essential for female fertility. Endocrinology, 159(5), 2094-2109.

Laurent, H. K., 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.

Ishida, Y., Gugala, N. A., Georgiadis, N. J., & Roca, A. L. (2018). Evolutionary and demographic processes shaping geographic patterns of genetic diversity in a keystone species, the African forest elephant (Loxodonta cyclotis). Ecology and Evolution, 8(10), 4919-4931.

Akpertey, A., Singh, R. J., Diers, B. W., Graef, G. L., Mian, M. A. R., Shannon, J. G., ... Nelson, R. L. (2018). Genetic introgression from Glycine tomentella to soybean to increase seed yield. Crop Science, 58(3), 1277-1291.

Swaminathan, S., Abeysekara, N. S., Knight, J. M., Liu, M., Dong, J., Hudson, M., ... 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.

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].

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.

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.

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].

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.

Nowak, R. A. (2018). An interview with Dr Linda C. Giudice. Biology of reproduction, 98(4), 437-439.

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.

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.

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.

Laurent, H. K., Wright, D., & Finnegan, M. (2018). Mindfulness-related differences in neural response to own infant negative versus positive emotion contexts. Developmental Cognitive Neuroscience, 30, 70-76.

Pomatto, V., Cottone, E., Cocci, P., Mozzicafreddo, M., Mosconi, G., Nelson, E., ... 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.

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].

Vazquez-Bravo, B., Gonçalves, K., Shisler, J. L., & Marinas, B. J. (2018). Adenovirus Replication Cycle Disruption from Exposure to Polychromatic Ultraviolet Irradiation. Environmental Science and Technology, 52(6), 3652-3659.

Branscomb, E., Biancalani, T., Goldenfeld, N., & Russell, M. (2018). Escapement mechanisms and the conversion of disequilibria; the engines of creation. Physics Reports, 677, 1-60.

Potter, B. A., Beaudoin, A. B., Haynes, C. V., Holliday, V. T., Holmes, C. E., Ives, J. W., ... Surovell, T. (2018). Arrival routes of first Americans uncertain. Science, 359(6381), 1224-1225.

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].

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.

Ferrando, D., Toubiana, D., Kandiyote, N. S., Nguyen, T. H., Nejidat, A., & Herzberg, M. (2018). Ambivalent role of calcium in the viscoelastic properties of extracellular polymeric substances and the consequent fouling of reverse osmosis membranes. Desalination, 429, 12-19.

Eiserhardt, W. L., Antonelli, A., Bennett, D. J., Botigué, L. R., Burleigh, J. G., Dodsworth, S., ... Baker, W. J. (2018). A roadmap for global synthesis of the plant tree of life. American journal of botany, 105(3), 614-622.

Keesing, F., Ostfeld, R. S., Young, T. P., & Allan, B. F. (2018). Cattle and rainfall affect tick abundance in central Kenya. Parasitology, 145(3), 345-354.

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.

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.

Hu, R., Morley, M. P., Brandimarto, J., Tucker, N. R., Parsons, V. A., Zhao, S. D., ... Cappola, T. P. (2018). Genetic Reduction in Left Ventricular Protein Kinase C-α and Adverse Ventricular Remodeling in Human Subjects. Circulation. Genomic and precision medicine, 11(3), e001901.

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.

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.

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.

Vidimar, V., Chakravarti, D., Bulun, S. E., Yin, P., Nowak, R. A., 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.

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.

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].

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.

Gernat, T., Rao, V. D., Middendorf, M., Dankowicz, H., Goldenfeld, N. D., & 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.

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].

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

Mendenhall, R., Kramer, K., & 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.

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.

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.

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].

Bayzid, M. S., & Warnow, T. (2018). Gene tree parsimony for incomplete gene trees: Addressing true biological loss. Algorithms for Molecular Biology, 13(1), [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.

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].

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.

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.

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.

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.

Nowak, R. A. (2018). An interview with Dr R. Michael Roberts. Biology of reproduction, 98(6), 739-741.

Nowak, R. A. (2018). An interview with Dr Sudhansu K. Dey. Biology of reproduction, 98(1), 1-3.

Banerjee, S. S., Aly, M., Lim, J. B., Kalbarczyk, Z. T., Chen, D., Lumetta, S. S., & Iyer, R. K. (Accepted/In press). ASAP: Accelerated Short-Read Alignment on Programmable Hardware. IEEE Transactions on Computers.

Gates-Tanzer, L. T., & Shisler, J. L. (2018). Cellular FLIP long isoform (cFLIP l )-IKKα interactions inhibit IRF7 activation, representing a new cellular strategy to inhibit IFNα expression Journal of Biological Chemistry, 293(5), 1745-1755.

Zhu, X., & Qu, P. (2018). Cluster analysis of longitudinal profiles with subgroups. Electronic Journal of Statistics, 12(1), 171-193.

Cianzio, S. R., Arelli, P. R., Swaminathan, S., Lundeen, P., Gebhart, G., Rivera-Velez, N., ... Hudson, M. (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.

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].

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].

Armstrong, A., Wagoner Johnson, A. J., & Alleyne, A. G. (2018). Improved cross-coupled iterative learning control for contouring NURBS curves. In Control and Optimization of Connected and Automated Ground Vehicles; Dynamic Systems and Control Education; Dynamics and Control of Renewable Energy Systems; Energy Harvesting; Energy Systems; Estimation and Identification; Intelligent Transportation and Vehicles; Manufacturing; Mechatronics; Modeling and Control of IC Engines and Aftertreatment Systems; Modeling and Control of IC Engines and Powertrain Systems; Modeling and Management of Power Systems (Vol. 2). American Society of Mechanical Engineers (ASME).

Peng, J., Milenkovic, O., & Ochoa-Alvarez, I. (2018). METHCOMP: A special purpose compression platform for DNA methylation data. Bioinformatics, 34(15), 2654-2656.

Rong, Y., Zhao, S. D., Zhu, J., Yuan, W., Cheng, W., & Li, Y. (2018). More accurate semiparametric regression in pharmacogenomics. Statistics and its Interface, 11(4), 573-580.

Bi, X., Qu, P., & Shen, X. (2018). Multilayer tensor factorization with applications to recommender systems. Annals of Statistics, 46(6B), 3308-3333.

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.

Molloy, E. K., & Warnow, T. (2018). NJMerge: A Generic technique for scaling phylogeny estimation methods and its application to species trees. In A. Ouangraoua, & M. Blanchette (Eds.), Comparative Genomics - 16th International Conference, RECOMB-CG 2018, Proceedings (pp. 260-276). (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 11183 LNBI). Springer-Verlag.

Park, C. J., Kim, H., Jin, J., Barakat, R., Lin, P. C., Choi, J. M., & Ko, C. (2018). Porcine intestinal lymphoid tissues synthesize estradiol. Journal of Veterinary Science, 19(4), 477-482.

Barakat, R., Lin, P. C., Park, C. J., Best, C., Bakry, H. H., Abosalem, M. E., ... Ko, C. (2018). Prenatal exposure to DEHP induces neuronal degeneration and neurobehavioral abnormalities in adult male mice. Toxicological Sciences, 164(2), 439-452.

Antón, S. C., Malhi, R. S., & Fuentes, A. (2018). Race and diversity in U.S. Biological Anthropology: A decade of AAPA initiatives. American journal of physical anthropology, 165, 158-180.

Stelle, L., Schoenheit, T., Brubaker, A., Tang, X., Qu, P., Cradock, K. A., & Higham, A. M. (2018). Radioactive Seed Localization Versus Wire Localization for Nonpalpable Breast Lesions: A Two-Year Initial Experience at a Large Community Hospital. Annals of Surgical Oncology, 25(1), 131-136.

Jha, S., Formicola, V., Di Martino, C., Dalton, M., Kramer, W. T., Kalbarczyk, Z. T., & Iyer, R. K. (2018). Resiliency of HPC interconnects: A case study of interconnect failures and recovery in blue waters. IEEE Transactions on Dependable and Secure Computing, 15(6), 915-930. [8006294].

Lin, H., Slagell, A. J., Kalbarczyk, Z. T., Sauer, P. W., & Iyer, R. K. (2018). Runtime semantic security analysis to detect and mitigate control-related attacks in power grids. IEEE Transactions on Smart Grid, 9(1), 163-178.

Johnson, K. P., Nguyen, N. P., Sweet, A. D., Boyd, B. M., Warnow, T., & Allen, J. M. (2018). Simultaneous radiation of bird and mammal lice following the K-Pg boundary. Biology Letters, 14(5), [20180141].

Zheng, X., Andruska, N., Lambrecht, M. J., He, S., Parissenti, A., Hergenrother, P., ... 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.

Devendran, S., Mythen, S. M., & Ridlon, J. M. (2018). The desA and desB genes from Clostridium scindens ATCC 35704 encode steroid-17,20-desmolase. Journal of Lipid Research, 59(6), 1005-1014.

Mendenhall, R. (2018). The medicalization of poverty in the lives of low-income black mothers and children. Journal of Law, Medicine and Ethics, 46(3), 644-650.