M. A. Langston's Selected Recent Publications

Michael A. Langston's Selected Recent Publications

Copies available upon request.

``Identifying Genetic Loci and Spleen Gene Coexpression Networks Underlying Immunophenotypes in BXD Recombinant Inbred Mice,'' Physiological Genomics 41 (2010), 244-253, with E. J. Chesler, S. Das, S. A. Kania, R. M. Lynch, S. Naswa, G. L. Rogers, A. M. Saxton and B. H. Voy.
``Charge and Reduce: A Fixed-Parameter Algorithm for String-to-String Correction,'' Discrete Optimization 8 (2011), 41-49, with F. N. Abu-Khzam, H. Fernau, S. Lee-Cultura and U. Stege.
``Quadratic Kernelization for Convex Recoloring of Trees,'' Algorithmica 61 (2011), 362-388, with H. L. Bodlaender, M. R. Fellows, M. A. Ragan, F. A. Rosamond and M. Weyer.
``Immersion Containment and Connectivity in Color-Critical Graphs,'' Discrete Mathematics and Theoretical Computer Science 14 (2012), 155-164, with F. N. Abu-Khzam.
``GeneWeaver: a Web-based System for Integrative Functional Genomics,'' Nucleic Acids Research 40 (2012), D1067-D1076, with E. J. Baker, J. A. Bubier, E. J. Chesler and J. J. Jay.
``Increased Expression of IRF4 in Allergen-Challenged CD4+ Cells from Patients with Intermittent Allergic Rhinitis,'' Allergy 67 (2012), 33-40, with B. A. Andersson, F. Barrenas, M. Benson, S. Bruhn, S. Chavali, B. S. Egan, E. Hovig, R. Mobini, G. L. Rogers, G. K. Sandve and H. Wang.
``Genetic Dissection of Acute Ethanol Responsive Gene Networks in Prefrontal Cortex: Functional and Mechanistic Implications,'' PLoS ONE 7 (2012), e33575, with N. Bruce, M. F. Miles, C. A. Phillips, P. Vorster, R. W. Williams, A. R. Wolen and T. York.
``A Systematic Comparison of Genome Scale Clustering Algorithms,'' BMC Bioinformatics 13 Suppl 10:S7 (2012), with M. Benson, E. J. Chesler, J. D. Eblen, J. J. Jay, A. D. Perkins, A. M. Saxton, B. H. Voy and Y. Zhang.
``The Maximum Clique Enumeration Problem: Algorithms, Applications and Implementations,'' BMC Bioinformatics 13 Suppl 10:S5 (2012), with J. D. Eblen, C. A. Phillips and G. L. Rogers.
``Inferring Networks for Disease,'' in Systems Biology (R.A. Meyers, editor), Wiley-VCH, 2012, 565-592, with M. Benson.
``Fixed-Parameter Tractability, A Prehistory,'' in The Multivariate Complexity Revolution and Beyond: Essays Dedicated to Michael R. Fellows on the Occasion of His 60th Birthday (H. L. Bodlaender, R. Downey, F. V. Fomin and D. Marx, editors), Springer, 2012, 3-16.
``DNA Methylation Changes Separate Allergic Patients from Healthy Controls and May Reflect Altered CD4+ T Cell Population Structure,'' PLoS Genetics 10 (2014), e1004059, with F. Barrenas, M. Benson, S. Bruhn, M. Gustafsson, R. Jornsten, C. E. Nestor, G. L. Rogers and H. Wang.
``Differential Shannon Entropy and Differential Coefficient of Variation: Alternatives and Augmentations to Differential Expression in the Search for Disease-Related Genes,'' International Journal of Computational Biology and Drug Design 7 (2014), 183-194, with F. Barrenas, M. Benson, C. A. Phillips, G. L. Rogers and K. Wang.
``On Finding Bicliques in Bipartite Graphs: a Novel Algorithm and Its Application to the Integration of Diverse Biological Data Types,'' BMC Bioinformatics 15 (2014), with Y. Zhang, C. A. Phillips, G. L. Rogers, E. J. Baker and E. J. Chesler.
``Scalable Combinatorial Tools for Health Disparities Research,'' International Journal of Environmental Research and Public Health 11 (2014) 10419-10443, with R. S. Levine, B. J. Kilbourne, G. L. Rogers, A. D. Kershenbaum, S. H. Baktash, S. S. Coughlin, A. M. Saxton, V. A. Agboto, D. B. Hood, M. Y. Litchveld, T. J. Oyana, P. Matthews-Juarez and P. D. Juarez.
``Social Determinants and the Classification of Disease: Descriptive Epidemiology of Selected Socially Mediated Disease Constellations,'' PLoS ONE 9 (2014), DOI: 10.1371/journal.pone.0110271, with R. S. Levine, B. J. Kilbourne, G. S. Rust, B. Husaini and C. H. Hennekens.
``Exploration of Preterm Birth Rates using the Public Health Exposome Database and Computational Analysis Methods,'' International Journal of Environmental Research and Public Health 11 (2014), 12346-12366, with A. D. Kershenbaum, R. S. Levine, A. M. Saxton, T. J.Oyana, B. J. Kilbourne, G. L. Rogers, L. S. Gittner, S. H. Baktash, P. Matthews-Juarez and P. D. Juarez.
``The Public Health Exposome: A Population-based, Exposure Science Approach to Health Disparities Research,'' International Journal of Environmental Research and Public Health 11 (2014), 12866-12895, with P. D. Juarez, P. Matthews-Juarez, D. B. Hood, W. Im, R. S. Levine, B. J. Kilbourne, M. Z. Alhamdan, W. L. Crosson, M. G. Estes, S. Estes, V. K. Agboto, P. Robinson, S. Wilson and M. Y. Lichtveld.
``Efficient Prediction of Human Protein-Protein Interactions at a Global Scale,'' BMC Bioinformatics 15:383 (2014), with M. D. Alamgir, F. Barren╝s, M. Benson, F. Dehne, A. Golshani, J. R. Green, Y. Gui, M. Hooshyar, K. Omidi, C. A. Phillips, S. Pitre, B. Samanfar, A. Schoenrock and H. Wang.
``CbGRiTS: Cerebellar Gene Regulation in Time and Space,'' Developmental Biology 397 (2015), 18-30, with T. Ha, D. J. Swanson, M. Larouche, D. Weeden, K. Hamre, C. A. Phillips, M. Song, Z. Ouyang, E. J. Chesler, S. Duvvurru, R. Yordanova, Y. Cui, K. Campbell, G. Ricker, C. Phillips, R. Homayouni and D. A. Goldowitz.
``GeneWeaver: Finding Consilience in Heterogeneous Cross-Species Functional Genomics Data,'' Mammalian Genome 26 (2015), DOI: 10.1007/s00335-015-9575-x, with J. A. Bubier, C. A. Phillips, E. J. Baker and E. J. Chesler.
``Mammography Screening Among the Elderly: A Research Challenge,'' The American Journal of Medicine (2015), DOI: 10.1016/j.amjmed.2015.06.032, with M. Sanderson, R. S. Levine, M. K. Fadden, B. Kilbourne, M. Pisu, V. Cain, B. A. Husaini, L. S. Gittner, R. Zoorob, G. S. Rust and C. H. Hennekens.
``Rural Congestive Heart Failure Mortality among US Elderly, 1999-2013: Identifying Counties with Promising Outcomes and Opportunities for Implementation Research,'' Family Medicine and Community Health 3 (2015), 27-38, with M. C. Mejia de Grubb, R. S. Levine, B. J. Kilbourne, B. A. Husaini, T. Skelton, L. S. Gittner and G. E. Rust.
``An Automated Resource for Enhanced Differential Analysis,'' BMC Bioinformatics 16 Suppl 15:20 (2015), with K. Wang, C. A. Phillips and A. M. Saxton.
``Lower Bounds on Paraclique Density,'' Discrete Applied Mathematics 204 (2016), 208-212, with R. D. Hagan and K. Wang.
``EntropyExplorer: An R Package for Computing and Comparing Differential Shannon Entropy, Differential Coefficient of Variation and Differential Expression,''BMC Research Notes 8 (2015), DOI: 10.1186/s13104-015-1786-4, with K. Wang, C. A. Phillips and A. M. Saxton.
``Cross-Species Integrative Functional Genomics Reveals a Role for Pafah1b1 in Altered Response to Alcohol,'' Frontiers in Behavioral Neuroscience 10 (2016), DOI: 10.3389/fnbeh.2016.00001, with J. A. Bubier, T. Wilcox, J. J. Jay, E. J. Baker and E. J. Chesler.
``GeneWeaver: Data Driven Alignment of Cross-Species Genomics in Biology and Disease,'' Nucleic Acids Research 44 (2016), D555-D559, with E. J. Baker, J. A. Bubier, T. Reynolds and E. J. Chesler.
``Validation of Research Trajectory 1 of an Exposome Framework: Exposure to Benzo(a)pyrene Confers Enhanced Susceptibility to Bacterial Infection,'' Environmental Research 146 (2016), 173-184, with R. S. Clark, S. T. Pellom, B. Booker, A. Ramesh, T. Zhang, A. Shanker, M. Maguire, P. D. Juarez, P. Matthews-Juarez, M. Y. Lichtveld and D. B. Hood.
``Integrative Functional Genomics for Systems Genetics in GeneWeaver.org,'' Methods in Molecular Biology 1488 (2016), 131-152, with J. A. Bubier, E. J. Baker and E. J. Chesler.
``Robust Inference of Genetic Exchange Communities from Microbial Genomes using TFIDF,'' Frontiers in Microbiology 8 (2017), with Y. Cong, Y. Chan, C. A. Phillips and M. A. Ragan.
``Genome-Wide DNA Methylation Analysis Reveals Loci that Distinguish Different Types of Adipose Tissue in Obese Individuals,'' Clinical Epigenetics 9:48 (2017), with D. Macartney-Coxson, M. C. Benton, R. Blick, R. S. Stubbs and R. D. Hagan.
``A Multifactorial Obesity Model Developed from Nationwide Public Health Exposome Data and Modern Computational Analyses,'' Obesity Research & Clinical Practice 644 (2017), with L. S. Gittner, B. J. Kilbourne, R. Vadapalli and H. M. K. Khan.
``A Novel Approach to Analyzing Lung Cancer Mortality Disparities: Using the Exposome and a Graph Theoretical Toolchain,'' Environmental Disease 2 (2017), 33-44, with P. D. Juarez, D. B. Hood, G. L. Rogers, S. H. Baktash, A. M. Saxton, P. Matthews-Juarez, W. Im, M. P. Cifuentes, C. A. Phillips and M. Y. Lichtveld.
``Infant Mortality and Gun Violence Mortality: Causal or Casual?,'' Journal of the National Medical Association 109 (2017), 246-251, with R. S. Levine, J. L. Salemi, M. C. Mejia de Grubb, L. S. Gittner, B. A. Husaini, G. S. Rust and C. H. Hennekens.
``Socioeconomic, Environmental and Geographic Factors and United States Lung Cancer Mortality, 1999-2009,'' Family Medicine and Community Health 5 (2017), 3-12, with M. C. Mejia de Grubb, B. J. Kilbourne, C. Kilbourne, R. Zoorob and R. S. Levine.
``Graph Theoretical Analysis of Genome-Scale Data: Examination of Gene Activation Occurring in the Setting of Community-Acquired Pneumonia,'' Shock: Injury, Inflammation, and Sepsis: Laboratory and Clinical Approaches (2018), DOI 10.1097/SHK.0000000000001029, with O. M. P. Palmer, G. Clermont, G. L. Rogers, S. Yende and D. C. Angus.
``On Finding and Enumerating Maximal and Maximum k-Partite Cliques in k-Partite Graphs,'' Algorithms 12 (2019), DOI 10.3390/a12010023, with C. A. Phillips, K. Wang, E. J. Baker, J. A. Bubier and E. J. Chesler.
``Integration of Heterogeneous Functional Genomics Data in Gerontology Research Identifies Genes and Pathways Underlying Aging across Species,'' PLoS ONE 14 (2019), DOI 10.1371/journal.pone.0214523, with J. A. Bubier, G. L. Sutphin, T. J. Reynolds, R. Korstanje, A. Fuksman-Kumpa, E. J. Baker and E. J. Chesler.
``A Robustness Metric for Biological Data Clustering Algorithms,'' BMC Bioinformatics 20 Suppl 15 (2019), with Y. Lu and C. A. Phillips.
``MicroRNA Profiling in Adipose Before and After Weight Loss Highlights the Role of miR-223-3p and the NLRP3 Inflammasome,'' Obesity Biology and Integrated Physiology 28 (2020), 570-580, with D. Macartney-Coxson, K. Danielson, J. Clapham, M. C. Benton, A. Johnston, A. Jones, O. Shaw, R. D. Hagan, E. Hoffman, M. Hayes, J. Harper and R. S. Stubbs.
``Biclique: An R package for Maximal Biclique Enumeration in Bipartite Graphs,'' BMC Research Notes 13 (2020), DOI: 10.1186/s13104-020-04955-0, with Y. Lu and C. A. Phillips.
``The Effects of Social, Personal, and Behavioral Risk Factors and PM2.5 on Cardio-Metabolic Disparities in a Cohort of Community Health Center Patients,'' International Journal of Environmental Research and Public Health 17 (2020), DOI: 10.3390/ijerph17103561, with P. D. Juarez, M. Tabatabai, R. B. Valdez, D. B. Hood, W. Im, C. Mouton, C. Colen, M. Z. Al-Hamdan, P. Matthews-Juarez, M. Y. Lichtveld, D. Sarpong, A. Ramesh, G. L. Rogers, C. A. Phillips, J. F. Reichard, M. M. Donneyong and W. J. Blot.
``Structural and Social Determinants of Health Factors Associated with County-Level Variation in Non-Adherence to Antihypertensive Medication Treatment,'' International Journal of Environmental Research and Public Health 17 (2020), DOI: 10.3390/ijerph17186684, with M. M. Donneyong, T-J Chang, J. J. Jackson, P. D. Juarez, S. Sealy-Jefferson, B. Lu, W. Im, R. B. Valdez, B. Way, C. Colen, M. A. Fischer, P. J. Salsberry, J. F. P. Bridges and D. B. Hood.
``Natural Genetic Variation Alters Alzheimer's-Related Gene Expression Modules in Mice,'' Alzheimer's & Dementia 16 (2020), DOI: 10.1002/alz.042019, with A. E. Wells, N. Raghupathy, R. F. Robledo, D. M. Gatti, S. C. Munger, C. A. Phillips, J. Ndukum, T. Wilcox, J. Graber, M. Hibbs, G. A. Churchill, G. W. Carter and E. J. Chesler