Lenwood Heath

Professor of Computer Science





Tian L, Mazloom R, Heath LS, Vinatzer BA. (2021). LINflow: a computational pipeline that combines an alignment-free with an alignment-based method to accelerate generation of similarity matrices for prokaryotic genomes. PeerJ, (9)

Garner E, Davis BC, Milligan E, Blair MF, Keenum I, Maile-Moskowitz A, Pan J, Gnegy M, Liguori K, Gupta S, Prussin AJ 2nd., Marr LC, Heath LS, Vikesland PJ, Zhang L, Pruden A. (2021). Next generation sequencing approaches to evaluate water and wastewater quality. Water research, (194)

Zhu J, Eid FE, Tong L, Zhao W, Wang W, Heath LS, Kang L, Cui F. (2020). Characterization of protein-protein interactions between rice viruses and vector insects. Insect science

Tian L, Huang C, Mazloom R, Heath LS, Vinatzer BA. (2020). LINbase: a web server for genome-based identification of prokaryotes as members of crowdsourced taxa. Nucleic acids research, 48(W1)

Mechan Llontop ME, Sharma P, Aguilera Flores M, Yang S, Pollok J, Tian L, Huang C, Rideout S, Heath LS, Li S, Vinatzer BA. (2020). Strain-Level Identification of Bacterial Tomato Pathogens Directly from Metagenomic Sequences. Phytopathology, 110(4)

Chen C, Pankow CA, Oh M, Heath LS, Zhang L, Du P, Xia K, Pruden A. (2019). Effect of antibiotic use and composting on antibiotic resistance gene abundance and resistome risks of soils receiving manure-derived amendments. Environment international, (128)

Arango-Argoty G, Garner E, Pruden A, Heath LS, Vikesland P, Zhang L. (2018). DeepARG: a deep learning approach for predicting antibiotic resistance genes from metagenomic data. Microbiome, 6(1)

Yang Y, Robertson JA, Guo Z, Martinez J, Coghlan C, Heath LS. (2018). MCAT: Motif Combining and Association Tool. Journal of computational biology : a journal of computational molecular cell biology, 26(1)

Oh M, Pruden A, Chen C, Heath LS, Xia K, Zhang L. (2018). MetaCompare: a computational pipeline for prioritizing environmental resistome risk. FEMS microbiology ecology, 94(7)

Torkey H, Heath LS, ElHefnawi M. (2017). MicroTarget: MicroRNA target gene prediction approach with application to breast cancer. Journal of bioinformatics and computational biology, 15(4)

Elmarakeby H, Arefiyan M, Myers E, Li S, Grene R, Heath LS. (2017). Beacon Editor: Capturing Signal Transduction Pathways Using the Systems Biology Graphical Notation Activity Flow Language. Journal of computational biology : a journal of computational molecular cell biology, 24(12)

Aghamirzaie D, Raja Velmurugan K, Wu S, Altarawy D, Heath LS, Grene R. (2017). using ChIP-Seq peak data. F1000Research, (6)

Altarawy D, Eid FE, Heath LS. (2017). PEAK: Integrating Curated and Noisy Prior Knowledge in Gene Regulatory Network Inference. Journal of computational biology : a journal of computational molecular cell biology, 24(9)

Vinatzer BA, Tian L, Heath LS. (2017). A proposal for a portal to make earth's microbial diversity easily accessible and searchable. Antonie van Leeuwenhoek, 110(10)

Vinatzer BA, Weisberg AJ, Monteil CL, Elmarakeby HA, Sheppard SK, Heath LS. (2016). A Proposal for a Genome Similarity-Based Taxonomy for Plant-Pathogenic Bacteria that Is Sufficiently Precise to Reflect Phylogeny, Host Range, and Outbreak Affiliation Applied to Pseudomonas syringae sensu lato as a Proof of Concept. Phytopathology, 107(1)

Badr E, ElHefnawi M, Heath LS. (2016). Computational Identification of Tissue-Specific Splicing Regulatory Elements in Human Genes from RNA-Seq Data. PloS one, 11(11)

Arango-Argoty G, Singh G, Heath LS, Pruden A, Xiao W, Zhang L. (2016). MetaStorm: A Public Resource for Customizable Metagenomics Annotation. PloS one, 11(9)

Garner E, Wallace JS, Argoty GA, Wilkinson C, Fahrenfeld N, Heath LS, Zhang L, Arabi M, Aga DS, Pruden A. (2016). Metagenomic profiling of historic Colorado Front Range flood impact on distribution of riverine antibiotic resistance genes. Scientific reports, (6)

Schneider A, Aghamirzaie D, Elmarakeby H, Poudel AN, Koo AJ, Heath LS, Grene R, Collakova E. (2015). Potential targets of VIVIPAROUS1/ABI3-LIKE1 (VAL1) repression in developing Arabidopsis thaliana embryos. The Plant journal : for cell and molecular biology, 85(2)

Eid FE, ElHefnawi M, Heath LS. (2016). DeNovo: virus-host sequence-based protein-protein interaction prediction. Bioinformatics (Oxford, England), 32(8)

Aghamirzaie D, Batra D, Heath LS, Schneider A, Grene R, Collakova E. (2015). Transcriptome-wide functional characterization reveals novel relationships among differentially expressed transcripts in developing soybean embryos. BMC genomics, (16)

Badr E, Heath LS. (2015). CoSREM: a graph mining algorithm for the discovery of combinatorial splicing regulatory elements. BMC bioinformatics, (16)

Marakeby H, Badr E, Torkey H, Song Y, Leman S, Monteil CL, Heath LS, Vinatzer BA. (2014). A system to automatically classify and name any individual genome-sequenced organism independently of current biological classification and nomenclature. PloS one, 9(2)

Yang K, Heath LS, Setubal JC. (2012). REGEN: Ancestral Genome Reconstruction for Bacteria. Genes, 3(3)

Mane SP, Robinet CV, Ulanov A, Schafleitner R, Tincopa L, Gaudin A, Nomberto G, Alvarado C, Solis C, Bolivar LA, Blas R, Ortega O, Solis J, Panta A, Rivera C, Samolski I, Carbajulca DH, Bonierbale M, Pati A, Heath LS, Bohnert HJ, Grene R. (2008). Molecular and physiological adaptation to prolonged drought stress in the leaves of two Andean potato genotypes. Functional plant biology : FPB, 35(8)

Heath LS, Ramakrishnan N, Sederoff RR, Whetten RW, Chevone BI, Struble CA, Jouenne VY, Chen D, van Zyl L, Grene R. Studying the functional genomics of stress responses in loblolly pine with the Expresso microarray experiment management system. Comparative and functional genomics, 3(3)

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