Google scholar

ORCID

  1. Johnson LK, Sahasrabudhe R, Gill T, Roach J, Froenicke L, Brown CT, Whitehead A. In Review. Draft genome assemblies using sequencing reads from Oxford Nanopore Technologies and Illumina platforms for four species of North American killifish from the Fundulus genus. biorxiv, Posted June 28, 2019.
  2. Love MI, Soneson C, Hickey PF, Johnson LK, Pierce NT, Shepherd L, Morgan M, Patro R. 2020. Tximeta: Reference sequence checksums for provenance identification in RNA-seq. PloS Computational Biology. 16(2): e1007664.
  3. Alexander H, Johnson LK, Brown CT. 2018. Keeping it light: (Re)analyzing community-wide datasets without major infrastructure. GigaScience, 8(2): giy159.
  4. Johnson LK, Alexander H, Brown CT. 2018. Re-assembly, quality evaluation, and annotation of 678 microbial eukaryotic reference transcriptomes. GigaScience, 8(4): giy158. GigaScience Prize Track Winner, Q&A Article
  5. Daniel Standage, Ali Aliyari, Lisa J Cohen, Michael R Crusoe, Tim Head, Luiz Irber, Shannon EK Joslin, N B Kingsley, Kevin D Murray, Russell Neches, Camille Scott, Ryan Shean, Sascha Steinbiss, Cait Sydney, C Titus Brown. 2017. khmer release v2.1: software for biological sequence analysis. 2017. Journal of Open Source Software, 2(15), 272, doi:10.21105/joss.00272
  6. Hanley O, Zewdu R, Cohen L, Jung H, Lacombe J, Lee D, Philippidou P, Selleri L, Dasen J. 2016. Parallel Pbx-Dependent Pathways Govern the Coalescence and Fate of Motor Columns. Neuron, 91(5):1005-1020.
  7. Cartularo L, Kluz T, Cohen L, Shen SS, Costa M. 2016. Molecular Mechanisms of Malignant Transformation by Low Dose Cadmium in Normal Human Bronchial Epithelial Cells. PloS One, 11(5), e0155002.
  8. Maass K, Shekar A, Lu J, Kang G, See F, Kim E, Delgado C, Shen S, Cohen L, Fishman G. 2015. Isolation and Characterization of ESC-Derived Cardiac Purkinje Cells. Stem Cells, doi: 10.1002/stem.1921.
  9. Montenegro D, Kalpana K, Chrissian C, Sharma A, Takaoka A, Iacovidou, M, Soll C, Aminova O, Heguy A, Cohen L, Shen S, Kawamura A. 2015. Uncovering “herbal probiotics” in Juzen-taiho-to, an immune-boosting herbal formulation. Bioorganic & Medicinal Chemistry Letters, doi:10.1016/j.bmcl.2014.12.036.
  10. Johnson LK, Dillaman RM, Gay DM, Blum JE, Kinsey ST. 2004. Metabolic influences of fiber size in aerobic and anaerobic locomotor muscles of the blue crab, Callinectes sapidus. Journal of Experimental Biology, 207:4045-4056.
  11. Gavrilova O, Haluzik M, Matsusue K, Cutson JJ, Johnson L, Dietz KR, Nicol CJ, Vinson C, Gonzalez FJ, Reitman ML. 2003. Liver peroxisome proliferator-activated receptor-gamma contributes to hepatic steatosis, triglyceride clearance, and regulation of body fat mass. Journal of Biological Chemistry, 278(36):34268-34276.

Book Chapter

Cohen L, Efstathiadis E, Shen S. 2015. Chapter 9: De novo Transriptome Assembly. In: Next Generation DNA Sequencing Informatics, 2nd Edition. Ed. Stuart Brown. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.

Presentations

  1. Johnson LK, Brennan R, Brown CT, Whitehead J. 2018. De novo transcriptome assemblies and transcriptional profiling of 16 Fundulus killifish species in response to environmental challenge. Society of Environmental Toxicology And Chemistry, North America 39th Annual Meeting. November 4-9, 2018.
  2. Johnson LK, Alexander HA, Brown CT. 2018. Re-assembly, quality evaluation, and annotation of 678 microbial eukaryotic reference transcriptomes. 13th Annual International Conference on Genomics. Shenzhen, China. October 25, 2018. Invited talk, GigaScience Prize Track Winner
  3. Johnson LK and Whitehead J. 2018. De novo assemblies, annotations, and gene expression profiling of gill epithelium from 16 species of Fundulus killifish in response to salinity change. International Conference on the Biology of Fishes. Calgary, Alberta. July 15-19, 2018.
  4. Word, KR; Duckles, BM; Brooks, PT; Johnson, LK; Brown, CT; 2018. Perspectives from an intensive bioinformatics training workshop with a heterogeneous learner population: success takes many different forms. Society for Integrative and Comparative Biology Annual Meeting, San Francisco, CA. January 3-7, 2018.
  5. Cohen L, Alexander H, Brown CT. 2017. Reassembling 600+ marine transcriptomes: automated pipeline developmetn and evaluation. Aquatic Sciences Meeting, Association for the Sciences of Limnology and Oceanography, Honolulu, HI. Feb 26-March 3, 2017.
  6. Cohen L, González Angel AM, Edge S. 2013. Molecular responses of coral larvae and sponges to environmental stresses. Florida Specialty License Plate-Funded Research Symposium, Harbor Branch Oceanographic Institute, Fort Pierce, FL. May 16, 2013.
  7. González Angel AM, Edge SE, Cohen LJ, Mason B. 2013. Porites astreoides larval response to acute hyposalinity stress. 42nd Benthic Ecology Meeting, Savannah, GA. March 20-24, 2012.
  8. Voss J, Edge S, Cohen L, Fahsbender E, Williams M, Harrison N. 2012. Oil, Dispersant, and Disease: Impacts and Interactions on Corals in the Florida Keys. 41st Benthic Ecology Meeting, Norfolk, VA. Mar 23, 2012.
  9. Voss J, Beal J, Edge S, Cohen L, Hanisak, D. 2012. Estuarine Impacts on St. Lucie Reef: Determining the Effects of Changing Resource Management on Florida’s Northernmost Coral Reef. Indian River Lagoon Symposium, Harbor Branch Oceanographic Institute at Florida Atlantic University. Feb 9, 2012.
  10. Voss J, Edge S, Cohen L, Fahsbender E, Williams M, Harrison N. 2011. Oil, Dispersant, and Disease: Impacts and Interactions on Corals in the Florida Keys. Coastal And Estuarine Research Federation Meeting, Daytona Beach, FL. Nov 7, 2011.
  11. Beal J, Voss J, Edge S, Cohen L. 2011. Living on the ledge: assessment of coral stressors on St. Lucie Reef, Florida. 21st Biennial Conference of the Coastal and Estuarine Research Federation. November 6-10, 2011. Daytona Beach, FL.
  12. Cohen LJ, Herren LW, Virgilio MT. 2010. Restoring fringing mangrove habitat in the Indian River Lagoon. Florida Academy of Sciences Annual Meeting, Indian River State College, Ft. Pierce, FL. March 19-20, 2010.
  13. Virgilio MT, Cohen LJ, Herren LW. 2010. Using historic aerial photographs and GIS as management tools for establishing baselines and setting goals for future shoreline restoration in the Indian River Lagoon. Florida Academy of Sciences Annual Meeting, Indian River State College, Ft. Pierce, FL. March 19-20, 2010.
  14. Minton D, Smith G, Filmed C, Tafileichig A, Johnson L, and Molina M. 2008. Improvement of coral dredging management to minimize environmental impacts in Yap State, Federated States of Micronesia. 11th Annual International Coral Reef Symposium, West Palm Beach, FL. July 7-11, 2008.
  15. Johnson LK and Kinsey ST. 2004. Effects of muscle fiber size on post-contractile lactate recovery in the blue crab, Callinectes sapidus. Society for Integrative and Comparative Biology Annual Meeting, New Orleans, LA. January 5-9, 2004. 1st Place Student Poster Award
  16. Johnson LK, Cutson JJ, Nicol CJ, Gonzalez FJ, Gavrilova O, Reitman ML. 2001. Effects of rosiglitazone on A-ZIP/F-1 mice with liver-specific deletion of PPAR-gamma gene. Summer Student Poster Day, National Institutes of Health, Bethesda, MD.
  17. Johnson LK, Gavrilova O, Reitman ML. 2000. Effects of surgical transplantation of brown adipose tissue on the metabolism of lipoatrophic AZIP/F-1 mice. Summer Student Poster Day, National Institutes of Health, Bethesda, MD.
  18. Johnson LK, Everett CA, Chumakov MK, Gavrilova O, Reitman ML. 1999. Effects of diet on metabolism in lipoatrophic A-ZIP/F-1 mice. Summer Student Poster Day, National Institutes of Health.
  19. Tatham TA, Johnson LK, Acuna AS. 1998. Symmetrical generalization of the discriminative stimulus effects of toluene and ketamine suggests mediation by NMDA receptors. Society for Neuroscience Annual Meeting, San Diego, CA.
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Copyright © 2018 Lisa K. Johnson