Ryan, J.R., Pang, K., NISC Comparative Sequencing Program, Mullikin, J.C., Martindale, M.Q., and Baxevanis, A.D. The Homeodomain Complement of the Ctenophore Mnemiopsis leidyi Suggests that Ctenophora and Porifera Diverged Prior to the ParaHoxozoa. EvoDevo, 1:9. 2010. [PubMed]
Maxwell, E.K., Ryan, J.F., Schnitzler, C.E., Browne, W.E., and Baxevanis, A.D. MicroRNAs and Essential Components of the microRNA Processing Machinery are Not Encoded in the Genome of the Ctenophore Mnemiopsis leidyi. BMC Genomics, 13:714. 2012. [PubMed]
Schnitzler, C.E., Pang, K., Powers, M.L., Reitzel, A.M., Ryan, J.F., Simmons, D.K., Park, M., Gupta, J., Brooks, S.Y., Blakesley, R.W., Haddock, S.H.D., Martindale, M.Q., and Baxevanis, A.D. Genomic Organization, Evolution, and Expression of Photoprotein and Opsin Genes in Mnemiopsis leidyi: A New View of Ctenophore Photocytes. BMC Biol, 10:107. 2012. [PubMed]
Ryan, J.F., Pang, K., Schnitzler, C.E., Nguyen, A.D., Moreland, R.T., Simmons, D.K., Koch, B.J., Francis, W.R., Havlak, P., NISC Comparative Sequencing Program, Smith, S.A., Putnam, N.H., Haddock, S.H.D., Dunn, C.W., Wolfsberg, T.G., Mullikin, J.C., Martindale, M.Q., and Baxevanis, A.D. The Genome of the Ctenophore Mnemiopsis leidyi and its Implications for Cell Type Evolution. Science, 342:1242592. 2013. [PubMed]
Schnitzler, C.E., Simmons, D.K., Pang, K., Martindale, M.Q., and Baxevanis, A.D. Expression of Multiple Sox Genes Through Embryonic Development in the Ctenophore Mnemiopsis leidyi is Spatially Restricted to Zones of Cell Proliferation. EvoDevo, 5:15. 2014.[PubMed]
Maxwell, E.K., Schnitzler, C.E., Havlak, P., Putnam, N.H., Nguyen, A.-D., Moreland, R.T., and Baxevanis, A.D. Evolutionary Profiling Reveals the Heterogeneous Origins of Classes of Human Disease Genes: Implications for Modeling Disease Genetics in Animals. BMC Evol. Biol. 14: 212. 2014. [PubMed]
Maxwell, E.K., Campbell, J., Spira, A., and Baxevanis, A.D. SubmiRine: Assessing Variants in microRNA Targets using Clinical Genomic Data Sets. Nucleic Acids Res. (doi: 10.1093/nar/gkv256), 2015. [PubMed]
Török, A., Schiffer, P.H., Schnitzler, C.E., Ford, K., Mullikin, J.C., Baxevanis, A.D., Bacic, A., Frank, U., and Gornik, S.G. The Cnidarian Hydractinia Employs Canonical and Highly Adapted Histones to Pack its DNA. Epigenetics & Chromatin 9: 36. 2016. [PubMed]
Flici, H., Schnitzler, C.E., Millane, R.C., Govinden, G., Houlihan, A., Baxevanis, A.D., and Frank, U. An Evolutionarily Conserved SoxB-Hdac2 Crosstalk Regulates Neurogenesis in a Cnidarian. Cell Rep. 18: 1395-1409. 2017. [PubMed]
Bond, S.R., Keat, K.E., Barreira, S.N., and Baxevanis, A.D. BuddySuite: Command-Line Toolkits for Manipulating Sequences, Alignments, and Phylogenetic Trees. Mol. Biol. Evol. 34: 1543-1546, 2017. [PubMed]
Gahan, J.M., Schnitzler, C.E., Doonan, L.B., Kanska, J., Gornik, S.G., Barreira, S., Thompson, K., Schiffer, P., Baxevanis, A.D., and Frank, U. Functional Studies on the Role of Notch Signaling in Hydractinia Development. Dev. Biol. 428: 224-231. 2017. [PubMed]
Davidson, P.L., Koch, B.J., Schnitzler, C.E., Henry, J.Q., Martindale, M.Q., Baxevanis, A.D., and Browne, W.E. The Maternal-Zygotic Transition and Zygotic Activation of the Mnemiopsis leidyi Genome Occurs Within the First Three Cleavage Cycles. Mol. Reprod. Dev., 84: 1218-1229, 2017. [PubMed]
Sanders, S.M., Ma, Z., Hughes, J.M., Riscoe, B.M., Gibson, G.A., Watson, A.M., Flici, A., Frank, U., Schnitzler, C.E., Baxevanis, A.D., and Nicotra, M.L. CRISPR/Cas9-Mediated Gene Knockin in the Hydroid Hydractinia symbiolongicarpus. BMC Genomics, 19: 649, 2018. [PubMed]
DuBuc, T.Q., Schnitzler, C.E., Chrysostomou, E., McMahon, E.M., Febrimarsa, F., Gahan, J.M., Buggle, T., Gornik, S.G., Hanley, S., Barreira, S.N., Gonzalez, P., Baxevanis, A.D., and Frank, U. Tfap2 is a Molecular Switch for Cnidarian Germ Cell Induction. Science 367: 757-762, 2020. [PubMed]
Instructional Videos
Current Topics in Genome Analysis 2016 Series
Biological Sequence Analysis I (2016)
Biological Sequence Analysis II (2016)
Books and Guides
Wolfsberg T.G., Wetterstrand K.A., Guyer M.S., Collins F.S., and Baxevanis A.D. A User's Guide to the Human Genome II. Nature Genetics: Supplement 35: 1-79. 2003. [Full Text]
Baxevanis, A.D, Ouellette B.F.F. (Eds). Bioinformatics: A Practical Guide to the Analysis of Genes and Proteins, 3rd ed. John Wiley & Sons, 2005.