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NIH

Andreas D. Baxevanis, Ph.D.

Head, Computational Genomics Unit
Director, Bioinformatics and Scientific Programming Core
Senior Scientist, Computational and Statistical Genomics Branch
Director of Computational Biology, NIH Office of Intramural Research
 

Selected Publications

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]

Pang, K., Ryan, J.F., NIH Intramural Sequencing Program, Mullikin, J.C., Baxevanis, A.D., and Martindale, M.Q.  Genomic Insights into Wnt Signaling in an Early Diverging Metazoan, the Ctenophore Mnemiopsis leidyi. EvoDevo, 1:10. 2010. [PubMed]

Reitzel, A.M., Pang, K., Ryan, J.F., Mullikin, J.C., Martindale, M.Q., Baxevanis, A.D., and Tarrant, A.M.  Nuclear Receptors from the Ctenophore Mnemiopsis leidyi Lack a Zinc-Finger DNA-Binding Domain: Lineage-Specific Loss or Ancestral Condition in the Emergence of the Nuclear Receptor Superfamily?  EvoDevo, 2:3. 2011. [PubMed]

Pang, K., Ryan, J.F., Baxevanis, A.D., and Martindale, M.Q.  Evolution of the TGF-beta Signaling Pathway and its Potential Role in the Ctenophore, Mnemiopsis leidyi.  PLoS ONE, 6:e24152. 2011. [PubMed]

Mariño-Ramírez, L., Levine, K.M., Morales, M., Zhang, S., Moreland, T.M., Baxevanis, A.D., and Landsman, D.  The Histone Database: An Integrated Resource for Histones and Histone-Fold Proteins. Database doi: 10.1093/database/bar048, 2011. [PubMed]
 
Koch, B.J., Ryan, J.F., and Baxevanis, A.D.  The Expansion of the LIM Superclass at the Base of the Metazoa Increased Subcellular Complexity and Promoted Multicellular Specialization. PLoS One, 7:e32261. 2012. [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]

Moreland, R.T., Nguyen, A.-D., Ryan, J.F., Schnitzler, C.E., Koch, B.J., Siewert, K., Wolfsberg, T.G., and Baxevanis, A.D.  A Customized Web Portal for the Genome of the Ctenophore Mnemiopsis leidyi.  BMC Genomics, 15:316. 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]

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.  [In Process]

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]

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.

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Last Updated: January 16, 2018