Elena Nabieva

Professor Georgii Bazykin

Elena received her Ph.D. in Computer Science in 2007 from Princeton University where she studied function and organization of protein interaction networks.  As a postdoc, she studied yeast models of neurodegenerative disease.  After joining Georgii Bazykin’s lab, she worked with Next-Generation Sequencing data in biomedical studies, including cancer and hereditary retinal disease.  Her most recent projects include writing a novel evolutionary simulator and studying the genetic causes of miscarriage.

Deciphering the cause of human pregnancy loss by exome analysis of abortuses

Using protein interaction maps to inform genotype-to-phenotype prediction

SELVa: Simulator of Evolution with Landscape Variation.  Elena Nabieva, Georgii A. Bazykin.

Senescence and entrenchment in evolution of amino acid sites.  A. V. Stolyarova, E. Nabieva, V. V. Ptushenko, A. V. Favorov, A. V. Popova, A. D. Neverov, G. A. Bazykin.

Accurate Fetal Variant Calling in the Presence of Maternal Cell Contamination.  Elena Nabieva*, Satyarth Mishra Sharma*, Yermek Kapushev, Sofya K Garushyans, Anna V Fedotova, Viktoria N Moskalenko, Ilya V Kanivets, Denis V Pyankov, Tatyana V Neretina, Maria D Logacheva, Georgii A Bazykin, Dmitry Yarotsky. 

The miniature genome of a carnivorous plant Genlisea aurea contains a low number of genes and short non-coding sequences. Leushkin EV, Sutormin RA, Nabieva ER, Penin AA, Kondrashov AS, Logacheva MD.  BMC Genomics. 2013 Jul 15;14:476. doi: 10.1186/1471-2164-14-476.

Organization of physical interactomes as uncovered by network schemas. Banks E*, Nabieva E*, Chazelle B, Singh M. PLoS Comput Biol. 2008 Oct;4(10):e1000203. doi: 10.1371/journal.pcbi.1000203. Epub 2008 Oct 24.

NetGrep: fast network schema searches in interactomes.  Banks E, Nabieva E, Peterson R, Singh M.  Genome Biol. 2008;9(9):R138. doi: 10.1186/gb-2008-9-9-r138. Epub 2008 Sep 18.

Whole-proteome prediction of protein function via graph-theoretic analysis of interaction maps.  Nabieva E, Jim K, Agarwal A, Chazelle B, Singh M.  Bioinformatics. 2005 Jun;21 Suppl 1:i302-10.

Ph.D. in Computer Science, Princeton University, 2007

M.S. in Computer Science, Stanford University, 2002

B.S. in Symbolic Systems, Stanford University, 2001

  • Application of computer science techniques to biomedical problems:
    • Next-Generation Sequencing in human disease.
    • Analysis of protein-protein interaction networks and application of protein interaction networks to genotype-to-phenotype prediction.
  • Evolutionary simulation