Lisa Simirenko


Lisa SimirenkoI design and maintain databases for experimental data, develop of user interfaces, and web sites. I am interested in data visualization and the informational infrastructure needed for today’s large data sets.

Eisen Lab Publications:

Fowlkes, C.C., Eckenrode, K.B., Bragdon, M.D., Meyer, M., Wunderlich, Z., Simirenko, L., Luengo Hendriks, C.L., Keränen, S.V.E., Henriquez, C., Knowles, D.W., Biggin, M.D., Eisen, M.B., DePace, A.H.. (2011) A conserved developmental patterning network produces quantitatively different output in multiple species of Drosophila. PLoS Genetics, 7(10): e1002346. doi:10.1371/journal.pgen.1002346

MacArthur S, Li XY, Li J, Brown JB, Chu HC, Zeng L, Grondona BP, Hechmer A, Simirenko L, Keränen SV, Knowles DW, Stapleton M, Bickel P, Biggin MD, Eisen MB. (2009) Developmental roles of 21 Drosophila transcription factors are determined by quantitative differences in binding to an overlapping set of thousands of genomic regions. Genome Biol. 2009;10(7):R80. Epub 2009 Jul 23

Fowlkes CC, Hendriks CL, Ker&aumel;nen SV, Weber GH, R&uumel;bel O, Huang MY, Chatoor S, DePace AH, Simirenko L, Henriquez C, Beaton A, Weiszmann R, Celniker S, Hamann B, Knowles DW, Biggin MD, Eisen MB, Malik J. (2008) A quantitative spatiotemporal atlas of gene expression in the Drosophila blastoderm. Cell. 2008 Apr 18;133(2):364-74

Li XY, MacArthur S, Bourgon R, Nix D, Pollard DA, Iyer VN, Hechmer A, Simirenko L, Stapleton M, Luengo Hendriks CL, Chu HC, Ogawa N, Inwood W, Sementchenko V, Beaton A, Weiszmann R, Celniker SE, Knowles DW, Gingeras T, Speed TP, Eisen MB, Biggin MD. (2008) Transcription factors bind thousands of active and inactive regions in the Drosophila blastoderm. PLoS Biol. 2008 Feb;6(2):e27

Luengo Hendriks CL, Keränen SV, Fowlkes CC, Simirenko L, Weber GH, DePace AH, Henriquez C, Kaszuba DW, Hamann B, Eisen MB, Malik J, Sudar D, Biggin MD, Knowles DW. (2006) Three-dimensional morphology and gene expression in the Drosophila blastoderm at cellular resolution I: data acquisition pipeline. Genome Biol. 2006;7(12):R123