Publications

Kuzu G, Kaye EG, Chery J, Siggers T, Yang L, Dobson JR, Boor S, Bliss J, Liu W, Jogi, Rohs R, Singh ND, Bulyk ML, Tolstorukov MY, Larschan E (2016) Expansion of GA Dinucleotdie Repeats Increases the Density of CLAMP Binding Sites on the X-Chromosome to Promote Drosophila Dosage Compensation PLoS Genetics 12:e1006120:e1006120.

Barrera LA, Vedenko A, Kurland JV, Rogers JM, Gisselbrecht SS, Rossin EJ, Woodard J, Mariani L, Kock KH, Inukai S, Siggers T, Shokri L, Gordan R, Sahni N, Cotsapas C, Hao T, Yi S, Kellis M, Daly MJ, Vidal M, Hill DE, Bulyk ML (2016) Survey of variation in human transcription factors reveals prevalent DNA binding changes  Science 35:1450-1454.

Menke C, Cionni M, Siggers T, Bulyk ML, Beier DR, Stottmann RW (2015) Grhl2 is required in nonneural tissue for neural progenitor survival and forebrain development Genesis 53(9):573-582.

Siggers T**, Gilmore TD, Barron B, Penvose A (2015) Characterizing the DNA binding site specificity of NF-kB with protein-binding microarrays (PBMs) Methods Mol. Biol. 1280:609-630.

Andrilenas K, Penvose A, Siggers T (2015) Using Protein-binding Microarrays to Study Transcription Factor Specificity: Homologs, Isoforms and Complexes Briefings in Functional Genomics 14:17-29.

Siggers T**, Reddy J, Barron B, Bulyk ML** (2014) Diversification of transcription factor paralogs via noncanonical modularity in C2H2 Zinc finger DNA binding Molecular Cell55(4):640-648.

Siggers T**, Gordan R** (2014) Protein-DNA binding: complexities and multi-protein codes. Nucleic Acids Res. 42(4):1551-1556.

Soruco MM, Chery J, Bishop EP, Siggers T, Tolstorukov MY, Leydon AR, Sugden AU, Goebel K, Feng J, Xia P, Vedenko A, Bulyk ML, Park PJ, Larschan E. (2013) The CLAMP protein links the MSL complex to the X chromosome during Drosophila dosage compensation Genes Dev. 27(14):1551-1556.

Siggers T*, Chang AB*, Teixeira A, Wong D, Williams KJ, Ahmed B, Ragoussis J, Udalova IA, Smale ST, Bulyk ML. (2012). Principles of dimer-specific gene regulation revealed by a comprehensive characterization of NF-κB family DNA binding. Nature Immunology 13(1):95-102

Faculty of 1000 Recommended
Click here to access the associated NF-kB PBM database and search tools.

Siggers T, Duyzend MH, Reddy J, Khan S, Bulyk ML. (2011). Non-DNA-binding cofactors enhance DNA-binding specificity of a transcriptional regulatory complex. Molecular Systems Biology 7:555

Highlighted in Nature Review Genetics

Wong D, Teixeira A, Oikonomopoulos S, Humburg P, Lone IN, Saliba D, Siggers T, Bulyk ML, Angelov D, Dimitrov S, Udalova I, Ragoussis J. (2011). Extensive characterization of NF-KappaB binding uncovers non-canonical motifs and advances the interpretation of genetic functional traits. Genome Biol. 12(7):R70

Rowan S*, Siggers T*, Lachke SA, Yue Y, Bulyk ML, Maas RL. (2010). Precise temporal control of the eye regulatory gene Pax6 via enhancer binding site affinity. Genes Dev. 24(10):980-985.

Giorgetti L, Siggers T, Tiana G, Caprara G, Notarbartolo S, Corona T, Pasparakis M, Milani P, Bulyk ML, Natoli G. (2010). Noncooperative interactions between transcription factors and clustered DNA binding sites enable graded transcriptional responses transcriptional responses to environmental inputs. Mol. Cell. 37(3):418-428.

Highlighted in Nature Review Genetics

Viiri KM, Janis J, Siggers T, Heinonen TY, Valjakka J, Bulyk ML, Maki M, Lohi O. (2009). DNA-binding and -bending activities of SAP30L and SAP30 are mediated by a zinc-dependent module and monophosphoinositides. Mol. Cell Biol. 29:342-356.

Siggers T, Honig B. (2007). Structure-based prediction of C2H2 zinc-finger binding specificity: sensitivity to docking geometry. Nucleic Acids Res. 35(5):1085-1097

Siggers T, Silkov A, Honig B. (2005). Structural alignment of protein-DNA interfaces: insights into the determinants of binding specificity. JMB 345(5):1027-1045.

* Authors contributed equally

** Co-corresponding authors