Blueprint for an Algorithm for Conformational Transformation Tolerant Search Through a Database of Protein Structures. - Ivana Mihalek (BIOCOMP, 2008)

pFlexAna: detecting conformational changes in remotely related proteins. - Anshul Nigham; Lisa Tucker-Kellogg; Ivana Mihalek; Chandra Verma; David Hsu (Nucleic Acids Res., 2008)

Reduced representation of protein structure: implications on efficiency and scope of detection of structural similarity. - Zong Hong Zhang; Hwee Kuan Lee; Ivana Mihalek (BMC Bioinform., 2010)

deconSTRUCT: general purpose protein database search on the substructure level. - Zong Hong Zhang; Kavitha Bharatham; Westley A. Sherman; Ivana Mihalek (Nucleic Acids Res., 2010)

Cube-DB: detection of functional divergence in human protein families. - Zong Hong Zhang; Kavitha Bharatham; Sharon M. Q. Chee; Ivana Mihalek (Nucleic Acids Res., 2012)

ExoLocator - an online view into genetic makeup of vertebrate proteins. - Aik Aun Khoo; Mario Ogrizek-Tomas; Ana Bulovic; Matija Korpar; Ece Gürler; Ivan Slijepcevic; Mile Sikic; Ivana Mihalek (Nucleic Acids Res., 2014)