BIND: A Biomedical INteroperable Database System. - Catherine E. Houstis; Theodore S. Papatheodorou; Vassilios S. Verykios; Aris Floratos; Ahmed K. Elmagarmid (DEXA, 1994)

Motif discovery without alignment or enumeration (extended abstract). - Isidore Rigoutsos; Aris Floratos (RECOMB, 1998)

Combinatorial pattern discovery in biological sequences: The TEIRESIAS algorithm [published erratum appears in Bioinformatics 1998;14(2): 229]. - Isidore Rigoutsos; Aris Floratos (Bioinform., 1998)

Building Dictionaries of 1D and 3D Motifs by Mining the Unaligned 1D Sequences of 17 Archaeal and Bacterial Genomes. - Isidore Rigoutsos; Yuan Gao; Aris Floratos; Laxmi Parida (ISMB, 1999)

Sequence homology detection through large scale pattern discovery. - Aris Floratos; Isidore Rigoutsos; Laxmi Parida; Gustavo Stolovitzky; Yuan Gao (RECOMB, 1999)

An Approximation Algorithm for Alignment of Multiple Sequences using Motif Discovery. - Laxmi Parida; Aris Floratos; Isidore Rigoutsos (J. Comb. Optim., 1999)

Pattern Discovery in Biology: Theory and Applications. - Aris Floratos (1999)

Knowledge discovery in biological domains (tutorial AM-3). - Aris Floratos; Igor Jurisica; Isidore Rigoutsos (KDD Tutorial Notes, 2000)

Pattern discovery on character sets and real-valued data: linear bound on irredundant motifs and an efficient polynomial time algorithm. - Laxmi Parida; Isidore Rigoutsos; Aris Floratos; Daniel E. Platt; Yuan Gao (SODA, 2000)

DELPHI: A pattern-based method for detecting sequence similarity. - Aris Floratos; Isidore Rigoutsos; Laxmi Parida; Yuan Gao (IBM J. Res. Dev., 2001)

QSAR in grossly underdetermined systems: Opportunities and issues. - Daniel E. Platt; Laxmi Parida; Yuan Gao; Aris Floratos; Isidore Rigoutsos (IBM J. Res. Dev., 2001)

geWorkbench: an open source platform for integrative genomics. - Aris Floratos; Kenneth Smith 001; Zhou Ji; John Watkinson; Andrea Califano (Bioinform., 2010)

Using systems and structure biology tools to dissect cellular phenotypes. - Aris Floratos; Barry Honig; Dana Pe'er; Andrea Califano (J. Am. Medical Informatics Assoc., 2012)

CTD2 Dashboard: a searchable web interface to connect validated results from the Cancer Target Discovery and Development Network. - Bülent Arman Aksoy; Vlado Dancík; Kenneth Smith 001; Jessica N. Mazerik; Zhou Ji; Benjamin E. Gross; Olga Nikolova; Nadia Jaber; Andrea Califano; Stuart L. Schreiber; Daniela S. Gerhard; Leandro Hermida; et al. (Database J. Biol. Databases Curation, 2017)