MENTHOR, a database system for the storage and retrieval of three-dimensional molecular structures and associated data searchable by substructural, biologic, physical, or geometric properties. - Yvonne C. Martin; Elizabeth B. Danaher; Catherine S. May; David Weininger (J. Comput. Aided Mol. Des., 1988)

SMILES, a chemical language and information system. 1. Introduction to methodology and encoding rules. - David Weininger (J. Chem. Inf. Comput. Sci., 1988)

ALADDIN: An integrated tool for computer-assisted molecular design and pharmacophore recognition from geometric, steric, and substructure searching of three-dimensional molecular structures. - John H. Van Drie; David Weininger; Yvonne C. Martin (J. Comput. Aided Mol. Des., 1989)

SMILES. 2. Algorithm for generation of unique SMILES notation. - David Weininger; Arthur Weininger; Joseph L. Weininger (J. Chem. Inf. Comput. Sci., 1989)

SMILES, 3. DEPICT. Graphical depiction of chemical structures. - David Weininger (J. Chem. Inf. Comput. Sci., 1990)

CHUCKLES: A method for representing and searching peptide and peptoid sequences on both monomer and atomic levels. - Michael A. Siani; David Weininger; Jeffrey M. Blaney (J. Chem. Inf. Comput. Sci., 1994)

CHORTLES: A Method for Representing Oligomeric and Template-Based Mixtures. - Michael A. Siani; David Weininger; Craig A. James; Jeffrey M. Blaney (J. Chem. Inf. Comput. Sci., 1995)

Stigmata: An Algorithm To Determine Structural Commonalities in Diverse Datasets. - Norah E. Shemetulskis; David Weininger; C. John Blankley; J. J. Yang; Christine Humblet (J. Chem. Inf. Comput. Sci., 1996)