Descriptions for TREYMERS.tar.gz and daylight_clusters.txt: ========================================================== * TREYMERS.tar.gz contains 2 files: Description parameters file PROP_DATA.txt: ID -> TR numbers molecules CRIP1-CRIP72 -> Atom type descriptors according Wildman & Crippen (J. Chem. Inf. Comput. Sci. 1999) CLOGP -> Daylight clogp program, (calculated logP) CMR -> Daylight cmr program, molar refractivity SLOGP -> SMARTS logp, by Wildman & Crippen SMR -> SMARTS molar refractivity, by Wildman & Crippen ROTBOND -> Customized program counting the number of single, non-cyclic bonds FLEX -> Customized program indicating the degree of flexibility within a molecule; 0 rigid, 1 extremely flexible VOLUME -> Volume based on CORINA 3D conformations, using density functional theory SURF_AREA -> Surface Area based on CORINA 3D conformations, using density functional theory MW -> Molecular weight TPSA -> Topological polar surface area, see Ertl et al. (J. Med.Chem. 2000) HBD -> Number of H-Bond Donors HBA -> Number of H-Bond Acceptors LUMO -> LUMO energy based on CORINA 3D conformations, using density functional theory HOMO -> HOMO energy based on CORINA 3D conformations, using density functional theory Dipole -> Dipole based on CORINA 3D conformations, using density functional theory LOGD_2 -> Calculated logD (Pallas) at pH = 2.0 LOGD_7_4 -> Calculated logD (Pallas) at pH = 7.4 LOGD_10 -> Calculated logD (Pallas) at pH = 10.0 MR -> Male Rat Classifications according PTC 2000-2001 FR -> Female Rat Classifications according PTC 2000-2001 MM -> Male Mouse Classifications according PTC 2000-2001 FM -> Female Mouse Classifications according PTC 2000-2001 Descriptors that were calculated using the density functional theory, contain missing values. LOGD descriptors also contain missing values. Description parameters file atom_MO_coeff_HOMO_LUMO.tar: 1 Textfile/compound -> TR000-TR502: atomic MO coefficients of HOMO (column 4) and LUMO (column 5) energies (for calculation see above) TR000.con-TR502.con: connectivity info of the molecules For example in TR000.con: 1 2 1 2 3 1 2 4 1 2 5 1 atom 1 is connected with atom 2 atom 2 is connected with atom 3,4,5 atom 1 corresponds with H1, 2 with C1, 3 with Cl1, 4 with Cl2, 5 with Cl3 (see TR000) === * daylight_clusters.txt describes the hierarchical clustering results using Daylight fingerprints of the molecules (50 clusters in total)