skip to content

Department of Chemistry

 
Flexible 3D pharmacophores as descriptors of dynamic biological space
JH Nettles, JL Jenkins, C Williams, AM Clark, A Bender, Z Deng, JW Davies, M Glick
– Journal of molecular graphics & modelling
(2007)
26,
622
Chemogenomic Data Analysis: Prediction of Small-Molecule Targets and the Advent of Biological Fingerprints
A Bender, DW Young, JL Jenkins, M Serrano, D Mikhailov, PA Clemons, JW Davies
– Combinatorial chemistry & high throughput screening
(2007)
10,
719
A Large Descriptor Set and a Probabilistic Kernel-Based Classifier Significantly Improve Druglikeness Classification
Q Li, A Bender, J Pei, L Lai
– J Chem Inf Model
(2007)
47,
1776
COMP 158-Automated combinatorial alignment for 3-D similarity searching
JH Nettles, JL Jenkins, Z Deng, A Bender, JW Davies, M Glick
– ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY
(2007)
234,
Side effect profile prediction: Computational tackling of big pharma's worst nightmare at an early stage
J Scheiber, JL Jenkins, A Bender, S Whitebread, J Hamon, L Urban, K Azzaoui, JH Nettles, M Glick, JW Davies
– ABSTR PAP AM CHEM S
(2007)
234,
Prediction of small molecule targets based on protein domains: Extrapolation into unknown target space
JL Jenkins, A Bender, D Mikhailov
– ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY
(2007)
234,
"Phylochemical Tree" for drug targets: Putting biological activities into context via ligand-based similarity measures
A Bender, JL Jenkins, JW Davies
– ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY
(2007)
234,
COMP 495-Tautomers, conformers, and computation of chemical similarity
JH Nettles, JL Jenkins, Z Deng, A Bender, J Scheiber, JW Davies, M Glick
– ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY
(2007)
234,
Understanding False Positives in Reporter Gene Assays:‚ÄČ in Silico Chemogenomics Approaches To Prioritize Cell-Based HTS Data
TJ Crisman, CN Parker, JL Jenkins, J Scheiber, M Thoma, ZB Kang, R Kim, A Bender, JH Nettles, JW Davies, M Glick
– Journal of Chemical Information and Modeling
(2007)
47,
1319
Analysis of pharmacology data and the prediction of adverse drug reactions and off-target effects from chemical structure
A Bender, J Scheiber, M Glick, JW Davies, K Azzaoui, J Hamon, L Urban, S Whitebread, JL Jenkins
– ChemMedChem
(2007)
2,
861
Modeling promiscuity based on in vitro safety pharmacology profiling data.
K Azzaoui, J Hamon, B Faller, S Whitebread, E Jacoby, A Bender, JL Jenkins, L Urban
– ChemMedChem
(2007)
2,
874
Support vector inductive logic programming outperforms the naive Bayes classifier and inductive logic programming for the classification of bioactive chemical compounds
EO Cannon, A Amini, A Bender, MJE Sternberg, SH Muggleton, RC Glen, JBO Mitchell
– J Comput Aided Mol Des
(2007)
21,
269
"Plate cherry picking": A novel semi-sequential screening paradigm for cheaper, faster, information-rich compound selection
TJ Crisman, JL Jenkins, CN Parker, WAG Hill, A Bender, Z Deng, JH Nettles, JW Davies, M Glick
– Journal of biomolecular screening
(2007)
12,
320
Evolved cellular automata for protein secondary structure prediction imitate the determinants for folding observed in nature
P Chopra, A Bender
– In silico biology
(2007)
7,
87
Bridging chemical and biological space: "target fishing" using 2D and 3D molecular descriptors.
JH Nettles, JL Jenkins, A Bender, Z Deng, JW Davies, M Glick
– Journal of medicinal chemistry
(2006)
49,
6802
Melting point prediction employing k-nearest neighbor algorithms and genetic parameter optimization
F Nigsch, A Bender, B van Buuren, J Tissen, E Nigsch, JBO Mitchell
– J Chem Inf Model
(2006)
46,
2412
Chemoinformatics-based classification of prohibited substances employed for doping in sport.
EO Cannon, A Bender, DS Palmer, JBO Mitchell
– J Chem Inf Model
(2006)
46,
2369
"Bayes affinity fingerprints" Improve retrieval rates in virtual screening and define orthogonal bioactivity space: When are multitarget drugs a feasible concept?
A Bender, JL Jenkins, M Glick, Z Deng, JH Nettles, JW Davies
– Journal of chemical information and modeling
(2006)
46,
2445
Bridging chemical and biological space: "Target Fishing" using 2D and 3D molecular descriptors
JH Nettles, JL Jenkins, A Bender, Z Deng, JW Davies, M Glick
– ABSTR PAP AM CHEM S
(2006)
232,
293
Analysis of activity space by fragment fingerprints, 2D descriptors, and multitarget dependent transformation of 2D descriptors
A Givehchi, A Bender, RC Glen
– Journal of chemical information and modeling
(2006)
46,
1078