Jeremy L. Jenkins, Ph.D. - Publications

Ohio State University, Columbus, Columbus, OH 
Bacterial toxins

52 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2015 Schirle M, Jenkins JL. Identifying compound efficacy targets in phenotypic drug discovery. Drug Discovery Today. PMID 26272035 DOI: 10.1016/j.drudis.2015.08.001  1
2014 Fischer ES, Böhm K, Lydeard JR, Yang H, Stadler MB, Cavadini S, Nagel J, Serluca F, Acker V, Lingaraju GM, Tichkule RB, Schebesta M, Forrester WC, Schirle M, Hassiepen U, ... ... Jenkins JL, et al. Structure of the DDB1-CRBN E3 ubiquitin ligase in complex with thalidomide. Nature. 512: 49-53. PMID 25043012 DOI: 10.1038/nature13527  1
2014 Riniker S, Wang Y, Jenkins JL, Landrum GA. Using information from historical high-throughput screens to predict active compounds Journal of Chemical Information and Modeling. 54: 1880-1891. PMID 24933016 DOI: 10.1021/ci500190p  1
2014 Jaeger S, Min J, Nigsch F, Camargo M, Hutz J, Cornett A, Cleaver S, Buckler A, Jenkins JL. Causal Network Models for Predicting Compound Targets and Driving Pathways in Cancer. Journal of Biomolecular Screening. 19: 791-802. PMID 24518063 DOI: 10.1177/1087057114522690  1
2013 Jenkins JL. Drug discovery: Rethinking cellular drug response. Nature Chemical Biology. 9: 669-70. PMID 24141220 DOI: 10.1038/nchembio.1365  1
2013 Hutz JE, Nelson T, Wu H, McAllister G, Moutsatsos I, Jaeger SA, Bandyopadhyay S, Nigsch F, Cornett B, Jenkins JL, Selinger DW. The multidimensional perturbation value: a single metric to measure similarity and activity of treatments in high-throughput multidimensional screens. Journal of Biomolecular Screening. 18: 367-77. PMID 23204073 DOI: 10.1177/1087057112469257  1
2012 Lounkine E, Keiser MJ, Whitebread S, Mikhailov D, Hamon J, Jenkins JL, Lavan P, Weber E, Doak AK, Côté S, Shoichet BK, Urban L. Large-scale prediction and testing of drug activity on side-effect targets. Nature. 486: 361-7. PMID 22722194 DOI: 10.1038/nature11159  1
2012 Petrone PM, Simms B, Nigsch F, Lounkine E, Kutchukian P, Cornett A, Deng Z, Davies JW, Jenkins JL, Glick M. Rethinking molecular similarity: comparing compounds on the basis of biological activity. Acs Chemical Biology. 7: 1399-409. PMID 22594495 DOI: 10.1021/cb3001028  1
2012 Nigsch F, Hutz J, Cornett B, Selinger DW, McAllister G, Bandyopadhyay S, Loureiro J, Jenkins JL. Determination of minimal transcriptional signatures of compounds for target prediction. Eurasip Journal On Bioinformatics & Systems Biology. 2012: 2. PMID 22574917 DOI: 10.1186/1687-4153-2012-2  1
2011 Lounkine E, Nigsch F, Jenkins JL, Glick M. Activity-aware clustering of high throughput screening data and elucidation of orthogonal structure-activity relationships. Journal of Chemical Information and Modeling. 51: 3158-68. PMID 22098146 DOI: 10.1021/ci2004994  1
2011 Nigsch F, Lounkine E, McCarren P, Cornett B, Glick M, Azzaoui K, Urban L, Marc P, Müller A, Hahne F, Heard DJ, Jenkins JL. Computational methods for early predictive safety assessment from biological and chemical data. Expert Opinion On Drug Metabolism & Toxicology. 7: 1497-511. PMID 22050465 DOI: 10.1517/17425255.2011.632632  1
2011 Koutsoukas A, Simms B, Kirchmair J, Bond PJ, Whitmore AV, Zimmer S, Young MP, Jenkins JL, Glick M, Glen RC, Bender A. From in silico target prediction to multi-target drug design: current databases, methods and applications. Journal of Proteomics. 74: 2554-74. PMID 21621023 DOI: 10.1016/j.jprot.2011.05.011  1
2010 Sukuru SC, Nigsch F, Quancard J, Renatus M, Chopra R, Brooijmans N, Mikhailov D, Deng Z, Cornett A, Jenkins JL, Hommel U, Davies JW, Glick M. A lead discovery strategy driven by a comprehensive analysis of proteases in the peptide substrate space. Protein Science : a Publication of the Protein Society. 19: 2096-109. PMID 20799349 DOI: 10.1002/pro.490  1
2010 Jenkins JL, Urban L. Phenotypic screening: Fishing for neuroactive compounds. Nature Chemical Biology. 6: 172-173. PMID 20154663 DOI: 10.1038/nchembio.320  1
2009 Scheiber J, Jenkins JL. Chemogenomic analysis of safety profiling data. Methods in Molecular Biology (Clifton, N.J.). 575: 207-23. PMID 19727617 DOI: 10.1007/978-1-60761-274-2_9  1
2009 Jacoby E, Boettcher A, Mayr LM, Brown N, Jenkins JL, Kallen J, Engeloch C, Schopfer U, Furet P, Masuya K, Lisztwan J. Knowledge-based virtual screening: application to the MDM4/p53 protein-protein interaction. Methods in Molecular Biology (Clifton, N.J.). 575: 173-94. PMID 19727615 DOI: 10.1007/978-1-60761-274-2_7  1
2009 Sukuru SC, Jenkins JL, Beckwith RE, Scheiber J, Bender A, Mikhailov D, Davies JW, Glick M. Plate-based diversity selection based on empirical HTS data to enhance the number of hits and their chemical diversity. Journal of Biomolecular Screening. 14: 690-9. PMID 19531667 DOI: 10.1177/1087057109335678  1
2009 Scheiber J, Chen B, Milik M, Sukuru SC, Bender A, Mikhailov D, Whitebread S, Hamon J, Azzaoui K, Urban L, Glick M, Davies JW, Jenkins JL. Gaining insight into off-target mediated effects of drug candidates with a comprehensive systems chemical biology analysis. Journal of Chemical Information and Modeling. 49: 308-17. PMID 19434832 DOI: 10.1021/ci800344p  1
2009 Scheiber J, Jenkins JL, Sukuru SC, Bender A, Mikhailov D, Milik M, Azzaoui K, Whitebread S, Hamon J, Urban L, Glick M, Davies JW. Mapping adverse drug reactions in chemical space. Journal of Medicinal Chemistry. 52: 3103-7. PMID 19378990 DOI: 10.1021/jm801546k  1
2009 Bender A, Mikhailov D, Glick M, Scheiber J, Davies JW, Cleaver S, Marshall S, Tallarico JA, Harrington E, Cornella-Taracido I, Jenkins JL. Use of ligand based models for protein domains to predict novel molecular targets and applications to triage affinity chromatography data. Journal of Proteome Research. 8: 2575-85. PMID 19271732 DOI: 10.1021/pr900107z  1
2009 Bender A, Jenkins JL, Scheiber J, Sukuru SC, Glick M, Davies JW. How similar are similarity searching methods? A principal component analysis of molecular descriptor space. Journal of Chemical Information and Modeling. 49: 108-19. PMID 19123924 DOI: 10.1021/ci800249s  1
2008 Nigsch F, Bender A, Jenkins JL, Mitchell JB. Ligand-target prediction using Winnow and naive Bayesian algorithms and the implications of overall performance statistics. Journal of Chemical Information and Modeling. 48: 2313-25. PMID 19055411 DOI: 10.1021/ci800079x  1
2008 Bender A, Bojanic D, Davies JW, Crisman TJ, Mikhailov D, Scheiber J, Jenkins JL, Deng Z, Hill WA, Popov M, Jacoby E, Glick M. Which aspects of HTS are empirically correlated with downstream success? Current Opinion in Drug Discovery & Development. 11: 327-37. PMID 18428086  1
2008 Crisman TJ, Bender A, Milik M, Jenkins JL, Scheiber J, Sukuru SC, Fejzo J, Hommel U, Davies JW, Glick M. "Virtual fragment linking": an approach to identify potent binders from low affinity fragment hits. Journal of Medicinal Chemistry. 51: 2481-91. PMID 18357974 DOI: 10.1021/jm701314u  1
2008 You TH, Lee MK, Jenkins JL, Alzate O, Dean DH. Blocking binding of Bacillus thuringiensis Cry1Aa to Bombyx mori cadherin receptor results in only a minor reduction of toxicity. Bmc Biochemistry. 9: 3. PMID 18218126 DOI: 10.1186/1471-2091-9-3  1
2008 Young DW, Bender A, Hoyt J, McWhinnie E, Chirn GW, Tao CY, Tallarico JA, Labow M, Jenkins JL, Mitchison TJ, Feng Y. Integrating high-content screening and ligand-target prediction to identify mechanism of action. Nature Chemical Biology. 4: 59-68. PMID 18066055 DOI: 10.1038/nchembio.2007.53  1
2007 Bender A, Young DW, Jenkins JL, Serrano M, Mikhailov D, Clemons PA, Davies JW. Chemogenomic data analysis: prediction of small-molecule targets and the advent of biological fingerprint. Combinatorial Chemistry & High Throughput Screening. 10: 719-31. PMID 18045083 DOI: 10.2174/138620707782507313  1
2007 Crisman TJ, Parker CN, Jenkins JL, Scheiber J, Thoma M, Kang ZB, Kim R, Bender A, Nettles JH, Davies JW, Glick M. Understanding false positives in reporter gene assays: in silico chemogenomics approaches to prioritize cell-based HTS data. Journal of Chemical Information and Modeling. 47: 1319-27. PMID 17608469 DOI: 10.1021/ci6005504  1
2007 Azzaoui K, Hamon J, Faller B, Whitebread S, Jacoby E, Bender A, Jenkins JL, Urban L. Modeling promiscuity based on in vitro safety pharmacology profiling data. Chemmedchem. 2: 874-80. PMID 17492703 DOI: 10.1002/cmdc.200700036  1
2007 Bender A, Scheiber J, Glick M, Davies JW, Azzaoui K, Hamon J, Urban L, Whitebread S, Jenkins JL. Analysis of pharmacology data and the prediction of adverse drug reactions and off-target effects from chemical structure. Chemmedchem. 2: 861-73. PMID 17477341 DOI: 10.1002/cmdc.200700026  1
2007 Crisman TJ, Jenkins JL, Parker CN, Hill WA, Bender A, Deng Z, Nettles JH, Davies JW, Glick M. "Plate cherry picking": a novel semi-sequential screening paradigm for cheaper, faster, information-rich compound selection. Journal of Biomolecular Screening. 12: 320-7. PMID 17438067 DOI: 10.1177/1087057107299427  1
2007 Nettles JH, Jenkins JL, Williams C, Clark AM, Bender A, Deng Z, Davies JW, Glick M. Flexible 3D pharmacophores as descriptors of dynamic biological space. Journal of Molecular Graphics & Modelling. 26: 622-33. PMID 17395510 DOI: 10.1016/j.jmgm.2007.02.005  1
2007 Schuffenhauer A, Brown N, Ertl P, Jenkins JL, Selzer P, Hamon J. Clustering and rule-based classifications of chemical structures evaluated in the biological activity space. Journal of Chemical Information and Modeling. 47: 325-36. PMID 17286395 DOI: 10.1021/ci6004004  1
2006 Nettles JH, Jenkins JL, Bender A, Deng Z, Davies JW, Glick M. Bridging chemical and biological space: "target fishing" using 2D and 3D molecular descriptors. Journal of Medicinal Chemistry. 49: 6802-10. PMID 17154510 DOI: 10.1021/jm060902w  1
2006 Bender A, Jenkins JL, Glick M, Deng Z, Nettles JH, Davies JW. "Bayes affinity fingerprints" improve retrieval rates in virtual screening and define orthogonal bioactivity space: when are multitarget drugs a feasible concept? Journal of Chemical Information and Modeling. 46: 2445-56. PMID 17125186 DOI: 10.1021/ci600197y  1
2006 Davies JW, Glick M, Jenkins JL. Streamlining lead discovery by aligning in silico and high-throughput screening. Current Opinion in Chemical Biology. 10: 343-51. PMID 16822701 DOI: 10.1016/j.cbpa.2006.06.022  1
2006 Nidhi, Glick M, Davies JW, Jenkins JL. Prediction of biological targets for compounds using multiple-category Bayesian models trained on chemogenomics databases. Journal of Chemical Information and Modeling. 46: 1124-33. PMID 16711732 DOI: 10.1021/ci060003g  1
2006 Glick M, Jenkins JL, Nettles JH, Hitchings H, Davies JW. Enrichment of high-throughput screening data with increasing levels of noise using support vector machines, recursive partitioning, and laplacian-modified naive bayesian classifiers. Journal of Chemical Information and Modeling. 46: 193-200. PMID 16426055 DOI: 10.1021/ci050374h  1
2004 Jenkins JL, Glick M, Davies JW. A 3D similarity method for scaffold hopping from known drugs or natural ligands to new chemotypes. Journal of Medicinal Chemistry. 47: 6144-59. PMID 15566286 DOI: 10.1021/jm049654z  1
2003 Tonan K, Xu P, Jenkins JL, Russo A, Shapiro R, Ni F. Unexpected binding mode for 2'-phosphoadenosine-based nucleotide inhibitors in complex with human angiogenin revealed by heteronuclear NMR spectroscopy. Biochemistry. 42: 11137-49. PMID 14503864 DOI: 10.1021/bi030066h  1
2003 Jenkins JL, Shapiro R. Identification of small-molecule inhibitors of human angiogenin and characterization of their binding interactions guided by computational docking. Biochemistry. 42: 6674-87. PMID 12779322 DOI: 10.1021/bi034164e  1
2003 Kumar K, Jenkins JL, Jardine AM, Shapiro R. Inhibition of mammalian ribonucleases by endogenous adenosine dinucleotides. Biochemical and Biophysical Research Communications. 300: 81-6. PMID 12480524 DOI: 10.1016/S0006-291X(02)02800-0  1
2003 Jenkins JL, Kao RY, Shapiro R. Virtual screening to enrich hit lists from high-throughput screening: a case study on small-molecule inhibitors of angiogenin. Proteins. 50: 81-93. PMID 12471601 DOI: 10.1002/prot.10270  1
2002 Kao RY, Jenkins JL, Olson KA, Key ME, Fett JW, Shapiro R. A small-molecule inhibitor of the ribonucleolytic activity of human angiogenin that possesses antitumor activity. Proceedings of the National Academy of Sciences of the United States of America. 99: 10066-71. PMID 12118120 DOI: 10.1073/pnas.152342999  1
2001 Jenkins JL, Dean DH. Binding specificity of Bacillus thuringiensis Cry1Aa for purified, native Bombyx mori aminopeptidase N and cadherin-like receptors. Bmc Biochemistry. 2: 12. PMID 11722800  1
2001 Jardine AM, Leonidas DD, Jenkins JL, Park C, Raines RT, Acharya KR, Shapiro R. Cleavage of 3',5'-pyrophosphate-linked dinucleotides by ribonuclease A and angiogenin. Biochemistry. 40: 10262-72. PMID 11513604 DOI: 10.1021/bi010888j  1
2001 Lee MK, Jenkins JL, You TH, Curtiss A, Son JJ, Adang MJ, Dean DH. Mutations at the arginine residues in alpha8 loop of Bacillus thuringiensis delta-endotoxin Cry1Ac affect toxicity and binding to Manduca sexta and Lymantria dispar aminopeptidase N. Febs Letters. 497: 108-12. PMID 11377423 DOI: 10.1016/S0014-5793(01)02446-2  1
2001 Valaitis AP, Jenkins JL, Lee MK, Dean DH, Garner KJ. Isolation and partial characterization of gypsy moth BTR-270, an anionic brush border membrane glycoconjugate that binds Bacillus thuringiensis Cry1A toxins with high affinity. Archives of Insect Biochemistry and Physiology. 46: 186-200. PMID 11304752 DOI: 10.1002/arch.1028  1
2000 Jenkins JL, Dean DH. Exploring the mechanism of action of insecticidal proteins by genetic engineering methods. Genetic Engineering. 22: 33-54. PMID 11501380  1
2000 Lee MK, Rajamohan F, Jenkins JL, Curtiss AS, Dean DH. Role of two arginine residues in domain II, loop 2 of Cry1Ab and Cry1Ac Bacillus thuringiensis delta-endotoxin in toxicity and binding to Manduca sexta and Lymantria dispar aminopeptidase N. Molecular Microbiology. 38: 289-98. PMID 11069655 DOI: 10.1046/j.1365-2958.2000.02109.x  1
2000 Jenkins JL, Lee MK, Valaitis AP, Curtiss A, Dean DH. Bivalent sequential binding model of a Bacillus thuringiensis toxin to gypsy moth aminopeptidase N receptor. The Journal of Biological Chemistry. 275: 14423-31. PMID 10799525 DOI: 10.1074/jbc.275.19.14423  1
1999 Jenkins JL, Lee MK, Sangadala S, Adang MJ, Dean DH. Binding of Bacillus thuringiensis Cry1Ac toxin to Manduca sexta aminopeptidase-N receptor is not directly related to toxicity. Febs Letters. 462: 373-6. PMID 10622728 DOI: 10.1016/S0014-5793(99)01559-8  1
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