메뉴 건너뛰기




Volumn 97, Issue 1, 2008, Pages 566-583

Combined 4D-fingerprint and clustering based membrane-interaction QSAR analyses for constructing consensus Caco-2 cell permeation virtual screens

Author keywords

Caco 2 cell permeation; Cluster analysis; Drug absorption; Membrane; Molecular similarity; QSAR; Universal 4D fingerprint descriptors

Indexed keywords

ACICLOVIR; ALPRENOLOL; ATENOLOL; BREMAZOCINE; CAFFEINE; CHLORPROMAZINE; CLONIDINE; CORTICOSTERONE; DESIPRAMINE; DEXAMETHASONE; DIAZEPAM; DOPAMINE; ESTRADIOL; GANCICLOVIR; HYDROCORTISONE; INDOMETACIN; LABETALOL; METOPROLOL; NADOLOL; NICOTINE; PHENCYCLIDINE; PHENYTOIN; PINDOLOL; PROGESTERONE; SALAZOSULFAPYRIDINE; SALICYLIC ACID; SCOPOLAMINE; TERBUTALINE; TESTOSTERONE; UNINDEXED DRUG;

EID: 38349173396     PISSN: 00223549     EISSN: 15206017     Source Type: Journal    
DOI: 10.1002/jps.21086     Document Type: Article
Times cited : (11)

References (35)
  • 2
    • 0026321138 scopus 로고
    • Cell cultures as models for drug absorption across the intestinal mucosa
    • Artursson P. 1991. Cell cultures as models for drug absorption across the intestinal mucosa. Control Rev Ther Drug Sys 8:305-330.
    • (1991) Control Rev Ther Drug Sys , vol.8 , pp. 305-330
    • Artursson, P.1
  • 3
    • 0035821601 scopus 로고    scopus 로고
    • Experimental and computational screening models for the prediction of intestinal drug absorption
    • Stenberg P, Norinder U, Luthman K, Artursson P, 2001. Experimental and computational screening models for the prediction of intestinal drug absorption. J Med Chem 44:1927-1937.
    • (2001) J Med Chem , vol.44 , pp. 1927-1937
    • Stenberg, P.1    Norinder, U.2    Luthman, K.3    Artursson, P.4
  • 4
    • 0032837628 scopus 로고    scopus 로고
    • Membrane-interaction QSAR analysis: Application to the estimation of eye irritation by organic compounds
    • Kulkarni AS, Hopfinger AJ. 1999. Membrane-interaction QSAR analysis: Application to the estimation of eye irritation by organic compounds. Pharm Res 16:1244-1252.
    • (1999) Pharm Res , vol.16 , pp. 1244-1252
    • Kulkarni, A.S.1    Hopfinger, A.J.2
  • 5
    • 0035124369 scopus 로고    scopus 로고
    • Prediction of eye irritation from organic chemicals using membrane-interaction QSAR analysis
    • Kulkarni AS, Hopfinger AJ, Osborne R, Bruner LH, Thompson ED. 2001. Prediction of eye irritation from organic chemicals using membrane-interaction QSAR analysis. Toxicol Sci 59:335-345.
    • (2001) Toxicol Sci , vol.59 , pp. 335-345
    • Kulkarni, A.S.1    Hopfinger, A.J.2    Osborne, R.3    Bruner, L.H.4    Thompson, E.D.5
  • 6
    • 85031443054 scopus 로고    scopus 로고
    • ADMET/MI-QSAR Version 1.0 User's Guide: The Chem21 Group, Inc.: Chicago, 2001.
    • ADMET/MI-QSAR Version 1.0 User's Guide: The Chem21 Group, Inc.: Chicago, 2001.
  • 7
    • 0036489453 scopus 로고    scopus 로고
    • Predicting Caco-2 cell permeation coefficients of organic molecules using membrane-interaction QSAR analysis
    • Kulkarni A, Han Y, Hopfinger AJ. 2002. Predicting Caco-2 cell permeation coefficients of organic molecules using membrane-interaction QSAR analysis. J Chem Inf Comput Sci 42:331-342.
    • (2002) J Chem Inf Comput Sci , vol.42 , pp. 331-342
    • Kulkarni, A.1    Han, Y.2    Hopfinger, A.J.3
  • 8
    • 0036844787 scopus 로고    scopus 로고
    • Predicting blood-brain barrier partitioning of organic molecules using membrane-interaction QSAR analysis
    • Iyer M, Mishra R, Han Y, Hopfinger AJ. 2002. Predicting blood-brain barrier partitioning of organic molecules using membrane-interaction QSAR analysis. Phar Res 19:1611-1621.
    • (2002) Phar Res , vol.19 , pp. 1611-1621
    • Iyer, M.1    Mishra, R.2    Han, Y.3    Hopfinger, A.J.4
  • 9
    • 25144460254 scopus 로고    scopus 로고
    • Characterization of skin penetration processes of organic molecules using molecular similarity and QSAR analysis
    • Santos-Filho OA, Hopfinger AJ, Zheng T. 2004. Characterization of skin penetration processes of organic molecules using molecular similarity and QSAR analysis. Mol Pharm 1:466-476.
    • (2004) Mol Pharm , vol.1 , pp. 466-476
    • Santos-Filho, O.A.1    Hopfinger, A.J.2    Zheng, T.3
  • 10
    • 33751392117 scopus 로고
    • Clustering of chemical structures on the basis of two-dimensional similarity measures
    • Barnard JM, Downs GM. 1992. Clustering of chemical structures on the basis of two-dimensional similarity measures. J Chem Inf Comput Sci 32:644-649.
    • (1992) J Chem Inf Comput Sci , vol.32 , pp. 644-649
    • Barnard, J.M.1    Downs, G.M.2
  • 11
    • 33645265985 scopus 로고    scopus 로고
    • Clustering methods and their uses in computational chemistry
    • Lipkowitz KB, Boyd DB, editors, Hoboken: Wiley-VCH. pp
    • Downs GM, Barnard JM. 2002. Clustering methods and their uses in computational chemistry. In: Lipkowitz KB, Boyd DB, editors. Reviews in computational chemistry. Vol. 18. Hoboken: Wiley-VCH. pp 1-40.
    • (2002) Reviews in computational chemistry , vol.18 , pp. 1-40
    • Downs, G.M.1    Barnard, J.M.2
  • 12
    • 0000805679 scopus 로고
    • The molecular connectivity chi indexes and kappa shape indexes in structure-property modeling
    • Lipkowitz KB, Boyd DB, editors, New York: VCH. pp
    • Hall LH, Kier LB. 1991. The molecular connectivity chi indexes and kappa shape indexes in structure-property modeling. In: Lipkowitz KB, Boyd DB, editors. Reviews in computational chemistry. Vol. 2. New York: VCH. pp 367-422.
    • (1991) Reviews in computational chemistry , vol.2 , pp. 367-422
    • Hall, L.H.1    Kier, L.B.2
  • 13
    • 85031443269 scopus 로고    scopus 로고
    • 4D-MS Version 1.0 User's Guide: The Chem21 Group, Inc, Chicago, 2001
    • 4D-MS Version 1.0 User's Guide: The Chem21 Group, Inc.: Chicago, 2001.
  • 15
    • 0031781430 scopus 로고    scopus 로고
    • Correlating partitioning and caco-2 cell permeability of structurally diverse small molecular weight compounds
    • Yazdanian M, Glynn SL, Wright JL, Hawi A. 1998. Correlating partitioning and caco-2 cell permeability of structurally diverse small molecular weight compounds. Pharm Res 15:1490-1494.
    • (1998) Pharm Res , vol.15 , pp. 1490-1494
    • Yazdanian, M.1    Glynn, S.L.2    Wright, J.L.3    Hawi, A.4
  • 16
    • 0019882643 scopus 로고
    • Preferred conformation and molecular packing of phosphatidylethanolamine and phosphatidylcholine
    • Hauser H, Pascher I, Pearson RH, Sundell S. 1981. Preferred conformation and molecular packing of phosphatidylethanolamine and phosphatidylcholine. Biochim Biophys Acta 650:21-51.
    • (1981) Biochim Biophys Acta , vol.650 , pp. 21-51
    • Hauser, H.1    Pascher, I.2    Pearson, R.H.3    Sundell, S.4
  • 17
    • 85031441112 scopus 로고    scopus 로고
    • Hyperchem Release 4.5 for MS Windows. Hypercube Inc, Waterloo: Ontario, 1998
    • Hyperchem Release 4.5 for MS Windows. Hypercube Inc, Waterloo: Ontario, 1998.
  • 18
    • 85031449919 scopus 로고    scopus 로고
    • Mopac 6.0, Frank J. Seiler Research Laboratory, United States Air Force Academy: 1990.
    • Mopac 6.0, Frank J. Seiler Research Laboratory, United States Air Force Academy: 1990.
  • 19
    • 85031444898 scopus 로고    scopus 로고
    • Doherty DC. 2000. Molsim Version 3.0 User's Guide: The Chem21 Group, Inc.: Chicago.
    • Doherty DC. 2000. Molsim Version 3.0 User's Guide: The Chem21 Group, Inc.: Chicago.
  • 21
    • 0028467707 scopus 로고
    • Applications of genetic function approximation to quantitative structure-activity relationships and quantitative structure-property relationships
    • Rogers D, Hopfinger AJ. 1994. Applications of genetic function approximation to quantitative structure-activity relationships and quantitative structure-property relationships. J Chem Inf Comput Sci 34:854-866.
    • (1994) J Chem Inf Comput Sci , vol.34 , pp. 854-866
    • Rogers, D.1    Hopfinger, A.J.2
  • 22
    • 85031437404 scopus 로고
    • WOLF 6.2 GFA Program
    • Group, Inc, Chicago
    • Rogers D. 1994. WOLF 6.2 GFA Program: The Chem21 Group, Inc.: Chicago.
    • (1994) The Chem21
    • Rogers, D.1
  • 24
    • 0342645323 scopus 로고    scopus 로고
    • Use of structure-activity data to compare structure-based clustering methods and descriptors for use in compound selection
    • Brown RD, Martin YC. 1996. Use of structure-activity data to compare structure-based clustering methods and descriptors for use in compound selection. J Chem Inf Comput Sci 36:572-584.
    • (1996) J Chem Inf Comput Sci , vol.36 , pp. 572-584
    • Brown, R.D.1    Martin, Y.C.2
  • 25
    • 0035960060 scopus 로고    scopus 로고
    • Quantitative structure-antitumor activity relationships of camptothecin analogues: Cluster analysis and genetic algorithm-based studies
    • Fan Y, Shi LM, Kohn KW, Pommier Y, Weinstein JN. 2001. Quantitative structure-antitumor activity relationships of camptothecin analogues: Cluster analysis and genetic algorithm-based studies. J Med Chem 44:3254-3263.
    • (2001) J Med Chem , vol.44 , pp. 3254-3263
    • Fan, Y.1    Shi, L.M.2    Kohn, K.W.3    Pommier, Y.4    Weinstein, J.N.5
  • 26
    • 0344686399 scopus 로고    scopus 로고
    • A simple clustering technique to improve QSAR model selection and predictivity: Application to a receptor independent 4D-QSAR analysis of cyclic urea derived inhibitors of HIV-1 protease
    • Senese CL, Hopfinger AJ. 2003. A simple clustering technique to improve QSAR model selection and predictivity: Application to a receptor independent 4D-QSAR analysis of cyclic urea derived inhibitors of HIV-1 protease. J Chem Inf Comput Sci 43:2180-2193.
    • (2003) J Chem Inf Comput Sci , vol.43 , pp. 2180-2193
    • Senese, C.L.1    Hopfinger, A.J.2
  • 27
    • 10044267949 scopus 로고    scopus 로고
    • Constructing optimum blood brain barrier QSAR models using a combination of 4D-molecular similarity measures and cluster analysis
    • Pan D, Iyer M, Liu J, Li Y, Hopfinger AJ. 2004. Constructing optimum blood brain barrier QSAR models using a combination of 4D-molecular similarity measures and cluster analysis. J Chem Inf Comput Sci 44:2083-2098.
    • (2004) J Chem Inf Comput Sci , vol.44 , pp. 2083-2098
    • Pan, D.1    Iyer, M.2    Liu, J.3    Li, Y.4    Hopfinger, A.J.5
  • 28
    • 0001680792 scopus 로고    scopus 로고
    • Diversity of chemical libraries
    • Schleyer PvR, Allinger NL, Clark T, Gasteiger J, Kollman P, Schaefer HF III, Schreiner PR, editors, West Sussex: John Wiley & Sons. pp
    • Agrafiotis DK. 1998. Diversity of chemical libraries. In: Schleyer PvR, Allinger NL, Clark T, Gasteiger J, Kollman P, Schaefer HF III, Schreiner PR, editors. Encyclopedia of computational chemistry. West Sussex: John Wiley & Sons. pp 742-761.
    • (1998) Encyclopedia of computational chemistry , pp. 742-761
    • Agrafiotis, D.K.1
  • 29
    • 0015680655 scopus 로고
    • Clustering using a similarity measure based on shared nearest neighbors
    • Jarvis RA , Patrick EA . 1973, Clustering using a similarity measure based on shared nearest neighbors. IEEE Trans Comput C-22, 1025-1034.
    • (1973) IEEE Trans Comput , vol.C-22 , pp. 1025-1034
    • Jarvis, R.A.1    Patrick, E.A.2
  • 30
    • 0028496956 scopus 로고
    • Similarity searching and clustering of chemical-structure databases using molecular property data
    • Downs GM, Willet P, Fisanick W. 1994. Similarity searching and clustering of chemical-structure databases using molecular property data. J Chem Inf Comput Sci 34:1094-1102.
    • (1994) J Chem Inf Comput Sci , vol.34 , pp. 1094-1102
    • Downs, G.M.1    Willet, P.2    Fisanick, W.3
  • 31
    • 84944178665 scopus 로고
    • Hierarchical grouping to optimize an objective function
    • Ward JH. 1963. Hierarchical grouping to optimize an objective function. J Am Stat Assoc 58:236-244.
    • (1963) J Am Stat Assoc , vol.58 , pp. 236-244
    • Ward, J.H.1
  • 32
    • 0035470284 scopus 로고    scopus 로고
    • Estimation of molecular similarity based on 4D-QSAR analysis: Formalism and validation
    • Duca JS, Hopfinger AJ. 2001. Estimation of molecular similarity based on 4D-QSAR analysis: Formalism and validation. J Chem Inf Comput Sci 41:1367-1387.
    • (2001) J Chem Inf Comput Sci , vol.41 , pp. 1367-1387
    • Duca, J.S.1    Hopfinger, A.J.2
  • 33
    • 0032585545 scopus 로고    scopus 로고
    • Evaluation of dynamic polar molecular surface area as predictor of drug absorption: Comparison with other computational and experimental predictors
    • Palm K, Luthman K, Ungel A-L, Strandlund G, Beigi F, Lundahl P, Artursson P. 1998. Evaluation of dynamic polar molecular surface area as predictor of drug absorption: Comparison with other computational and experimental predictors. J Med Chem 41:5382-5392.
    • (1998) J Med Chem , vol.41 , pp. 5382-5392
    • Palm, K.1    Luthman, K.2    Ungel, A.-L.3    Strandlund, G.4    Beigi, F.5    Lundahl, P.6    Artursson, P.7
  • 34
    • 0032480901 scopus 로고    scopus 로고
    • Correlation of human jejunal permeability (in vivo) of drugs with experimentally and theoretically derived parameters: A multivariate data analysis approach
    • Winiwarter S, Bonham NM, Ax F, Hallberg A, Lennarnäs H, Karlén A. 1998. Correlation of human jejunal permeability (in vivo) of drugs with experimentally and theoretically derived parameters: A multivariate data analysis approach. J Med Chem 41:4939-4949.
    • (1998) J Med Chem , vol.41 , pp. 4939-4949
    • Winiwarter, S.1    Bonham, N.M.2    Ax, F.3    Hallberg, A.4    Lennarnäs, H.5    Karlén, A.6


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.