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Volumn 14, Issue 1, 2013, Pages

A novel phenotypic dissimilarity method for image-based high-throughput screens

Author keywords

Gene networks; High content screening; Image based high throughput screening; Phenotypic dissimilarity; RNAi

Indexed keywords

GENE NETWORKS; HIGH-CONTENT SCREENING; HIGH-THROUGHPUT SCREENING; PHENOTYPIC DISSIMILARITY; RNAI;

EID: 84887983821     PISSN: None     EISSN: 14712105     Source Type: Journal    
DOI: 10.1186/1471-2105-14-336     Document Type: Article
Times cited : (13)

References (41)
  • 1
    • 45549089565 scopus 로고    scopus 로고
    • The art and design of genetic screens: RNA interference
    • 10.1038/nrg2364, 18521077
    • Boutros M, Ahringer J. The art and design of genetic screens: RNA interference. Nat Rev Genet 2008, 9(7):554-566. 10.1038/nrg2364, 18521077.
    • (2008) Nat Rev Genet , vol.9 , Issue.7 , pp. 554-566
    • Boutros, M.1    Ahringer, J.2
  • 2
    • 67650070045 scopus 로고    scopus 로고
    • Multi-parameter phenotypic profiling: using cellular effects to characterize small-molecule compounds
    • 10.1038/nrd2876, 19568283
    • Feng Y, Mitchison TJ, Bender A, Young DW, Tallarico JA. Multi-parameter phenotypic profiling: using cellular effects to characterize small-molecule compounds. Nat Rev Drug Discov 2009, 8(7):567-578. 10.1038/nrd2876, 19568283.
    • (2009) Nat Rev Drug Discov , vol.8 , Issue.7 , pp. 567-578
    • Feng, Y.1    Mitchison, T.J.2    Bender, A.3    Young, D.W.4    Tallarico, J.A.5
  • 4
    • 0842309871 scopus 로고    scopus 로고
    • Genome-wide RNAi analysis of growth and viability in Drosophila cells
    • 10.1126/science.1091266, 14764878
    • Boutros M, Kiger AA, Armknecht S, Kerr K, Hild M, Koch B, Haas SA, Paro R, Perrimon N. Genome-wide RNAi analysis of growth and viability in Drosophila cells. Science 2004, 303(5659):832-835. 10.1126/science.1091266, 14764878.
    • (2004) Science , vol.303 , Issue.5659 , pp. 832-835
    • Boutros, M.1    Kiger, A.A.2    Armknecht, S.3    Kerr, K.4    Hild, M.5    Koch, B.6    Haas, S.A.7    Paro, R.8    Perrimon, N.9
  • 5
    • 23844483215 scopus 로고    scopus 로고
    • Identification of JAK/STAT signalling components by genome-wide RNA interference
    • 10.1038/nature03869, 16094372
    • Muller P, Kuttenkeuler D, Gesellchen V, Zeidler MP, Boutros M. Identification of JAK/STAT signalling components by genome-wide RNA interference. Nature 2005, 436(7052):871-875. 10.1038/nature03869, 16094372.
    • (2005) Nature , vol.436 , Issue.7052 , pp. 871-875
    • Muller, P.1    Kuttenkeuler, D.2    Gesellchen, V.3    Zeidler, M.P.4    Boutros, M.5
  • 6
    • 33646123992 scopus 로고    scopus 로고
    • Secretion of Wnt ligands requires Evi, a conserved transmembrane protein
    • 10.1016/j.cell.2006.04.009, 16678096
    • Bartscherer K, Pelte N, Ingelfinger D, Boutros M. Secretion of Wnt ligands requires Evi, a conserved transmembrane protein. Cell 2006, 125(3):523-533. 10.1016/j.cell.2006.04.009, 16678096.
    • (2006) Cell , vol.125 , Issue.3 , pp. 523-533
    • Bartscherer, K.1    Pelte, N.2    Ingelfinger, D.3    Boutros, M.4
  • 9
    • 8444223104 scopus 로고    scopus 로고
    • Multidimensional drug profiling by automated microscopy
    • 10.1126/science.1100709, 15539606
    • Perlman ZE, Slack MD, Feng Y, Mitchison TJ, Wu LF, Altschuler SJ. Multidimensional drug profiling by automated microscopy. Science 2004, 306(5699):1194-1198. 10.1126/science.1100709, 15539606.
    • (2004) Science , vol.306 , Issue.5699 , pp. 1194-1198
    • Perlman, Z.E.1    Slack, M.D.2    Feng, Y.3    Mitchison, T.J.4    Wu, L.F.5    Altschuler, S.J.6
  • 11
    • 70349613624 scopus 로고    scopus 로고
    • An approach for extensibly profiling the molecular states of cellular subpopulations
    • 10.1038/nmeth.1375, 2818727, 19767759
    • Loo LH, Lin HJ, Steininger RJ 3, Wang Y, Wu LF, Altschuler SJ. An approach for extensibly profiling the molecular states of cellular subpopulations. Nat Methods 2009, 6(10):759-765. 10.1038/nmeth.1375, 2818727, 19767759.
    • (2009) Nat Methods , vol.6 , Issue.10 , pp. 759-765
    • Loo, L.H.1    Lin, H.J.2    Steininger, R.J.3    Wang, Y.4    Wu, L.F.5    Altschuler, S.J.6
  • 14
    • 70349466529 scopus 로고    scopus 로고
    • Population context determines cell-to-cell variability in endocytosis and virus infection
    • 10.1038/nature08282, 19710653
    • Snijder B, Sacher R, Ramo P, Damm EM, Liberali P, Pelkmans L. Population context determines cell-to-cell variability in endocytosis and virus infection. Nature 2009, 461(7263):520-523. 10.1038/nature08282, 19710653.
    • (2009) Nature , vol.461 , Issue.7263 , pp. 520-523
    • Snijder, B.1    Sacher, R.2    Ramo, P.3    Damm, E.M.4    Liberali, P.5    Pelkmans, L.6
  • 15
    • 84877303028 scopus 로고    scopus 로고
    • Mapping genetic interactions in human cancer cells with RNAi and multiparametric phenotyping
    • 10.1038/nmeth.2436, 23563794
    • Laufer C, Fischer B, Billmann M, Huber W, Boutros M. Mapping genetic interactions in human cancer cells with RNAi and multiparametric phenotyping. Nat Methods 2013, 10(5):427-431. 10.1038/nmeth.2436, 23563794.
    • (2013) Nat Methods , vol.10 , Issue.5 , pp. 427-431
    • Laufer, C.1    Fischer, B.2    Billmann, M.3    Huber, W.4    Boutros, M.5
  • 16
    • 34447502161 scopus 로고    scopus 로고
    • Image-based chemical screening
    • 10.1038/nchembio.2007.15, 17637778
    • Carpenter AE. Image-based chemical screening. Nat Chem Biol 2007, 3(8):461-465. 10.1038/nchembio.2007.15, 17637778.
    • (2007) Nat Chem Biol , vol.3 , Issue.8 , pp. 461-465
    • Carpenter, A.E.1
  • 17
    • 0033003760 scopus 로고    scopus 로고
    • A simple statistical parameter for use in evaluation and validation of high throughput screening assays
    • 10.1177/108705719900400206, 10838414
    • Zhang JH, Chung TD, Oldenburg KR. A simple statistical parameter for use in evaluation and validation of high throughput screening assays. J Biomol Screen 1999, 4(2):67-73. 10.1177/108705719900400206, 10838414.
    • (1999) J Biomol Screen , vol.4 , Issue.2 , pp. 67-73
    • Zhang, J.H.1    Chung, T.D.2    Oldenburg, K.R.3
  • 18
    • 33749381471 scopus 로고    scopus 로고
    • Analysis of cell-based RNAi screens
    • 10.1186/gb-2006-7-7-r66, 1779553, 16869968
    • Boutros M, Bras LP, Huber W. Analysis of cell-based RNAi screens. Genome Biol 2006, 7(7):R66. 10.1186/gb-2006-7-7-r66, 1779553, 16869968.
    • (2006) Genome Biol , vol.7 , Issue.7
    • Boutros, M.1    Bras, L.P.2    Huber, W.3
  • 20
    • 77950643469 scopus 로고    scopus 로고
    • Web cellHTS2: a web-application for the analysis of high-throughput screening data
    • 10.1186/1471-2105-11-185, 3098057, 20385013
    • Pelz O, Gilsdorf M, Boutros M. web cellHTS2: a web-application for the analysis of high-throughput screening data. BMC Bioinformatics 2010, 11:185. 10.1186/1471-2105-11-185, 3098057, 20385013.
    • (2010) BMC Bioinformatics , vol.11 , pp. 185
    • Pelz, O.1    Gilsdorf, M.2    Boutros, M.3
  • 22
    • 77951959633 scopus 로고    scopus 로고
    • EBImage-an R package for image processing with applications to cellular phenotypes
    • 10.1093/bioinformatics/btq046, 2844988, 20338898
    • Pau G, Fuchs F, Sklyar O, Boutros M, Huber W. EBImage-an R package for image processing with applications to cellular phenotypes. Bioinformatics 2010, 26(7):979-981. 10.1093/bioinformatics/btq046, 2844988, 20338898.
    • (2010) Bioinformatics , vol.26 , Issue.7 , pp. 979-981
    • Pau, G.1    Fuchs, F.2    Sklyar, O.3    Boutros, M.4    Huber, W.5
  • 24
    • 34250216344 scopus 로고    scopus 로고
    • Image-based multivariate profiling of drug responses from single cells
    • Loo LH, Wu LF, Altschuler SJ. Image-based multivariate profiling of drug responses from single cells. Nat Methods 2007, 4(5):445-453.
    • (2007) Nat Methods , vol.4 , Issue.5 , pp. 445-453
    • Loo, L.H.1    Wu, L.F.2    Altschuler, S.J.3
  • 25
    • 2642705036 scopus 로고    scopus 로고
    • A novel lipid-anchored A-kinase Anchoring Protein facilitates cAMP-responsive membrane events
    • 10.1093/emboj/17.8.2261, 1170570, 9545239
    • Fraser ID, Tavalin SJ, Lester LB, Langeberg LK, Westphal AM, Dean RA, Marrion NV, Scott JD. A novel lipid-anchored A-kinase Anchoring Protein facilitates cAMP-responsive membrane events. EMBO J 1998, 17(8):2261-2272. 10.1093/emboj/17.8.2261, 1170570, 9545239.
    • (1998) EMBO J , vol.17 , Issue.8 , pp. 2261-2272
    • Fraser, I.D.1    Tavalin, S.J.2    Lester, L.B.3    Langeberg, L.K.4    Westphal, A.M.5    Dean, R.A.6    Marrion, N.V.7    Scott, J.D.8
  • 26
    • 0029904265 scopus 로고
    • A kinase anchor protein 75 targets regulatory (RII) subunits of cAMP-dependent protein kinase II to the cortical actin cytoskeleton in non-neuronal cells
    • Li Y, Ndubuka C, Rubin CS. A kinase anchor protein 75 targets regulatory (RII) subunits of cAMP-dependent protein kinase II to the cortical actin cytoskeleton in non-neuronal cells. J Biol Chem 1686, 271(28):2-16869.
    • (1686) J Biol Chem , vol.271 , Issue.28 , pp. 2-16869
    • Li, Y.1    Ndubuka, C.2    Rubin, C.S.3
  • 27
    • 0034695451 scopus 로고    scopus 로고
    • A urokinase receptor-associated protein with specific collagen binding properties
    • 10.1074/jbc.275.3.1993, 10636902
    • Behrendt N, Jensen ON, Engelholm LH, Mortz E, Mann M, Dano K. A urokinase receptor-associated protein with specific collagen binding properties. J Biol Chem 2000, 275(3):1993-2002. 10.1074/jbc.275.3.1993, 10636902.
    • (2000) J Biol Chem , vol.275 , Issue.3 , pp. 1993-2002
    • Behrendt, N.1    Jensen, O.N.2    Engelholm, L.H.3    Mortz, E.4    Mann, M.5    Dano, K.6
  • 28
    • 41449100433 scopus 로고    scopus 로고
    • Cell shape regulates collagen type I expression in human tendon fibroblasts
    • 10.1002/cm.20263, 18240273
    • Li F, Li B, Wang QM, Wang JH. Cell shape regulates collagen type I expression in human tendon fibroblasts. Cell Motil Cytoskeleton 2008, 65(4):332-341. 10.1002/cm.20263, 18240273.
    • (2008) Cell Motil Cytoskeleton , vol.65 , Issue.4 , pp. 332-341
    • Li, F.1    Li, B.2    Wang, Q.M.3    Wang, J.H.4
  • 30
    • 0029011218 scopus 로고
    • The MAPK signaling cascade
    • Seger R, Krebs EG. The MAPK signaling cascade. FASEB J 1995, 9(9):726-735.
    • (1995) FASEB J , vol.9 , Issue.9 , pp. 726-735
    • Seger, R.1    Krebs, E.G.2
  • 33
    • 0029093085 scopus 로고
    • Overexpression of DR-nm23, a protein encoded by a member of the nm23 gene family, inhibits granulocyte differentiation and induces apoptosis in 32Dc13 myeloid cells
    • 10.1073/pnas.92.16.7435, 41354, 7638209
    • Venturelli D, Martinez R, Melotti P, Casella I, Peschle C, Cucco C, Spampinato G, Darzynkiewicz Z, Calabretta B. Overexpression of DR-nm23, a protein encoded by a member of the nm23 gene family, inhibits granulocyte differentiation and induces apoptosis in 32Dc13 myeloid cells. Proc Natl Acad Sci USA 1995, 92(16):7435-7439. 10.1073/pnas.92.16.7435, 41354, 7638209.
    • (1995) Proc Natl Acad Sci USA , vol.92 , Issue.16 , pp. 7435-7439
    • Venturelli, D.1    Martinez, R.2    Melotti, P.3    Casella, I.4    Peschle, C.5    Cucco, C.6    Spampinato, G.7    Darzynkiewicz, Z.8    Calabretta, B.9
  • 34
    • 0347382319 scopus 로고    scopus 로고
    • Nm23-H1 reduces in vitro cell migration and the liver metastatic potential of colon cancer cells by regulating myosin light chain phosphorylation
    • 10.1002/ijc.11546, 14639604
    • Suzuki E, Ota T, Tsukuda K, Okita A, Matsuoka K, Murakami M, Doihara H, Shimizu N. nm23-H1 reduces in vitro cell migration and the liver metastatic potential of colon cancer cells by regulating myosin light chain phosphorylation. Int J Cancer 2004, 108(2):207-211. 10.1002/ijc.11546, 14639604.
    • (2004) Int J Cancer , vol.108 , Issue.2 , pp. 207-211
    • Suzuki, E.1    Ota, T.2    Tsukuda, K.3    Okita, A.4    Matsuoka, K.5    Murakami, M.6    Doihara, H.7    Shimizu, N.8
  • 35
    • 0037199995 scopus 로고    scopus 로고
    • Nm23-H1 metastasis suppressor phosphorylation of kinase suppressor of Ras via a histidine protein kinase pathway
    • 10.1074/jbc.M203115200, 12105213
    • Hartsough MT, Morrison DK, Salerno M, Palmieri D, Ouatas T, Mair M, Patrick J, Steeg PS. Nm23-H1 metastasis suppressor phosphorylation of kinase suppressor of Ras via a histidine protein kinase pathway. J Biol Chem 2002, 277(35):32389-32399. 10.1074/jbc.M203115200, 12105213.
    • (2002) J Biol Chem , vol.277 , Issue.35 , pp. 32389-32399
    • Hartsough, M.T.1    Morrison, D.K.2    Salerno, M.3    Palmieri, D.4    Ouatas, T.5    Mair, M.6    Patrick, J.7    Steeg, P.S.8
  • 36
    • 77149130553 scopus 로고    scopus 로고
    • Automated microscopy for high-content RNAi screening
    • 10.1083/jcb.200910105, 2828931, 20176920
    • Conrad C, Gerlich DW. Automated microscopy for high-content RNAi screening. J Cell Biol 2010, 188(4):453-461. 10.1083/jcb.200910105, 2828931, 20176920.
    • (2010) J Cell Biol , vol.188 , Issue.4 , pp. 453-461
    • Conrad, C.1    Gerlich, D.W.2
  • 37
    • 66849105950 scopus 로고    scopus 로고
    • Extracting rich information from images
    • 10.1007/978-1-60327-545-3_14, 19347625
    • Carpenter AE. Extracting rich information from images. Methods Mol Biol 2009, 486:193-211. 10.1007/978-1-60327-545-3_14, 19347625.
    • (2009) Methods Mol Biol , vol.486 , pp. 193-211
    • Carpenter, A.E.1
  • 38
    • 67649426303 scopus 로고    scopus 로고
    • DetecTiff: a novel image analysis routine for high-content screening microscopy
    • 10.1177/1087057109339523, 19641223
    • Gilbert DF, Meinhof T, Pepperkok R, Runz H. DetecTiff: a novel image analysis routine for high-content screening microscopy. J Biomol Screen 2009, 14(8):944-955. 10.1177/1087057109339523, 19641223.
    • (2009) J Biomol Screen , vol.14 , Issue.8 , pp. 944-955
    • Gilbert, D.F.1    Meinhof, T.2    Pepperkok, R.3    Runz, H.4
  • 41
    • 33846689706 scopus 로고    scopus 로고
    • Using GOstats to test gene lists for GO term association
    • 10.1093/bioinformatics/btl567, 17098774
    • Falcon S, Gentleman R. Using GOstats to test gene lists for GO term association. Bioinformatics 2007, 23(2):257-258. 10.1093/bioinformatics/btl567, 17098774.
    • (2007) Bioinformatics , vol.23 , Issue.2 , pp. 257-258
    • Falcon, S.1    Gentleman, R.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.