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Volumn 33, Issue 11, 2011, Pages 880-890

A guide to stem cell identification: Progress and challenges in system-wide predictive testing with complex biomarkers

Author keywords

Bioinformatics; Biomarkers; Gene expression; Machine learning; Pluripotent stem cells

Indexed keywords

BIOLOGICAL MARKER;

EID: 80054697563     PISSN: 02659247     EISSN: 15211878     Source Type: Journal    
DOI: 10.1002/bies.201100073     Document Type: Article
Times cited : (16)

References (74)
  • 1
  • 2
    • 77954202405 scopus 로고    scopus 로고
    • A transformed scientific method
    • In Hey T, Tansley S, Tolle K, eds; Redmond, WA: Microsoft Research.
    • Gray J. 2009. A transformed scientific method. In Hey T, Tansley S, Tolle K, eds; The Fourth Paradigm. Data-Intensive Scientific Discovery. Redmond, WA: Microsoft Research.
    • (2009) The Fourth Paradigm. Data-Intensive Scientific Discovery
    • Gray, J.1
  • 3
    • 49649122472 scopus 로고    scopus 로고
    • Moving AHEAD with an international human epigenome project
    • American Association for Cancer Research Human Epigenome Task Force EUNoESAB
    • American Association for Cancer Research Human Epigenome Task Force EUNoESAB. 2008. Moving AHEAD with an international human epigenome project. Nature 454: 711-5.
    • (2008) Nature , vol.454 , pp. 711-715
  • 4
    • 46649099510 scopus 로고    scopus 로고
    • 1000 Genomes project
    • Siva N. 2008. 1000 Genomes project. Nat Biotechnol 26: 256.
    • (2008) Nat Biotechnol , vol.26 , pp. 256
    • Siva, N.1
  • 5
    • 77951115122 scopus 로고    scopus 로고
    • International network of cancer genome projects
    • Hudson TJ, Anderson W, Artez A, Barker AD, et al. 2010. International network of cancer genome projects. Nature 464: 993-8.
    • (2010) Nature , vol.464 , pp. 993-998
    • Hudson, T.J.1    Anderson, W.2    Artez, A.3    Barker, A.D.4
  • 6
    • 0035100888 scopus 로고    scopus 로고
    • Biomarkers and surrogate endpoints: preferred definitions and conceptual framework
    • Group BDW
    • Group BDW. 2001. Biomarkers and surrogate endpoints: preferred definitions and conceptual framework. Clin Pharmacol Ther 69: 89-95.
    • (2001) Clin Pharmacol Ther , vol.69 , pp. 89-95
  • 7
    • 0023550835 scopus 로고
    • Expression of cloned sequences in biopsies of human colonic tissue and in colonic carcinoma cells induced to differentiate in vitro
    • Augenlicht LH, Wahrman MZ, Halsey H, Anderson L, et al. 1987. Expression of cloned sequences in biopsies of human colonic tissue and in colonic carcinoma cells induced to differentiate in vitro. Cancer Res 47: 6017-21.
    • (1987) Cancer Res , vol.47 , pp. 6017-6021
    • Augenlicht, L.H.1    Wahrman, M.Z.2    Halsey, H.3    Anderson, L.4
  • 8
    • 0033569406 scopus 로고    scopus 로고
    • Molecular classification of cancer: class discovery and class prediction by gene expression monitoring
    • Golub TR, Slonim DK, Tamayo P, Huard C, et al. 1999. Molecular classification of cancer: class discovery and class prediction by gene expression monitoring. Science 286: 531-7.
    • (1999) Science , vol.286 , pp. 531-537
    • Golub, T.R.1    Slonim, D.K.2    Tamayo, P.3    Huard, C.4
  • 9
    • 0037165140 scopus 로고    scopus 로고
    • Prediction of central nervous system embryonal tumour outcome based on gene expression
    • Pomeroy SL, Tamayo P, Gaasenbeek M, Sturla LM, et al. 2002. Prediction of central nervous system embryonal tumour outcome based on gene expression. Nature 415: 436-42.
    • (2002) Nature , vol.415 , pp. 436-442
    • Pomeroy, S.L.1    Tamayo, P.2    Gaasenbeek, M.3    Sturla, L.M.4
  • 10
    • 78650735473 scopus 로고    scopus 로고
    • The MicroArray Quality Control (MAQC)-II study of common practices for the development and validation of microarray-based predictive models
    • Shi L, Campbell G, Jones WD, Campagne F, et al. 2010. The MicroArray Quality Control (MAQC)-II study of common practices for the development and validation of microarray-based predictive models. Nat Biotechnol 28: 827-38.
    • (2010) Nat Biotechnol , vol.28 , pp. 827-838
    • Shi, L.1    Campbell, G.2    Jones, W.D.3    Campagne, F.4
  • 11
    • 77950910419 scopus 로고    scopus 로고
    • Revealing strengths and weaknesses of methods for gene network inference
    • Marbach D, Prill RJ, Schaffter T, Mattiussi C, et al. 2010. Revealing strengths and weaknesses of methods for gene network inference. Proc Natl Acad Sci USA 107: 6286-91.
    • (2010) Proc Natl Acad Sci USA , vol.107 , pp. 6286-6291
    • Marbach, D.1    Prill, R.J.2    Schaffter, T.3    Mattiussi, C.4
  • 12
    • 52149097555 scopus 로고    scopus 로고
    • Regulatory networks define phenotypic classes of human stem cell lines
    • Müller FJ, Laurent LC, Kostka D, Ulitsky I, et al. 2008. Regulatory networks define phenotypic classes of human stem cell lines. Nature 455: 401-5.
    • (2008) Nature , vol.455 , pp. 401-405
    • Müller, F.J.1    Laurent, L.C.2    Kostka, D.3    Ulitsky, I.4
  • 13
    • 79957795795 scopus 로고    scopus 로고
    • miR-371-3 expression predicts neural differentiation propensity in human pluripotent stem cells
    • Kim H, Lee G, Ganat Y, Papapetrou EP, et al. 2011. miR-371-3 expression predicts neural differentiation propensity in human pluripotent stem cells. Cell Stem Cell 8: 695-706.
    • (2011) Cell Stem Cell , vol.8 , pp. 695-706
    • Kim, H.1    Lee, G.2    Ganat, Y.3    Papapetrou, E.P.4
  • 14
    • 33744960411 scopus 로고    scopus 로고
    • A biologic definition of Burkitt's lymphoma from transcriptional and genomic profiling
    • Hummel M, Bentink S, Berger H, Klapper W, et al. 2006. A biologic definition of Burkitt's lymphoma from transcriptional and genomic profiling. N Engl J Med 354: 2419-30.
    • (2006) N Engl J Med , vol.354 , pp. 2419-2430
    • Hummel, M.1    Bentink, S.2    Berger, H.3    Klapper, W.4
  • 15
    • 36549060490 scopus 로고    scopus 로고
    • The MINDACT trial: the first prospective clinical validation of a genomic tool
    • Cardoso F, Piccart-Gebhart M, Van't Veer L, Rutgers E. 2007. The MINDACT trial: the first prospective clinical validation of a genomic tool. Mol Oncol 1: 246-51.
    • (2007) Mol Oncol , vol.1 , pp. 246-251
    • Cardoso, F.1    Piccart-Gebhart, M.2    Van't Veer, L.3    Rutgers, E.4
  • 17
    • 77149147144 scopus 로고    scopus 로고
    • Human embryonic stem cell lines and their use in international research
    • Loser P, Schirm J, Guhr A, Wobus AM, et al. 2010. Human embryonic stem cell lines and their use in international research. Stem Cells 28: 240-6.
    • (2010) Stem Cells , vol.28 , pp. 240-246
    • Loser, P.1    Schirm, J.2    Guhr, A.3    Wobus, A.M.4
  • 18
    • 77749279749 scopus 로고    scopus 로고
    • Neural differentiation of human induced pluripotent stem cells follows developmental principles but with variable potency
    • Hu BY, Weick JP, Yu J, Ma LX, et al. 2010. Neural differentiation of human induced pluripotent stem cells follows developmental principles but with variable potency. Proc Natl Acad Sci USA 107: 4335-40.
    • (2010) Proc Natl Acad Sci USA , vol.107 , pp. 4335-4340
    • Hu, B.Y.1    Weick, J.P.2    Yu, J.3    Ma, L.X.4
  • 19
    • 77955449906 scopus 로고    scopus 로고
    • Epigenetic memory in induced pluripotent stem cells
    • Kim K, Doi A, Wen B, Ng K, et al. 2010. Epigenetic memory in induced pluripotent stem cells. Nature 467: 285-90.
    • (2010) Nature , vol.467 , pp. 285-290
    • Kim, K.1    Doi, A.2    Wen, B.3    Ng, K.4
  • 20
    • 79952126043 scopus 로고    scopus 로고
    • Copy number variation and selection during reprogramming to pluripotency
    • Hussein SM, Batada NN, Vuoristo S, Ching RW, et al. 2011. Copy number variation and selection during reprogramming to pluripotency. Nature 471: 58-62.
    • (2011) Nature , vol.471 , pp. 58-62
    • Hussein, S.M.1    Batada, N.N.2    Vuoristo, S.3    Ching, R.W.4
  • 21
    • 78650971216 scopus 로고    scopus 로고
    • Dynamic changes in the copy number of pluripotency and cell proliferation genes in human ESCs and iPSCs during reprogramming and time in culture
    • Laurent LC, Ulitsky I, Slavin I, Tran H, et al. 2011. Dynamic changes in the copy number of pluripotency and cell proliferation genes in human ESCs and iPSCs during reprogramming and time in culture. Cell Stem Cell 8: 106-18.
    • (2011) Cell Stem Cell , vol.8 , pp. 106-118
    • Laurent, L.C.1    Ulitsky, I.2    Slavin, I.3    Tran, H.4
  • 22
    • 79952264847 scopus 로고    scopus 로고
    • Hotspots of aberrant epigenomic reprogramming in human induced pluripotent stem cells
    • Lister R, Pelizzola M, Kida YS, Hawkins RD, et al. 2011. Hotspots of aberrant epigenomic reprogramming in human induced pluripotent stem cells. Nature 471: 68-73.
    • (2011) Nature , vol.471 , pp. 68-73
    • Lister, R.1    Pelizzola, M.2    Kida, Y.S.3    Hawkins, R.D.4
  • 23
    • 79952258224 scopus 로고    scopus 로고
    • Somatic coding mutations in human induced pluripotent stem cells
    • Gore A, Li Z, Fung HL, Young JE, et al. 2011. Somatic coding mutations in human induced pluripotent stem cells. Nature 471: 63-7.
    • (2011) Nature , vol.471 , pp. 63-67
    • Gore, A.1    Li, Z.2    Fung, H.L.3    Young, J.E.4
  • 24
    • 85027958626 scopus 로고    scopus 로고
    • Incomplete DNA methylation underlies a transcriptional memory of somatic cells in human iPS cells
    • Ohi Y, Qin H, Hong C, Blouin L, et al. 2011. Incomplete DNA methylation underlies a transcriptional memory of somatic cells in human iPS cells. Nat Cell Biol 13: 541-9.
    • (2011) Nat Cell Biol , vol.13 , pp. 541-549
    • Ohi, Y.1    Qin, H.2    Hong, C.3    Blouin, L.4
  • 25
    • 79551677421 scopus 로고    scopus 로고
    • Reference maps of human ES and iPS cell variation enable high-throughput characterization of pluripotent cell lines
    • Bock C, Kiskinis E, Verstappen G, Gu H, et al. 2011. Reference maps of human ES and iPS cell variation enable high-throughput characterization of pluripotent cell lines. Cell 144: 439-52.
    • (2011) Cell , vol.144 , pp. 439-452
    • Bock, C.1    Kiskinis, E.2    Verstappen, G.3    Gu, H.4
  • 26
    • 79957807595 scopus 로고    scopus 로고
    • Immunogenicity of induced pluripotent stem cells
    • Zhao T, Zhang ZN, Rong Z, Xu Y. 2011. Immunogenicity of induced pluripotent stem cells. Nature 474: 212-5.
    • (2011) Nature , vol.474 , pp. 212-215
    • Zhao, T.1    Zhang, Z.N.2    Rong, Z.3    Xu, Y.4
  • 27
    • 0025245614 scopus 로고
    • Embryonic stem cells alone are able to support fetal development in the mouse
    • Nagy A, Gocza E, Diaz EM, Prideaux VR, et al. 1990. Embryonic stem cells alone are able to support fetal development in the mouse. Development 110: 815-21.
    • (1990) Development , vol.110 , pp. 815-821
    • Nagy, A.1    Gocza, E.2    Diaz, E.M.3    Prideaux, V.R.4
  • 28
    • 69949089630 scopus 로고    scopus 로고
    • iPS cells produce viable mice through tetraploid complementation
    • Zhao XY, Li W, Lv Z, Liu L, et al. 2009. iPS cells produce viable mice through tetraploid complementation. Nature 461: 86-90.
    • (2009) Nature , vol.461 , pp. 86-90
    • Zhao, X.Y.1    Li, W.2    Lv, Z.3    Liu, L.4
  • 29
    • 79956296654 scopus 로고    scopus 로고
    • Stem cells: the growing pains of pluripotency
    • Hayden EC. 2011. Stem cells: the growing pains of pluripotency. Nature 473: 272-4.
    • (2011) Nature , vol.473 , pp. 272-274
    • Hayden, E.C.1
  • 30
    • 77956634610 scopus 로고    scopus 로고
    • A call to standardize teratoma assays used to define human pluripotent cell lines
    • Müller FJ, Goldmann J, Loser P, Loring JF. 2010. A call to standardize teratoma assays used to define human pluripotent cell lines. Cell Stem Cell 6: 412-4.
    • (2010) Cell Stem Cell , vol.6 , pp. 412-414
    • Müller, F.J.1    Goldmann, J.2    Loser, P.3    Loring, J.F.4
  • 31
    • 78649998814 scopus 로고    scopus 로고
    • Putting stem cells to the test
    • Dolgin E. 2010. Putting stem cells to the test. Nat Med 16: 1354-7.
    • (2010) Nat Med , vol.16 , pp. 1354-1357
    • Dolgin, E.1
  • 32
    • 0000727065 scopus 로고
    • Spontaneous testicular teratomas in an inbred strain of mice
    • Stevens LC, Little CC. 1954. Spontaneous testicular teratomas in an inbred strain of mice. Proc Natl Acad Sci USA 40: 1080-7.
    • (1954) Proc Natl Acad Sci USA , vol.40 , pp. 1080-1087
    • Stevens, L.C.1    Little, C.C.2
  • 33
    • 67649222358 scopus 로고    scopus 로고
    • Induced pluripotent stem cells and embryonic stem cells are distinguished by gene expression signatures
    • Chin MH, Mason MJ, Xie W, Volinia S, et al. 2009. Induced pluripotent stem cells and embryonic stem cells are distinguished by gene expression signatures. Cell Stem Cell 5: 111-23.
    • (2009) Cell Stem Cell , vol.5 , pp. 111-123
    • Chin, M.H.1    Mason, M.J.2    Xie, W.3    Volinia, S.4
  • 34
    • 77952425747 scopus 로고    scopus 로고
    • Aberrant silencing of imprinted genes on chromosome 12qF1 in mouse induced pluripotent stem cells
    • Stadtfeld M, Apostolou E, Akutsu H, Fukuda A, et al. 2010. Aberrant silencing of imprinted genes on chromosome 12qF1 in mouse induced pluripotent stem cells. Nature 465: 175-81.
    • (2010) Nature , vol.465 , pp. 175-181
    • Stadtfeld, M.1    Apostolou, E.2    Akutsu, H.3    Fukuda, A.4
  • 35
    • 33846933757 scopus 로고    scopus 로고
    • Qualification of embryonal carcinoma 2102Ep as a reference for human embryonic stem cell research
    • Josephson R, Ording CJ, Liu Y, Shin S, et al. 2007. Qualification of embryonal carcinoma 2102Ep as a reference for human embryonic stem cell research. Stem Cells 25: 437-46.
    • (2007) Stem Cells , vol.25 , pp. 437-446
    • Josephson, R.1    Ording, C.J.2    Liu, Y.3    Shin, S.4
  • 36
    • 0035511908 scopus 로고    scopus 로고
    • Molecular markers in CNS stem cell research: hitting a moving target
    • Kornblum HI, Geschwind DH. 2001. Molecular markers in CNS stem cell research: hitting a moving target. Nat Rev Neurosci 2: 843-6.
    • (2001) Nat Rev Neurosci , vol.2 , pp. 843-846
    • Kornblum, H.I.1    Geschwind, D.H.2
  • 38
    • 79960106880 scopus 로고    scopus 로고
    • Isolation of single human hematopoietic stem cells capable of long-term multilineage engraftment
    • Notta F, Doulatov S, Laurenti E, Poeppl A, et al. 2011. Isolation of single human hematopoietic stem cells capable of long-term multilineage engraftment. Science 333: 218-21.
    • (2011) Science , vol.333 , pp. 218-221
    • Notta, F.1    Doulatov, S.2    Laurenti, E.3    Poeppl, A.4
  • 39
    • 0343236268 scopus 로고
    • The radiation sensitivity of normal mouse bone marrow cells, determined by quantitative marrow transplantation into irradiated mice
    • McCulloch EA, Till JE. 1960. The radiation sensitivity of normal mouse bone marrow cells, determined by quantitative marrow transplantation into irradiated mice. Radiat Res 13: 115-25.
    • (1960) Radiat Res , vol.13 , pp. 115-125
    • McCulloch, E.A.1    Till, J.E.2
  • 40
    • 0024462072 scopus 로고
    • Octamer binding proteins confer transcriptional activity in early mouse embryogenesis
    • Schöler HR, Balling R, Hatzopoulos AK, Suzuki N, et al. 1989. Octamer binding proteins confer transcriptional activity in early mouse embryogenesis. EMBO J 8: 2551-7.
    • (1989) EMBO J , vol.8 , pp. 2551-2557
    • Schöler, H.R.1    Balling, R.2    Hatzopoulos, A.K.3    Suzuki, N.4
  • 41
    • 0024433706 scopus 로고
    • A family of octamer-specific proteins present during mouse embryogenesis: evidence for germline-specific expression of an Oct factor
    • Schöler HR, Hatzopoulos AK, Balling R, Suzuki N, et al. 1989. A family of octamer-specific proteins present during mouse embryogenesis: evidence for germline-specific expression of an Oct factor. EMBO J 8: 2543-50.
    • (1989) EMBO J , vol.8 , pp. 2543-2550
    • Schöler, H.R.1    Hatzopoulos, A.K.2    Balling, R.3    Suzuki, N.4
  • 42
    • 70349687407 scopus 로고    scopus 로고
    • Direct reprogramming of human neural stem cells by OCT4
    • Kim JB, Greber B, Arauzo-Bravo MJ, Meyer J, et al. 2009. Direct reprogramming of human neural stem cells by OCT4. Nature 461: 649-3.
    • (2009) Nature , vol.461 , pp. 649-643
    • Kim, J.B.1    Greber, B.2    Arauzo-Bravo, M.J.3    Meyer, J.4
  • 43
    • 34848874100 scopus 로고    scopus 로고
    • Oct4 expression is not required for mouse somatic stem cell self-renewal
    • Lengner CJ, Camargo FD, Hochedlinger K, Welstead GG, et al. 2007. Oct4 expression is not required for mouse somatic stem cell self-renewal. Cell Stem Cell 1: 403-15.
    • (2007) Cell Stem Cell , vol.1 , pp. 403-415
    • Lengner, C.J.1    Camargo, F.D.2    Hochedlinger, K.3    Welstead, G.G.4
  • 44
    • 73849145104 scopus 로고    scopus 로고
    • A global view of protein expression in human cells, tissues, and organs
    • Ponten F, Gry M, Fagerberg L, Lundberg E, et al. 2009. A global view of protein expression in human cells, tissues, and organs. Mol Syst Biol 5: 337.
    • (2009) Mol Syst Biol , vol.5 , pp. 337
    • Ponten, F.1    Gry, M.2    Fagerberg, L.3    Lundberg, E.4
  • 45
    • 77649299348 scopus 로고    scopus 로고
    • An atlas of combinatorial transcriptional regulation in mouse and man
    • Ravasi T, Suzuki H, Cannistraci CV, Katayama S, et al. 2010. An atlas of combinatorial transcriptional regulation in mouse and man. Cell 140: 744-52.
    • (2010) Cell , vol.140 , pp. 744-752
    • Ravasi, T.1    Suzuki, H.2    Cannistraci, C.V.3    Katayama, S.4
  • 46
    • 0025319004 scopus 로고
    • New type of POU domain in germ line-specific protein Oct-4
    • Schöler HR, Ruppert S, Suzuki N, Chowdhury K, et al. 1990. New type of POU domain in germ line-specific protein Oct-4. Nature 344: 435-9.
    • (1990) Nature , vol.344 , pp. 435-439
    • Schöler, H.R.1    Ruppert, S.2    Suzuki, N.3    Chowdhury, K.4
  • 47
    • 0038054341 scopus 로고    scopus 로고
    • PGC-1alpha-responsive genes involved in oxidative phosphorylation are coordinately downregulated in human diabetes
    • Mootha VK, Lindgren CM, Eriksson KF, Subramanian A, et al. 2003. PGC-1alpha-responsive genes involved in oxidative phosphorylation are coordinately downregulated in human diabetes. Nat Genet 34: 267-73.
    • (2003) Nat Genet , vol.34 , pp. 267-273
    • Mootha, V.K.1    Lindgren, C.M.2    Eriksson, K.F.3    Subramanian, A.4
  • 48
    • 27344435774 scopus 로고    scopus 로고
    • Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles
    • Subramanian A, Tamayo P, Mootha VK, Mukherjee S, et al. 2005. Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles. Proc Natl Acad Sci USA 102: 15545-50.
    • (2005) Proc Natl Acad Sci USA , vol.102 , pp. 15545-15550
    • Subramanian, A.1    Tamayo, P.2    Mootha, V.K.3    Mukherjee, S.4
  • 49
  • 50
  • 52
    • 0000325341 scopus 로고
    • On lines and planes of closest fit to systems of points in space
    • Pearson K. 1901. On lines and planes of closest fit to systems of points in space. Philos Mag Ser 6: 559-72.
    • (1901) Philos Mag Ser , vol.6 , pp. 559-572
    • Pearson, K.1
  • 53
    • 0033592606 scopus 로고    scopus 로고
    • Learning the parts of objects by non-negative matrix factorization
    • Lee DD, Seung HS. 1999. Learning the parts of objects by non-negative matrix factorization. Nature 401: 788-91.
    • (1999) Nature , vol.401 , pp. 788-791
    • Lee, D.D.1    Seung, H.S.2
  • 54
    • 0037810449 scopus 로고    scopus 로고
    • Subsystem identification through dimensionality reduction of large-scale gene expression data
    • Kim PM, Tidor B. 2003. Subsystem identification through dimensionality reduction of large-scale gene expression data. Genome Res 13: 1706-18.
    • (2003) Genome Res , vol.13 , pp. 1706-1718
    • Kim, P.M.1    Tidor, B.2
  • 56
    • 77952699848 scopus 로고    scopus 로고
    • Human embryonic stem cells with biological and epigenetic characteristics similar to those of mouse ESCs
    • Hanna J, Cheng AW, Saha K, Kim J, et al. 2010. Human embryonic stem cells with biological and epigenetic characteristics similar to those of mouse ESCs. Proc Natl Acad Sci USA 107: 9222-7.
    • (2010) Proc Natl Acad Sci USA , vol.107 , pp. 9222-9227
    • Hanna, J.1    Cheng, A.W.2    Saha, K.3    Kim, J.4
  • 57
    • 66049117813 scopus 로고    scopus 로고
    • Naive and primed pluripotent states
    • Nichols J, Smith A. 2009. Naive and primed pluripotent states. Cell Stem Cell 4: 487-92.
    • (2009) Cell Stem Cell , vol.4 , pp. 487-492
    • Nichols, J.1    Smith, A.2
  • 58
    • 77956260872 scopus 로고    scopus 로고
    • Chromatin structure and gene expression programs of human embryonic and induced pluripotent stem cells
    • Guenther MG, Frampton GM, Soldner F, Hockemeyer D, et al. 2010. Chromatin structure and gene expression programs of human embryonic and induced pluripotent stem cells. Cell Stem Cell 7: 249-57.
    • (2010) Cell Stem Cell , vol.7 , pp. 249-257
    • Guenther, M.G.1    Frampton, G.M.2    Soldner, F.3    Hockemeyer, D.4
  • 59
    • 79956308473 scopus 로고    scopus 로고
    • Genome-wide mapping of 5-hydroxymethylcytosine in embryonic stem cells
    • Pastor WA, Pape UJ, Huang Y, Henderson HR, et al. 2011. Genome-wide mapping of 5-hydroxymethylcytosine in embryonic stem cells. Nature 473: 394-7.
    • (2011) Nature , vol.473 , pp. 394-397
    • Pastor, W.A.1    Pape, U.J.2    Huang, Y.3    Henderson, H.R.4
  • 60
    • 0034610814 scopus 로고    scopus 로고
    • The language of covalent histone modifications
    • Strahl BD, Allis CD. 2000. The language of covalent histone modifications. Nature 403: 41-5.
    • (2000) Nature , vol.403 , pp. 41-45
    • Strahl, B.D.1    Allis, C.D.2
  • 61
    • 79952696158 scopus 로고    scopus 로고
    • A statistical framework for modeling gene expression using chromatin features and application to modENCODE datasets
    • Cheng C, Yan KK, Yip KY, Rozowsky J, et al. 2011. A statistical framework for modeling gene expression using chromatin features and application to modENCODE datasets. Genome Biol 12: R15.
    • (2011) Genome Biol , vol.12
    • Cheng, C.1    Yan, K.K.2    Yip, K.Y.3    Rozowsky, J.4
  • 62
    • 79953060951 scopus 로고    scopus 로고
    • Comprehensive analysis of the chromatin landscape in Drosophila melanogaster
    • Kharchenko PV, Alekseyenko AA, Schwartz YB, Minoda A, et al. 2011. Comprehensive analysis of the chromatin landscape in Drosophila melanogaster Nature 471: 480-5.
    • (2011) Nature , vol.471 , pp. 480-485
    • Kharchenko, P.V.1    Alekseyenko, A.A.2    Schwartz, Y.B.3    Minoda, A.4
  • 63
    • 79551665440 scopus 로고    scopus 로고
    • A functionally characterized test set of human induced pluripotent stem cells
    • Boulting GL, Kiskinis E, Croft GF, Amoroso MW, et al. 2011. A functionally characterized test set of human induced pluripotent stem cells. Nat Biotechnol 29: 279-86.
    • (2011) Nat Biotechnol , vol.29 , pp. 279-286
    • Boulting, G.L.1    Kiskinis, E.2    Croft, G.F.3    Amoroso, M.W.4
  • 65
    • 10044248411 scopus 로고    scopus 로고
    • A consistency-based model selection for one-class classification. Proceedings of the 17th International Conference on Pattern Recognition (ICPR'04), Cambridge, England.
    • Tax DMJ, Müller KR. 2004. A consistency-based model selection for one-class classification. Proceedings of the 17th International Conference on Pattern Recognition (ICPR'04), Cambridge, England.
    • (2004)
    • Tax, D.M.J.1    Müller, K.R.2
  • 66
    • 79956020510 scopus 로고    scopus 로고
    • Assessing affymetrix GeneChip microarray quality
    • McCall MN, Murakami PN, Lukk M, Huber W, et al. 2011. Assessing affymetrix GeneChip microarray quality. BMC Bioinf 12: 137.
    • (2011) BMC Bioinf , vol.12 , pp. 137
    • McCall, M.N.1    Murakami, P.N.2    Lukk, M.3    Huber, W.4
  • 67
    • 77956873627 scopus 로고    scopus 로고
    • Tackling the widespread and critical impact of batch effects in high-throughput data
    • Leek JT, Scharpf RB, Bravo HC, Simcha D, et al. 2010. Tackling the widespread and critical impact of batch effects in high-throughput data. Nat Rev Genet 11: 733-9.
    • (2010) Nat Rev Genet , vol.11 , pp. 733-739
    • Leek, J.T.1    Scharpf, R.B.2    Bravo, H.C.3    Simcha, D.4
  • 68
    • 33845432928 scopus 로고    scopus 로고
    • Adjusting batch effects in microarray expression data using empirical Bayes methods
    • Johnson WE, Li C, Rabinovic A. 2007. Adjusting batch effects in microarray expression data using empirical Bayes methods. Biostatistics 8: 118-27.
    • (2007) Biostatistics , vol.8 , pp. 118-127
    • Johnson, W.E.1    Li, C.2    Rabinovic, A.3
  • 69
    • 77955131271 scopus 로고    scopus 로고
    • A comparison of batch effect removal methods for enhancement of prediction performance using MAQC-II microarray gene expression data
    • Luo J, Schumacher M, Scherer A, Sanoudou D, et al. 2010. A comparison of batch effect removal methods for enhancement of prediction performance using MAQC-II microarray gene expression data. Pharmacogenomics J 10: 278-91.
    • (2010) Pharmacogenomics J , vol.10 , pp. 278-291
    • Luo, J.1    Schumacher, M.2    Scherer, A.3    Sanoudou, D.4
  • 70
    • 67649197934 scopus 로고    scopus 로고
    • Ratio adjustment and calibration scheme for gene-wise normalization to enhance microarray inter-study prediction
    • Cheng C, Shen K, Song C, Luo J, et al. 2009. Ratio adjustment and calibration scheme for gene-wise normalization to enhance microarray inter-study prediction. Bioinformatics 25: 1655-61.
    • (2009) Bioinformatics , vol.25 , pp. 1655-1661
    • Cheng, C.1    Shen, K.2    Song, C.3    Luo, J.4
  • 71
    • 49649125042 scopus 로고    scopus 로고
    • Genome-scale DNA methylation maps of pluripotent and differentiated cells
    • Meissner A, Mikkelsen TS, Gu H, Wernig M, et al. 2008. Genome-scale DNA methylation maps of pluripotent and differentiated cells. Nature 454: 766-70.
    • (2008) Nature , vol.454 , pp. 766-770
    • Meissner, A.1    Mikkelsen, T.S.2    Gu, H.3    Wernig, M.4
  • 72
    • 79251575001 scopus 로고    scopus 로고
    • Equivalence of conventionally-derived and parthenote-derived human embryonic stem cells
    • Harness JV, Turovets NA, Seiler MJ, Nistor G, et al. 2011. Equivalence of conventionally-derived and parthenote-derived human embryonic stem cells. PLoS One 6: e14499.
    • (2011) PLoS One , vol.6
    • Harness, J.V.1    Turovets, N.A.2    Seiler, M.J.3    Nistor, G.4
  • 73
    • 80054708708 scopus 로고    scopus 로고
    • The PageRank Citation Ranking: Bringing Order to the Web. Technical Report. Stanford InfoLab.
    • Page L, Brin S, Motwani R, Winograd T. 1998. The PageRank Citation Ranking: Bringing Order to the Web. Technical Report. Stanford InfoLab.
    • (1998)
    • Page, L.1    Brin, S.2    Motwani, R.3    Winograd, T.4
  • 74
    • 33747195353 scopus 로고    scopus 로고
    • Induction of pluripotent stem cells from mouse embryonic and adult fibroblast cultures by defined factors
    • Takahashi K, Yamanaka S. 2006. Induction of pluripotent stem cells from mouse embryonic and adult fibroblast cultures by defined factors. Cell 126: 663-76.
    • (2006) Cell , vol.126 , pp. 663-676
    • Takahashi, K.1    Yamanaka, S.2


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