메뉴 건너뛰기




Volumn 519, Issue 2, 2013, Pages 279-287

RNA sequencing and transcriptomal analysis of human monocyte to macrophage differentiation

Author keywords

M CSF; Monocyte derived macrophages; Monocytes; RNA seq; Transcriptome

Indexed keywords

CCAAT ENHANCER BINDING PROTEIN DELTA; IMMUNOGLOBULIN ENHANCER BINDING PROTEIN; NUCLEAR FACTOR KAPPA B1; RNA; TRANSCRIPTION FACTOR; TRANSCRIPTION FACTOR FKHR; TRANSCRIPTION FACTOR RUNX3; TRANSCRIPTOME; UNCLASSIFIED DRUG;

EID: 84875582826     PISSN: 03781119     EISSN: 18790038     Source Type: Journal    
DOI: 10.1016/j.gene.2013.02.015     Document Type: Article
Times cited : (35)

References (49)
  • 1
    • 0025278076 scopus 로고
    • Phagocytosis mediated by three distinct Fc gamma receptor classes on human leukocytes
    • Anderson C.L., Shen L., Eicher D.M., Wewers M.D., Gill J.K. Phagocytosis mediated by three distinct Fc gamma receptor classes on human leukocytes. J. Exp. Med. 1990, 171:1333-1345.
    • (1990) J. Exp. Med. , vol.171 , pp. 1333-1345
    • Anderson, C.L.1    Shen, L.2    Eicher, D.M.3    Wewers, M.D.4    Gill, J.K.5
  • 2
    • 63449110370 scopus 로고    scopus 로고
    • CX3CR1+ CD115+ CD135+ common macrophage/DC precursors and the role of CX3CR1 in their response to inflammation
    • Auffray C., et al. CX3CR1+ CD115+ CD135+ common macrophage/DC precursors and the role of CX3CR1 in their response to inflammation. J. Exp. Med. 2009, 206:595-606.
    • (2009) J. Exp. Med. , vol.206 , pp. 595-606
    • Auffray, C.1
  • 3
    • 84869870731 scopus 로고    scopus 로고
    • RNA-seq transcriptome analysis of male and female zebra finch cell lines
    • Balakrishnan C.N., Lin Y.C., London S.E., Clayton D.F. RNA-seq transcriptome analysis of male and female zebra finch cell lines. Genomics 2012, 100(6):363-369.
    • (2012) Genomics , vol.100 , Issue.6 , pp. 363-369
    • Balakrishnan, C.N.1    Lin, Y.C.2    London, S.E.3    Clayton, D.F.4
  • 4
    • 0029795529 scopus 로고    scopus 로고
    • Hematologic effects of flt3 ligand in vivo in mice
    • Brasel K., et al. Hematologic effects of flt3 ligand in vivo in mice. Blood 1996, 88:2004-2012.
    • (1996) Blood , vol.88 , pp. 2004-2012
    • Brasel, K.1
  • 5
    • 0026725736 scopus 로고
    • Regulation of human monocyte DNA synthesis by colony-stimulating factors, cytokines, and cyclic adenosine monophosphate
    • Cheung D.L., Hamilton J.A. Regulation of human monocyte DNA synthesis by colony-stimulating factors, cytokines, and cyclic adenosine monophosphate. Blood 1992, 79:1972-1981.
    • (1992) Blood , vol.79 , pp. 1972-1981
    • Cheung, D.L.1    Hamilton, J.A.2
  • 6
    • 58849107237 scopus 로고    scopus 로고
    • Transcriptome content and dynamics at single-nucleotide resolution
    • Cloonan N., Grimmond S.M. Transcriptome content and dynamics at single-nucleotide resolution. Genome Biol. 2008, 9:234.
    • (2008) Genome Biol. , vol.9 , pp. 234
    • Cloonan, N.1    Grimmond, S.M.2
  • 7
    • 0036092801 scopus 로고    scopus 로고
    • Targeted disruption of the mouse colony-stimulating factor 1 receptor gene results in osteopetrosis, mononuclear phagocyte deficiency, increased primitive progenitor cell frequencies, and reproductive defects
    • Dai X.M., et al. Targeted disruption of the mouse colony-stimulating factor 1 receptor gene results in osteopetrosis, mononuclear phagocyte deficiency, increased primitive progenitor cell frequencies, and reproductive defects. Blood 2002, 99:111-120.
    • (2002) Blood , vol.99 , pp. 111-120
    • Dai, X.M.1
  • 8
    • 77954563614 scopus 로고    scopus 로고
    • Interactions between lymphocytes and myeloid cells regulate pro- versus anti-tumor immunity
    • DeNardo D.G., Andreu P., Coussens L.M. Interactions between lymphocytes and myeloid cells regulate pro- versus anti-tumor immunity. Cancer Metastasis Rev. 2010, 29:309-316.
    • (2010) Cancer Metastasis Rev. , vol.29 , pp. 309-316
    • DeNardo, D.G.1    Andreu, P.2    Coussens, L.M.3
  • 9
    • 84862004148 scopus 로고    scopus 로고
    • FoxO1 inhibits sterol regulatory element-binding protein-1c (SREBP-1c) gene expression via transcription factors Sp1 and SREBP-1c
    • Deng X., et al. FoxO1 inhibits sterol regulatory element-binding protein-1c (SREBP-1c) gene expression via transcription factors Sp1 and SREBP-1c. J. Biol. Chem. 2012, 287(24):20132-20143.
    • (2012) J. Biol. Chem. , vol.287 , Issue.24 , pp. 20132-20143
    • Deng, X.1
  • 10
    • 35148886657 scopus 로고    scopus 로고
    • Characterization of human immunodeficiency virus type 1 replication in immature and mature dendritic cells reveals dissociable cis- and trans-infection
    • Dong C., Janas A.M., Wang J.H., Olson W.J., Wu L. Characterization of human immunodeficiency virus type 1 replication in immature and mature dendritic cells reveals dissociable cis- and trans-infection. J. Virol. 2007, 81:11352-11362.
    • (2007) J. Virol. , vol.81 , pp. 11352-11362
    • Dong, C.1    Janas, A.M.2    Wang, J.H.3    Olson, W.J.4    Wu, L.5
  • 11
    • 2942575919 scopus 로고    scopus 로고
    • Role of RUNX family members in transcriptional repression and gene silencing
    • Durst K.L., Hiebert S.W. Role of RUNX family members in transcriptional repression and gene silencing. Oncogene 2004, 23:4220-4224.
    • (2004) Oncogene , vol.23 , pp. 4220-4224
    • Durst, K.L.1    Hiebert, S.W.2
  • 12
    • 40349106161 scopus 로고    scopus 로고
    • The landscape of human proteins interacting with viruses and other pathogens
    • Dyer M.D., Murali T.M., Sobral B.W. The landscape of human proteins interacting with viruses and other pathogens. PLoS Pathog. 2008, 4:e32.
    • (2008) PLoS Pathog. , vol.4
    • Dyer, M.D.1    Murali, T.M.2    Sobral, B.W.3
  • 13
    • 34248162439 scopus 로고    scopus 로고
    • The CD16+ monocyte subset is more permissive to infection and preferentially harbors HIV-1 in vivo
    • Ellery P.J., et al. The CD16+ monocyte subset is more permissive to infection and preferentially harbors HIV-1 in vivo. J. Immunol. 2007, 178:6581-6589.
    • (2007) J. Immunol. , vol.178 , pp. 6581-6589
    • Ellery, P.J.1
  • 14
    • 0034833822 scopus 로고    scopus 로고
    • CD36: a class B scavenger receptor involved in angiogenesis, atherosclerosis, inflammation, and lipid metabolism
    • Febbraio M., Hajjar D.P., Silverstein R.L. CD36: a class B scavenger receptor involved in angiogenesis, atherosclerosis, inflammation, and lipid metabolism. J. Clin. Invest. 2001, 108:785-791.
    • (2001) J. Clin. Invest. , vol.108 , pp. 785-791
    • Febbraio, M.1    Hajjar, D.P.2    Silverstein, R.L.3
  • 15
    • 30344444770 scopus 로고    scopus 로고
    • A clonogenic bone marrow progenitor specific for macrophages and dendritic cells
    • Fogg D.K., et al. A clonogenic bone marrow progenitor specific for macrophages and dendritic cells. Science 2006, 311:83-87.
    • (2006) Science , vol.311 , pp. 83-87
    • Fogg, D.K.1
  • 16
    • 0029005967 scopus 로고
    • Monocyte chemoattractant protein-3, but not monocyte chemoattractant protein-2, is a functional ligand of the human monocyte chemoattractant protein-1 receptor
    • Franci C., Wong L.M., Van Damme J., Proost P., Charo I.F. Monocyte chemoattractant protein-3, but not monocyte chemoattractant protein-2, is a functional ligand of the human monocyte chemoattractant protein-1 receptor. J. Immunol. 1995, 154:6511-6517.
    • (1995) J. Immunol. , vol.154 , pp. 6511-6517
    • Franci, C.1    Wong, L.M.2    Van Damme, J.3    Proost, P.4    Charo, I.F.5
  • 17
    • 14944358752 scopus 로고    scopus 로고
    • C/EBPdelta expression in a BCR-ABL-positive cell line induces growth arrest and myeloid differentiation
    • Gery S., Tanosaki S., Hofmann W.K., Koppel A., Koeffler H.P. C/EBPdelta expression in a BCR-ABL-positive cell line induces growth arrest and myeloid differentiation. Oncogene 2005, 24:1589-1597.
    • (2005) Oncogene , vol.24 , pp. 1589-1597
    • Gery, S.1    Tanosaki, S.2    Hofmann, W.K.3    Koppel, A.4    Koeffler, H.P.5
  • 18
    • 83555164881 scopus 로고    scopus 로고
    • HIV-1 restriction factor SAMHD1 is a deoxynucleoside triphosphate triphosphohydrolase
    • Goldstone D.C., et al. HIV-1 restriction factor SAMHD1 is a deoxynucleoside triphosphate triphosphohydrolase. Nature 2011, 480:379-382.
    • (2011) Nature , vol.480 , pp. 379-382
    • Goldstone, D.C.1
  • 19
    • 77953268611 scopus 로고    scopus 로고
    • Alternative activation of macrophages: mechanism and functions
    • Gordon S., Martinez F.O. Alternative activation of macrophages: mechanism and functions. Immunity 2010, 32:593-604.
    • (2010) Immunity , vol.32 , pp. 593-604
    • Gordon, S.1    Martinez, F.O.2
  • 20
    • 12244297393 scopus 로고    scopus 로고
    • Marked induction of sterol 27-hydroxylase activity and mRNA levels during differentiation of human cultured monocytes into macrophages
    • Hansson M., Ellis E., Hunt M.C., Schmitz G., Babiker A. Marked induction of sterol 27-hydroxylase activity and mRNA levels during differentiation of human cultured monocytes into macrophages. Biochim. Biophys. Acta 2003, 1593:283-289.
    • (2003) Biochim. Biophys. Acta , vol.1593 , pp. 283-289
    • Hansson, M.1    Ellis, E.2    Hunt, M.C.3    Schmitz, G.4    Babiker, A.5
  • 21
    • 0033178501 scopus 로고    scopus 로고
    • Serial analysis of gene expression in human monocytes and macrophages
    • Hashimoto S., Suzuki T., Dong H.Y., Yamazaki N., Matsushima K. Serial analysis of gene expression in human monocytes and macrophages. Blood 1999, 94:837-844.
    • (1999) Blood , vol.94 , pp. 837-844
    • Hashimoto, S.1    Suzuki, T.2    Dong, H.Y.3    Yamazaki, N.4    Matsushima, K.5
  • 22
    • 77955616882 scopus 로고    scopus 로고
    • Type-specific roles of histone deacetylase (HDAC) overexpression in ovarian carcinoma: HDAC1 enhances cell proliferation and HDAC3 stimulates cell migration with downregulation of E-cadherin
    • Hayashi A., et al. Type-specific roles of histone deacetylase (HDAC) overexpression in ovarian carcinoma: HDAC1 enhances cell proliferation and HDAC3 stimulates cell migration with downregulation of E-cadherin. Int. J. Cancer 2010, 127:1332-1346.
    • (2010) Int. J. Cancer , vol.127 , pp. 1332-1346
    • Hayashi, A.1
  • 23
    • 0019973550 scopus 로고
    • In vitro differentiation of human monocytes. Differences in monocyte phenotypes induced by cultivation on glass or on collagen
    • Kaplan G., Gaudernack G. In vitro differentiation of human monocytes. Differences in monocyte phenotypes induced by cultivation on glass or on collagen. J. Exp. Med. 1982, 156:1101-1114.
    • (1982) J. Exp. Med. , vol.156 , pp. 1101-1114
    • Kaplan, G.1    Gaudernack, G.2
  • 24
    • 33644689022 scopus 로고    scopus 로고
    • Carboxyl ester lipase expression in macrophages increases cholesteryl ester accumulation and promotes atherosclerosis
    • Kodvawala A., Ghering A.B., Davidson W.S., Hui D.Y. Carboxyl ester lipase expression in macrophages increases cholesteryl ester accumulation and promotes atherosclerosis. J. Biol. Chem. 2005, 280:38592-38598.
    • (2005) J. Biol. Chem. , vol.280 , pp. 38592-38598
    • Kodvawala, A.1    Ghering, A.B.2    Davidson, W.S.3    Hui, D.Y.4
  • 25
    • 72849131596 scopus 로고    scopus 로고
    • Monocyte/macrophage androgen receptor suppresses cutaneous wound healing in mice by enhancing local TNF-alpha expression
    • Lai J.J., et al. Monocyte/macrophage androgen receptor suppresses cutaneous wound healing in mice by enhancing local TNF-alpha expression. J. Clin. Invest. 2009, 119:3739-3751.
    • (2009) J. Clin. Invest. , vol.119 , pp. 3739-3751
    • Lai, J.J.1
  • 27
    • 34548448100 scopus 로고    scopus 로고
    • Gene expression profiling during differentiation of human monocytes to macrophages or dendritic cells
    • Lehtonen A., Ahlfors H., Veckman V., Miettinen M., Lahesmaa R., Julkunen I. Gene expression profiling during differentiation of human monocytes to macrophages or dendritic cells. J. Leukoc. Biol. 2007, 82:710-720.
    • (2007) J. Leukoc. Biol. , vol.82 , pp. 710-720
    • Lehtonen, A.1    Ahlfors, H.2    Veckman, V.3    Miettinen, M.4    Lahesmaa, R.5    Julkunen, I.6
  • 28
    • 0035052713 scopus 로고    scopus 로고
    • Requirement of Sp1 and estrogen receptor alpha interaction in 17beta-estradiol-mediated transcriptional activation of the low density lipoprotein receptor gene expression
    • Li C., Briggs M.R., Ahlborn T.E., Kraemer F.B., Liu J. Requirement of Sp1 and estrogen receptor alpha interaction in 17beta-estradiol-mediated transcriptional activation of the low density lipoprotein receptor gene expression. Endocrinology 2001, 142:1546-1553.
    • (2001) Endocrinology , vol.142 , pp. 1546-1553
    • Li, C.1    Briggs, M.R.2    Ahlborn, T.E.3    Kraemer, F.B.4    Liu, J.5
  • 29
    • 33845865804 scopus 로고    scopus 로고
    • CDNA microarray analysis reveals fundamental differences in the expression profiles of primary human monocytes, monocyte-derived macrophages, and alveolar macrophages
    • Li J., et al. cDNA microarray analysis reveals fundamental differences in the expression profiles of primary human monocytes, monocyte-derived macrophages, and alveolar macrophages. J. Leukoc. Biol. 2007, 81:328-335.
    • (2007) J. Leukoc. Biol. , vol.81 , pp. 328-335
    • Li, J.1
  • 30
    • 44049092407 scopus 로고    scopus 로고
    • Discovery of a cytokine and its receptor by functional screening of the extracellular proteome
    • Lin H., et al. Discovery of a cytokine and its receptor by functional screening of the extracellular proteome. Science 2008, 320:807-811.
    • (2008) Science , vol.320 , pp. 807-811
    • Lin, H.1
  • 31
    • 40649114217 scopus 로고    scopus 로고
    • Transcriptional diversity during monocyte to macrophage differentiation
    • Liu H., Shi B., Huang C.C., Eksarko P., Pope R.M. Transcriptional diversity during monocyte to macrophage differentiation. Immunol. Lett. 2008, 117:70-80.
    • (2008) Immunol. Lett. , vol.117 , pp. 70-80
    • Liu, H.1    Shi, B.2    Huang, C.C.3    Eksarko, P.4    Pope, R.M.5
  • 32
    • 50649089207 scopus 로고    scopus 로고
    • RNA-seq: an assessment of technical reproducibility and comparison with gene expression arrays
    • Marioni J.C., Mason C.E., Mane S.M., Stephens M., Gilad Y. RNA-seq: an assessment of technical reproducibility and comparison with gene expression arrays. Genome Res. 2008, 18:1509-1517.
    • (2008) Genome Res. , vol.18 , pp. 1509-1517
    • Marioni, J.C.1    Mason, C.E.2    Mane, S.M.3    Stephens, M.4    Gilad, Y.5
  • 33
    • 33750813483 scopus 로고    scopus 로고
    • Transcriptional profiling of the human monocyte-to-macrophage differentiation and polarization: new molecules and patterns of gene expression
    • Martinez F.O., Gordon S., Locati M., Mantovani A. Transcriptional profiling of the human monocyte-to-macrophage differentiation and polarization: new molecules and patterns of gene expression. J. Immunol. 2006, 177:7303-7311.
    • (2006) J. Immunol. , vol.177 , pp. 7303-7311
    • Martinez, F.O.1    Gordon, S.2    Locati, M.3    Mantovani, A.4
  • 34
    • 53649088131 scopus 로고    scopus 로고
    • Applications of next-generation sequencing technologies in functional genomics
    • Morozova O., Marra M.A. Applications of next-generation sequencing technologies in functional genomics. Genomics 2008, 92:255-264.
    • (2008) Genomics , vol.92 , pp. 255-264
    • Morozova, O.1    Marra, M.A.2
  • 36
    • 0032540325 scopus 로고    scopus 로고
    • Oxidized LDL regulates macrophage gene expression through ligand activation of PPARgamma
    • Nagy L., Tontonoz P., Alvarez J.G., Chen H., Evans R.M. Oxidized LDL regulates macrophage gene expression through ligand activation of PPARgamma. Cell 1998, 93:229-240.
    • (1998) Cell , vol.93 , pp. 229-240
    • Nagy, L.1    Tontonoz, P.2    Alvarez, J.G.3    Chen, H.4    Evans, R.M.5
  • 37
    • 0023192020 scopus 로고
    • Oxidatively modified low density lipoproteins: a potential role in recruitment and retention of monocyte/macrophages during atherogenesis
    • Quinn M.T., Parthasarathy S., Fong L.G., Steinberg D. Oxidatively modified low density lipoproteins: a potential role in recruitment and retention of monocyte/macrophages during atherogenesis. Proc. Natl. Acad. Sci. U. S. A. 1987, 84:2995-2998.
    • (1987) Proc. Natl. Acad. Sci. U. S. A. , vol.84 , pp. 2995-2998
    • Quinn, M.T.1    Parthasarathy, S.2    Fong, L.G.3    Steinberg, D.4
  • 38
    • 77956213727 scopus 로고    scopus 로고
    • Substrate fate in activated macrophages: a comparison between innate, classic, and alternative activation
    • Rodriguez-Prados J.C., et al. Substrate fate in activated macrophages: a comparison between innate, classic, and alternative activation. J. Immunol. 2010, 185:605-614.
    • (2010) J. Immunol. , vol.185 , pp. 605-614
    • Rodriguez-Prados, J.C.1
  • 40
    • 84857712259 scopus 로고    scopus 로고
    • The chemokine CCL18 causes maturation of cultured monocytes to macrophages in the M2 spectrum
    • Schraufstatter I.U., Zhao M., Khaldoyanidi S.K., Discipio R.G. The chemokine CCL18 causes maturation of cultured monocytes to macrophages in the M2 spectrum. Immunology 2012, 135:287-298.
    • (2012) Immunology , vol.135 , pp. 287-298
    • Schraufstatter, I.U.1    Zhao, M.2    Khaldoyanidi, S.K.3    Discipio, R.G.4
  • 42
    • 0034307661 scopus 로고    scopus 로고
    • Comprehensive gene expression profile of LPS-stimulated human monocytes by SAGE
    • Suzuki T., et al. Comprehensive gene expression profile of LPS-stimulated human monocytes by SAGE. Blood 2000, 96:2584-2591.
    • (2000) Blood , vol.96 , pp. 2584-2591
    • Suzuki, T.1
  • 43
    • 57149085481 scopus 로고    scopus 로고
    • Deep sequencing-based expression analysis shows major advances in robustness, resolution and inter-lab portability over five microarray platforms
    • t'Hoen P.A., et al. Deep sequencing-based expression analysis shows major advances in robustness, resolution and inter-lab portability over five microarray platforms. Nucleic Acids Res. 2008, 36:e141.
    • (2008) Nucleic Acids Res. , vol.36
    • t'Hoen, P.A.1
  • 44
    • 0041975937 scopus 로고    scopus 로고
    • Pattern recognition receptors and differentiation antigens define murine myeloid cell heterogeneity ex vivo
    • Taylor P.R., Brown G.D., Geldhof A.B., Martinez-Pomares L., Gordon S. Pattern recognition receptors and differentiation antigens define murine myeloid cell heterogeneity ex vivo. Eur. J. Immunol. 2003, 33:2090-2097.
    • (2003) Eur. J. Immunol. , vol.33 , pp. 2090-2097
    • Taylor, P.R.1    Brown, G.D.2    Geldhof, A.B.3    Martinez-Pomares, L.4    Gordon, S.5
  • 45
    • 0033197969 scopus 로고    scopus 로고
    • Macrophage colony-stimulating factor induces the expression of mitogen-activated protein kinase phosphatase-1 through a protein kinase C-dependent pathway
    • Valledor A.F., Xaus J., Marques L., Celada A. Macrophage colony-stimulating factor induces the expression of mitogen-activated protein kinase phosphatase-1 through a protein kinase C-dependent pathway. J. Immunol. 1999, 163:2452-2462.
    • (1999) J. Immunol. , vol.163 , pp. 2452-2462
    • Valledor, A.F.1    Xaus, J.2    Marques, L.3    Celada, A.4
  • 46
    • 0028346644 scopus 로고
    • Granulocyte-macrophage colony-stimulating factor corrects macrophage deficiencies, but not osteopetrosis, in the colony-stimulating factor-1-deficient op/op mouse
    • Wiktor-Jedrzejczak W., Urbanowska E., Szperl M. Granulocyte-macrophage colony-stimulating factor corrects macrophage deficiencies, but not osteopetrosis, in the colony-stimulating factor-1-deficient op/op mouse. Endocrinology 1994, 134:1932-1935.
    • (1994) Endocrinology , vol.134 , pp. 1932-1935
    • Wiktor-Jedrzejczak, W.1    Urbanowska, E.2    Szperl, M.3
  • 47
    • 46249096804 scopus 로고    scopus 로고
    • Dynamic repertoire of a eukaryotic transcriptome surveyed at single-nucleotide resolution
    • Wilhelm B.T., et al. Dynamic repertoire of a eukaryotic transcriptome surveyed at single-nucleotide resolution. Nature 2008, 453:1239-1243.
    • (2008) Nature , vol.453 , pp. 1239-1243
    • Wilhelm, B.T.1
  • 48
    • 33644779844 scopus 로고    scopus 로고
    • WholePathwayScope: a comprehensive pathway-based analysis tool for high-throughput data
    • Yi M., Horton J.D., Cohen J.C., Hobbs H.H., Stephens R.M. WholePathwayScope: a comprehensive pathway-based analysis tool for high-throughput data. BMC Bioinforma. 2006, 7:30.
    • (2006) BMC Bioinforma. , vol.7 , pp. 30
    • Yi, M.1    Horton, J.D.2    Cohen, J.C.3    Hobbs, H.H.4    Stephens, R.M.5
  • 49
    • 0036203419 scopus 로고    scopus 로고
    • The phosphorylation status of nuclear NF-kappa B determines its association with CBP/p300 or HDAC-1
    • Zhong H., May M.J., Jimi E., Ghosh S. The phosphorylation status of nuclear NF-kappa B determines its association with CBP/p300 or HDAC-1. Mol. Cell 2002, 9:625-636.
    • (2002) Mol. Cell , vol.9 , pp. 625-636
    • Zhong, H.1    May, M.J.2    Jimi, E.3    Ghosh, S.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.