메뉴 건너뛰기




Volumn 8, Issue 10, 2013, Pages

Integrated Analysis of Dysregulated lncRNA Expression in Fetal Cardiac Tissues with Ventricular Septal Defect

Author keywords

[No Author keywords available]

Indexed keywords

LONG UNTRANSLATED RNA; TRANSCRIPTOME;

EID: 84885801238     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0077492     Document Type: Article
Times cited : (41)

References (30)
  • 1
    • 33749317433 scopus 로고    scopus 로고
    • Gene regulatory networks for the development and evolution of the chordate heart
    • doi:10.1101/gad.1485706
    • Satou Y, Satoh N, (2006) Gene regulatory networks for the development and evolution of the chordate heart. Genes Dev 20: 2634-2638. doi:10.1101/gad.1485706. PubMed: 17015427.
    • (2006) Genes Dev , vol.20 , pp. 2634-2638
    • Satou, Y.1    Satoh, N.2
  • 2
    • 77951259297 scopus 로고    scopus 로고
    • Challenges for modeling global gene regulatory networks during development: insights from Drosophila
    • doi:10.1016/j.ydbio.2009.10.032
    • Wilczynski B, Furlong EE, (2010) Challenges for modeling global gene regulatory networks during development: insights from Drosophila. Dev Biol 340: 161-169. doi:10.1016/j.ydbio.2009.10.032. PubMed: 19874814.
    • (2010) Dev Biol , vol.340 , pp. 161-169
    • Wilczynski, B.1    Furlong, E.E.2
  • 3
    • 0027383023 scopus 로고
    • Nkx-2.5: a novel murine homeobox gene expressed in early heart progenitor cells and their myogenic descendants
    • 7904557
    • Lints TJ, Parsons LM, Hartley L, Lyons I, Harvey RP, (1993) Nkx-2.5: a novel murine homeobox gene expressed in early heart progenitor cells and their myogenic descendants. Development 119: 419-431. PubMed: 7904557.
    • (1993) Development , vol.119 , pp. 419-431
    • Lints, T.J.1    Parsons, L.M.2    Hartley, L.3    Lyons, I.4    Harvey, R.P.5
  • 4
    • 17944378083 scopus 로고    scopus 로고
    • A murine model of Holt-Oram syndrome defines roles of the T-box transcription factor Tbx5 in cardiogenesis and disease
    • doi:10.1016/S0092-8674(01)00493-7
    • Bruneau BG, Nemer G, Schmitt JP, Charron F, Robitaille L, et al. (2001) A murine model of Holt-Oram syndrome defines roles of the T-box transcription factor Tbx5 in cardiogenesis and disease. Cell 106: 709-721. doi:10.1016/S0092-8674(01)00493-7. PubMed: 11572777.
    • (2001) Cell , vol.106 , pp. 709-721
    • Bruneau, B.G.1    Nemer, G.2    Schmitt, J.P.3    Charron, F.4    Robitaille, L.5
  • 5
    • 4344565788 scopus 로고    scopus 로고
    • GATA4 is essential for formation of the proepicardium and regulates cardiogenesis
    • doi:10.1073/pnas.0400752101
    • Watt AJ, Battle MA, Li J, Duncan SA, (2004) GATA4 is essential for formation of the proepicardium and regulates cardiogenesis. Proc Natl Acad Sci U S A 101: 12573-12578. doi:10.1073/pnas.0400752101. PubMed: 15310850.
    • (2004) Proc Natl Acad Sci U S A , vol.101 , pp. 12573-12578
    • Watt, A.J.1    Battle, M.A.2    Li, J.3    Duncan, S.A.4
  • 6
    • 79955411900 scopus 로고    scopus 로고
    • Small RNAs in early mammalian development: from gametes to gastrulation
    • doi:10.1242/dev.056234
    • Suh N, Blelloch R, (2011) Small RNAs in early mammalian development: from gametes to gastrulation. Development 138: 1653-1661. doi:10.1242/dev.056234. PubMed: 21486922.
    • (2011) Development , vol.138 , pp. 1653-1661
    • Suh, N.1    Blelloch, R.2
  • 7
    • 77951919333 scopus 로고    scopus 로고
    • MicroRNA regulatory networks in cardiovascular development
    • doi:10.1016/j.devcel.2010.03.010
    • Liu N, Olson EN, (2010) MicroRNA regulatory networks in cardiovascular development. Dev Cell 18: 510-525. doi:10.1016/j.devcel.2010.03.010. PubMed: 20412767.
    • (2010) Dev Cell , vol.18 , pp. 510-525
    • Liu, N.1    Olson, E.N.2
  • 8
    • 65649092633 scopus 로고    scopus 로고
    • The genetic signatures of noncoding RNAs
    • 19390609
    • Mattick JS, (2009) The genetic signatures of noncoding RNAs. PLOS Genet 5: e1000459. PubMed: 19390609.
    • (2009) PLOS Genet , vol.5
    • Mattick, J.S.1
  • 9
    • 34250729138 scopus 로고    scopus 로고
    • Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs
    • doi:10.1016/j.cell.2007.05.022
    • Rinn JL, Kertesz M, Wang JK, Squazzo SL, Xu X, et al. (2007) Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs. Cell 129: 1311-1323. doi:10.1016/j.cell.2007.05.022. PubMed: 17604720.
    • (2007) Cell , vol.129 , pp. 1311-1323
    • Rinn, J.L.1    Kertesz, M.2    Wang, J.K.3    Squazzo, S.L.4    Xu, X.5
  • 10
    • 79955052332 scopus 로고    scopus 로고
    • RNA-mediated silencing mechanisms in mammalian cells
    • Wutz A, (2011) RNA-mediated silencing mechanisms in mammalian cells. Prog Mol Biol. Transl Sci 101: 351-376.
    • (2011) Prog Mol Biol. Transl Sci , vol.101 , pp. 351-376
    • Wutz, A.1
  • 11
    • 80053045739 scopus 로고    scopus 로고
    • Molecular mechanisms of long noncoding RNAs
    • doi:10.1016/j.molcel.2011.08.018
    • Wang KC, Chang HY, (2011) Molecular mechanisms of long noncoding RNAs. Mol Cell 43: 904-914. doi:10.1016/j.molcel.2011.08.018. PubMed: 21925379.
    • (2011) Mol Cell , vol.43 , pp. 904-914
    • Wang, K.C.1    Chang, H.Y.2
  • 12
    • 60349117938 scopus 로고    scopus 로고
    • Congenital cardiac disease in the newborn infant: past, present, and future
    • doi:10.1016/j.ccell.2008.10.001, vi
    • Sadowski SL, (2009) Congenital cardiac disease in the newborn infant: past, present, and future. Crit Care Nurs Clin North Am 21: 37-48, vi doi:10.1016/j.ccell.2008.10.001. PubMed: 19237042.
    • (2009) Crit Care Nurs Clin North Am , vol.21 , pp. 37-48
    • Sadowski, S.L.1
  • 13
    • 79957842166 scopus 로고    scopus 로고
    • Computational methods for transcriptome annotation and quantification using RNA-seq
    • doi:10.1038/nmeth.1613
    • Garber M, Grabherr MG, Guttman M, Trapnell C, (2011) Computational methods for transcriptome annotation and quantification using RNA-seq. Nat Methods 8: 469-477. doi:10.1038/nmeth.1613. PubMed: 21623353.
    • (2011) Nat Methods , vol.8 , pp. 469-477
    • Garber, M.1    Grabherr, M.G.2    Guttman, M.3    Trapnell, C.4
  • 14
    • 0034069495 scopus 로고    scopus 로고
    • Gene ontology: tool for the unification of biology. The Gene Ontology Consortium
    • doi:10.1038/75556
    • Ashburner M, Ball CA, Blake JA, Botstein D, Butler H, et al. (2000) Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat Genet 25: 25-29. doi:10.1038/75556. PubMed: 10802651.
    • (2000) Nat Genet , vol.25 , pp. 25-29
    • Ashburner, M.1    Ball, C.A.2    Blake, J.A.3    Botstein, D.4    Butler, H.5
  • 15
    • 33947385831 scopus 로고    scopus 로고
    • Microarray analysis distinguishes differential gene expression patterns from large and small colony Thymidine kinase mutants of L5178Y mouse lymphoma cells
    • doi:10.1186/1471-2105-7-S5-S9
    • Han T, Wang J, Tong W, Moore MM, Fuscoe JC, et al. (2006) Microarray analysis distinguishes differential gene expression patterns from large and small colony Thymidine kinase mutants of L5178Y mouse lymphoma cells. BMC Bioinformatics 7 (Suppl 2):: S9. doi:10.1186/1471-2105-7-S5-S9. PubMed: 17118152.
    • (2006) BMC Bioinformatics , vol.7 , Issue.SUPPL. 2
    • Han, T.1    Wang, J.2    Tong, W.3    Moore, M.M.4    Fuscoe, J.C.5
  • 16
    • 23744458086 scopus 로고    scopus 로고
    • Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes
    • doi:10.1101/gr.3715005
    • Siepel A, Bejerano G, Pedersen JS, Hinrichs AS, Hou M, et al. (2005) Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes. Genome Res 15: 1034-1050. doi:10.1101/gr.3715005. PubMed: 16024819.
    • (2005) Genome Res , vol.15 , pp. 1034-1050
    • Siepel, A.1    Bejerano, G.2    Pedersen, J.S.3    Hinrichs, A.S.4    Hou, M.5
  • 17
    • 34249026300 scopus 로고    scopus 로고
    • High-resolution profiling of histone methylations in the human genome
    • doi:10.1016/j.cell.2007.05.009
    • Barski A, Cuddapah S, Cui K, Roh TY, Schones DE, et al. (2007) High-resolution profiling of histone methylations in the human genome. Cell 129: 823-837. doi:10.1016/j.cell.2007.05.009. PubMed: 17512414.
    • (2007) Cell , vol.129 , pp. 823-837
    • Barski, A.1    Cuddapah, S.2    Cui, K.3    Roh, T.Y.4    Schones, D.E.5
  • 18
    • 78650758676 scopus 로고    scopus 로고
    • Histone H3K27ac separates active from poised enhancers and predicts developmental state
    • doi:10.1073/pnas.1016071107
    • Creyghton MP, Cheng AW, Welstead GG, Kooistra T, Carey BW, et al. (2010) Histone H3K27ac separates active from poised enhancers and predicts developmental state. Proc Natl Acad Sci U S A 107: 21931-21936. doi:10.1073/pnas.1016071107. PubMed: 21106759.
    • (2010) Proc Natl Acad Sci U S A , vol.107 , pp. 21931-21936
    • Creyghton, M.P.1    Cheng, A.W.2    Welstead, G.G.3    Kooistra, T.4    Carey, B.W.5
  • 19
    • 0034023759 scopus 로고    scopus 로고
    • The Jak-STAT pathway
    • doi:10.1016/S0161-5890(00)00018-3
    • Imada K, Leonard WJ, (2000) The Jak-STAT pathway. Mol Immunol 37: 1-11. doi:10.1016/S0161-5890(00)00018-3. PubMed: 10781830.
    • (2000) Mol Immunol , vol.37 , pp. 1-11
    • Imada, K.1    Leonard, W.J.2
  • 20
    • 65349162170 scopus 로고    scopus 로고
    • Conservation of core gene expression in vertebrate tissues
    • doi:10.1186/jbiol130
    • Chan ET, Quon GT, Chua G, Babak T, Trochesset M, et al. (2009) Conservation of core gene expression in vertebrate tissues. J Biol 8: 33. doi:10.1186/jbiol130. PubMed: 19371447.
    • (2009) J Biol , vol.8 , pp. 33
    • Chan, E.T.1    Quon, G.T.2    Chua, G.3    Babak, T.4    Trochesset, M.5
  • 21
    • 60349120914 scopus 로고    scopus 로고
    • Long non-coding RNAs: insights into functions
    • doi:10.1038/nrg2521
    • Mercer TR, Dinger ME, Mattick JS, (2009) Long non-coding RNAs: insights into functions. Nat Rev Genet 10: 155-159. doi:10.1038/nrg2521. PubMed: 19188922.
    • (2009) Nat Rev Genet , vol.10 , pp. 155-159
    • Mercer, T.R.1    Dinger, M.E.2    Mattick, J.S.3
  • 22
    • 80052978224 scopus 로고    scopus 로고
    • Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses
    • doi:10.1101/gad.17446611
    • Cabili MN, Trapnell C, Goff L, Koziol M, Tazon-Vega B, et al. (2011) Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses. Genes Dev 25: 1915-1927. doi:10.1101/gad.17446611. PubMed: 21890647.
    • (2011) Genes Dev , vol.25 , pp. 1915-1927
    • Cabili, M.N.1    Trapnell, C.2    Goff, L.3    Koziol, M.4    Tazon-Vega, B.5
  • 23
    • 84864629645 scopus 로고    scopus 로고
    • Rapid turnover of long noncoding RNAs and the evolution of gene expression
    • 22844254
    • Kutter C, Watt S, Stefflova K, Wilson MD, Goncalves A, et al. (2012) Rapid turnover of long noncoding RNAs and the evolution of gene expression. PLOS Genet 8: e1002841. PubMed: 22844254.
    • (2012) PLOS Genet , vol.8
    • Kutter, C.1    Watt, S.2    Stefflova, K.3    Wilson, M.D.4    Goncalves, A.5
  • 24
    • 84869052718 scopus 로고    scopus 로고
    • Cis-acting noncoding RNAs: friends and foes
    • doi:10.1038/nsmb.2428
    • Guil S, Esteller M, (2012) Cis-acting noncoding RNAs: friends and foes. Nat Struct Mol Biol 19: 1068-1075. doi:10.1038/nsmb.2428. PubMed: 23132386.
    • (2012) Nat Struct Mol Biol , vol.19 , pp. 1068-1075
    • Guil, S.1    Esteller, M.2
  • 25
    • 84868705910 scopus 로고    scopus 로고
    • Long noncoding RNAs in cardiac development and pathophysiology
    • doi:10.1161/CIRCRESAHA.112.268953
    • Schonrock N, Harvey RP, Mattick JS, (2012) Long noncoding RNAs in cardiac development and pathophysiology. Circ Res 111: 1349-1362. doi:10.1161/CIRCRESAHA.112.268953. PubMed: 23104877.
    • (2012) Circ Res , vol.111 , pp. 1349-1362
    • Schonrock, N.1    Harvey, R.P.2    Mattick, J.S.3
  • 26
    • 84860551853 scopus 로고    scopus 로고
    • Identifying functional annotation for noncoding genomic sequences
    • 10, Chapter 1: Unit1
    • Mortlock DP, Pregizer S, (2012) Identifying functional annotation for noncoding genomic sequences. Curr Protoc Hum Genet Chapter 1: Unit1 10. PubMed: 22241655.
    • (2012) Curr Protoc Hum Genet
    • Mortlock, D.P.1    Pregizer, S.2
  • 27
    • 79955027617 scopus 로고    scopus 로고
    • Co-occupancy by multiple cardiac transcription factors identifies transcriptional enhancers active in heart
    • doi:10.1073/pnas.1016959108
    • He A, Kong SW, Ma Q, Pu WT, (2011) Co-occupancy by multiple cardiac transcription factors identifies transcriptional enhancers active in heart. Proc Natl Acad Sci U S A 108: 5632-5637. doi:10.1073/pnas.1016959108. PubMed: 21415370.
    • (2011) Proc Natl Acad Sci U S A , vol.108 , pp. 5632-5637
    • He, A.1    Kong, S.W.2    Ma, Q.3    Pu, W.T.4
  • 28
    • 77956641239 scopus 로고    scopus 로고
    • ChIP-Seq identification of weakly conserved heart enhancers
    • doi:10.1038/ng.650
    • Blow MJ, McCulley DJ, Li Z, Zhang T, Akiyama JA, et al. (2010) ChIP-Seq identification of weakly conserved heart enhancers. Nat Genet 42: 806-810. doi:10.1038/ng.650. PubMed: 20729851.
    • (2010) Nat Genet , vol.42 , pp. 806-810
    • Blow, M.J.1    McCulley, D.J.2    Li, Z.3    Zhang, T.4    Akiyama, J.A.5
  • 29
    • 84857836107 scopus 로고    scopus 로고
    • Systematic identification of long noncoding RNAs expressed during zebrafish embryogenesis
    • doi:10.1101/gr.133009.111
    • Pauli A, Valen E, Lin MF, Garber M, Vastenhouw NL, et al. (2012) Systematic identification of long noncoding RNAs expressed during zebrafish embryogenesis. Genome Res 22: 577-591. doi:10.1101/gr.133009.111. PubMed: 22110045.
    • (2012) Genome Res , vol.22 , pp. 577-591
    • Pauli, A.1    Valen, E.2    Lin, M.F.3    Garber, M.4    Vastenhouw, N.L.5
  • 30
    • 80052869283 scopus 로고    scopus 로고
    • lincRNAs act in the circuitry controlling pluripotency and differentiation
    • doi:10.1038/nature10398
    • Guttman M, Donaghey J, Carey BW, Garber M, Grenier JK, et al. (2011) lincRNAs act in the circuitry controlling pluripotency and differentiation. Nature 477: 295-300. doi:10.1038/nature10398. PubMed: 21874018.
    • (2011) Nature , vol.477 , pp. 295-300
    • Guttman, M.1    Donaghey, J.2    Carey, B.W.3    Garber, M.4    Grenier, J.K.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.