Erceg S, Ronaghi M, Stojkovic M: Human embryonic stem cell differentiation toward regional specific neural precursors.
Stem Cells 2009, 27:78–87. 10.1634/stemcells.2008-0543
Article
PubMed Central
CAS
PubMed
Google Scholar
Chicha L, Smith T, Guzman R: Stem cells for brain repair in neonatal hypoxia-ischemia.
Childs Nerv Syst 2014, 30:37–46. 10.1007/s00381-013-2304-4
Article
CAS
PubMed
Google Scholar
Yuan T, Liao W, Feng NH, Lou YL, Niu X, Zhang AJ, et al.: Human induced pluripotent stem cell-derived neural stem cells survive, migrate, differentiate, and improve neurologic function in a rat model of middle cerebral artery occlusion.
Stem Cell Res Ther 2013, 4:73. 10.1186/scrt224
Article
PubMed Central
CAS
PubMed
Google Scholar
Seminatore C, Polentes J, Ellman D, Kozubenko N, Itier V, Tine S, et al.: The postischemic environment differentially impacts teratoma or tumor formation after transplantation of human embryonic stem cell-derived neural progenitors.
Stroke 2010, 41:153–9. 10.1161/STROKEAHA.109.563015
Article
PubMed
Google Scholar
Mercer TR, Qureshi IA, Gokhan S, Dinger ME, Li G, Mattick JS, et al.: Long noncoding RNAs in neuronal-glial fate specification and oligodendrocyte lineage maturation.
BMC Neurosci 2010, 11:14. 10.1186/1471-2202-11-14
Article
PubMed Central
PubMed
Google Scholar
Tochitani S, Hayashizaki Y: Nkx2.2 antisense RNA overexpression enhanced oligodendrocytic differentiation.
Biochem Biophys Res Commun 2008, 372:691–6. 10.1016/j.bbrc.2008.05.127
Article
CAS
PubMed
Google Scholar
Johnson R: Long non-coding RNAs in Huntington’s disease neurodegeneration.
Neurobiol Dis 2012, 46:245–54. 10.1016/j.nbd.2011.12.006
Article
CAS
PubMed
Google Scholar
Airavaara M, Pletnikova O, Doyle ME, Zhang YE, Troncoso JC, Liu QR: Identification of novel GDNF isoforms and cis-antisense GDNFOS gene and their regulation in human middle temporal gyrus of Alzheimer disease.
J Biol Chem 2011, 286:45093–102. 10.1074/jbc.M111.310250
Article
PubMed Central
CAS
PubMed
Google Scholar
McLaughlin D, Vidaki M, Renieri E, Karagogeos D: Expression pattern of the maternally imprinted gene Gtl2 in the forebrain during embryonic development and adulthood.
Gene Expr Patterns 2006, 6:394–9. 10.1016/j.modgep.2005.09.007
Article
CAS
PubMed
Google Scholar
Qu C, Jiang T, Li Y, Wang X, Cao H, Xu H, et al.: Gene expression and IG-DMR hypomethylation of maternally expressed gene 3 in developing corticospinal neurons.
Gene Expr Patterns 2013, 13:51–6. 10.1016/j.gep.2012.11.003
Article
CAS
PubMed
Google Scholar
Lin SP, Youngson N, Takada S, Seitz H, Reik W, Paulsen M, et al.: Asymmetric regulation of imprinting on the maternal and paternal chromosomes at the Dlk1-Gtl2 imprinted cluster on mouse chromosome 12.
Nat Genet 2003, 35:97–102. 10.1038/ng1233
Article
CAS
PubMed
Google Scholar
Zhou Y, Cheunsuchon P, Nakayama Y, Lawlor MW, Zhong Y, Rice KA, et al.: Activation of paternally expressed genes and perinatal death caused by deletion of the Gtl2 gene.
Development 2010, 137:2643–52. 10.1242/dev.045724
Article
PubMed Central
CAS
PubMed
Google Scholar
Lin SP, Coan P, da Rocha ST, Seitz H, Cavaille J, Teng PW, et al.: Differential regulation of imprinting in the murine embryo and placenta by the Dlk1-Dio3 imprinting control region.
Development 2007, 134:417–26. 10.1242/dev.02726
Article
CAS
PubMed
Google Scholar
Liu L, Luo GZ, Yang W, Zhao X, Zheng Q, Lv Z, et al.: Activation of the imprinted Dlk1-Dio3 region correlates with pluripotency levels of mouse stem cells.
J Biol Chem 2010, 285:19483–90. 10.1074/jbc.M110.131995
Article
PubMed Central
CAS
PubMed
Google Scholar
Stadtfeld M, Apostolou E, Akutsu H, Fukuda A, Follett P, Natesan S, et al.: Aberrant silencing of imprinted genes on chromosome 12qF1 in mouse induced pluripotent stem cells.
Nature 2010, 465:175–81. 10.1038/nature09017
Article
PubMed Central
CAS
PubMed
Google Scholar
Stadtfeld M, Apostolou E, Ferrari F, Choi J, Walsh RM, Chen T, et al.: Ascorbic acid prevents loss of Dlk1-Dio3 imprinting and facilitates generation of all-iPS cell mice from terminally differentiated B cells.
Nat Genet 2012, 44:398–405. S391–392 10.1038/ng.1110
Article
PubMed Central
CAS
PubMed
Google Scholar
Sutton VR, Shaffer LG: Search for imprinted regions on chromosome 14: comparison of maternal and paternal UPD cases with cases of chromosome 14 deletion.
Am J Med Genet 2000, 93:381–7. 10.1002/1096-8628(20000828)93:5<381::AID-AJMG7>3.0.CO;2-9
Article
CAS
PubMed
Google Scholar
Kagami M, Sekita Y, Nishimura G, Irie M, Kato F, Okada M, et al.: Deletions and epimutations affecting the human 14q32.2 imprinted region in individuals with paternal and maternal upd(14)-like phenotypes.
Nat Genet 2008, 40:237–42. 10.1038/ng.2007.56
Article
CAS
PubMed
Google Scholar
Kagami M, O’Sullivan MJ, Green AJ, Watabe Y, Arisaka O, Masawa N, et al.: The IG-DMR and the MEG3-DMR at human chromosome 14q32.2: hierarchical interaction and distinct functional properties as imprinting control centers.
PLoS Genet 2010, 6:e1000992. 10.1371/journal.pgen.1000992
Article
PubMed Central
PubMed
Google Scholar
Benetatos L, Vartholomatos G, Hatzimichael E: MEG3 imprinted gene contribution in tumorigenesis.
Int J Cancer 2011, 129:773–9. 10.1002/ijc.26052
Article
CAS
PubMed
Google Scholar
Zhang X, Gejman R, Mahta A, Zhong Y, Rice KA, Zhou Y, et al.: Maternally expressed gene 3, an imprinted noncoding RNA gene, is associated with meningioma pathogenesis and progression.
Cancer Res 2010, 70:2350–8. 10.1158/0008-5472.CAN-09-3885
Article
PubMed Central
CAS
PubMed
Google Scholar
Zhao J, Dahle D, Zhou Y, Zhang X, Klibanski A: Hypermethylation of the promoter region is associated with the loss of MEG3 gene expression in human pituitary tumors.
J Clin Endocrinol Metab 2005, 90:2179–86. 10.1210/jc.2004-1848
Article
CAS
PubMed
Google Scholar
Haga CL, Phinney DG: MicroRNAs in the imprinted DLK1-DIO3 region repress the epithelial-to-mesenchymal transition by targeting the TWIST1 protein signaling network.
J Biol Chem 2012, 287:42695–707. 10.1074/jbc.M112.387761
Article
PubMed Central
CAS
PubMed
Google Scholar
Sutton VR, McAlister WH, Bertin TK, Kaffe S, Wang JC, Yano S, et al.: Skeletal defects in paternal uniparental disomy for chromosome 14 are re-capitulated in the mouse model (paternal uniparental disomy 12).
Hum Genet 2003, 113:447–51. 10.1007/s00439-003-0981-x
Article
PubMed
Google Scholar
Gardiner E, Beveridge NJ, Wu JQ, Carr V, Scott RJ, Tooney PA, et al.: Imprinted DLK1-DIO3 region of 14q32 defines a schizophrenia-associated miRNA signature in peripheral blood mononuclear cells.
Mol Psychiatry 2012, 17:827–40. 10.1038/mp.2011.78
Article
PubMed Central
CAS
PubMed
Google Scholar
Kaneko S, Bonasio R, Saldana-Meyer R, Yoshida T, Son J, Nishino K, et al.: Interactions between JARID2 and Noncoding RNAs Regulate PRC2 Recruitment to Chromatin.
Mol Cell 2014, 290:300.
Google Scholar
Cao R, Wang L, Wang H, Xia L, Erdjument-Bromage H, Tempst P, et al.: Role of histone H3 lysine 27 methylation in Polycomb-group silencing.
Science 2002, 298:1039–43. 10.1126/science.1076997
Article
CAS
PubMed
Google Scholar
Lee TI, Jenner RG, Boyer LA, Guenther MG, Levine SS, Kumar RM, et al.: Control of developmental regulators by Polycomb in human embryonic stem cells.
Cell 2006, 125:301–13. 10.1016/j.cell.2006.02.043
Article
PubMed Central
CAS
PubMed
Google Scholar
Chen HF, Kuo HC, Chien CL, Shun CT, Yao YL, Ip PL, et al.: Derivation, characterization and differentiation of human embryonic stem cells: comparing serum-containing versus serum-free media and evidence of germ cell differentiation.
Hum Reprod 2007, 22:567–77.
Article
PubMed
Google Scholar
Huang HP, Yu CY, Chen HF, Chen PH, Chuang CY, Lin SJ, et al.: Factors from human embryonic stem cell-derived fibroblast-like cells promote topology-dependent hepatic differentiation in primate embryonic and induced pluripotent stem cells.
J Biol Chem 2010, 285:33510–9. 10.1074/jbc.M110.122093
Article
PubMed Central
CAS
PubMed
Google Scholar
Thomson JA, Itskovitz-Eldor J, Shapiro SS, Waknitz MA, Swiergiel JJ, Marshall VS, et al.: Embryonic stem cell lines derived from human blastocysts.
Science 1998, 282:1145–7.
Article
CAS
PubMed
Google Scholar
Huang HP, Chen PH, Yu CY, Chuang CY, Stone L, Hsiao WC, et al.: Epithelial cell adhesion molecule (EpCAM) complex proteins promote transcription factor-mediated pluripotency reprogramming.
J Biol Chem 2011, 286:33520–32. 10.1074/jbc.M111.256164
Article
PubMed Central
CAS
PubMed
Google Scholar
Chen HF, Yu CY, Chen MJ, Chou SH, Chiang MS, Chou WH, et al.: Characteristic expression of major histocompatibility complex and immune privilege genes in human pluripotent stem cells and the derivatives.
Cell Transplant 2013. Published online
Google Scholar
Varkonyi-Gasic E, Wu R, Wood M, Walton EF, Hellens RP: Protocol: a highly sensitive RT-PCR method for detection and quantification of microRNAs.
Plant Methods 2007, 3:12. 10.1186/1746-4811-3-12
Article
PubMed Central
PubMed
Google Scholar
Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, et al.: Bioconductor: open software development for computational biology and bioinformatics.
Genome Biol 2004, 5:R80. 10.1186/gb-2004-5-10-r80
Article
PubMed Central
PubMed
Google Scholar
Tusher VG, Tibshirani R, Chu G: Significance analysis of microarrays applied to the ionizing radiation response.
Proc Natl Acad Sci U S A 2001, 98:5116–21. 10.1073/pnas.091062498
Article
PubMed Central
CAS
PubMed
Google Scholar
Ginestet C: ggplot2: elegant graphics for data analysis.
J R Stat Soc a Stat 2011, 174:245. 10.1111/j.1467-985X.2010.00676_9.x
Article
Google Scholar
Benjamini Y, Drai D, Elmer G, Kafkafi N, Golani I: Controlling the false discovery rate in behavior genetics research.
Behav Brain Res 2001, 125:279–84. 10.1016/S0166-4328(01)00297-2
Article
CAS
PubMed
Google Scholar
Mootha VK, Lindgren CM, Eriksson KF, Subramanian A, Sihag S, Lehar J, et al.: PGC-1alpha-responsive genes involved in oxidative phosphorylation are coordinately downregulated in human diabetes.
Nat Genet 2003, 34:267–73. 10.1038/ng1180
Article
CAS
PubMed
Google Scholar
Subramanian A, Tamayo P, Mootha VK, Mukherjee S, Ebert BL, Gillette MA, et al.: Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles.
Proc Natl Acad Sci U S A 2005, 102:15545–50. 10.1073/pnas.0506580102
Article
PubMed Central
CAS
PubMed
Google Scholar
Ben-Porath I, Thomson MW, Carey VJ, Ge R, Bell GW, Regev A, et al.: An embryonic stem cell-like gene expression signature in poorly differentiated aggressive human tumors.
Nat Genet 2008, 40:499–507. 10.1038/ng.127
Article
PubMed Central
CAS
PubMed
Google Scholar
Müller FJ, Schuldt BM, Williams R, Mason D, Altun G, Papapetrou EP, et al.: A bioinformatic assay for pluripotency in human cells.
Nat Methods 2011, 8:315–7. 10.1038/nmeth.1580
Article
PubMed Central
PubMed
Google Scholar
Monk D, Arnaud P, Apostolidou S, Hills FA, Kelsey G, Stanier P, et al.: Limited evolutionary conservation of imprinting in the human placenta.
Proc Natl Acad Sci U S A 2006, 103:6623–8. 10.1073/pnas.0511031103
Article
PubMed Central
CAS
PubMed
Google Scholar
Judson H, Hayward BE, Sheridan E, Bonthron DT: A global disorder of imprinting in the human female germ line.
Nature 2002, 416:539–42. 10.1038/416539a
Article
CAS
PubMed
Google Scholar
Monk D, Wagschal A, Arnaud P, Muller PS, Parker-Katiraee L, Bourc’his D, et al.: Comparative analysis of human chromosome 7q21 and mouse proximal chromosome 6 reveals a placental-specific imprinted gene, TFPI2/Tfpi2, which requires EHMT2 and EED for allelic-silencing.
Genome Res 2008, 18:1270–81. 10.1101/gr.077115.108
Article
PubMed Central
CAS
PubMed
Google Scholar
Bock C, Reither S, Mikeska T, Paulsen M, Walter J, Lengauer T: BiQ Analyzer: visualization and quality control for DNA methylation data from bisulfite sequencing.
Bioinformatics 2005, 21:4067–8. 10.1093/bioinformatics/bti652
Article
CAS
PubMed
Google Scholar
Wyman SK, Knouf EC, Parkin RK, Fritz BR, Lin DW, Dennis LM, et al.: Post-transcriptional generation of miRNA variants by multiple nucleotidyl transferases contributes to miRNA transcriptome complexity.
Genome Res 2011, 21:1450–61. 10.1101/gr.118059.110
Article
PubMed Central
CAS
PubMed
Google Scholar
Kim SH, Yoo BC, Broers JL, Cairns N, Lubec G: Neuroendocrine-specific protein C, a marker of neuronal differentiation, is reduced in brain of patients with Down syndrome and Alzheimer’s disease.
Biochem Biophys Res Commun 2000, 276:329–34. 10.1006/bbrc.2000.3464
Article
CAS
PubMed
Google Scholar
Surmacz B, Noisa P, Risner-Janiczek JR, Hui K, Ungless M, Cui W, et al.: DLK1 promotes neurogenesis of human and mouse pluripotent stem cell-derived neural progenitors via modulating Notch and BMP signalling.
Stem Cell Rev 2012, 8:459–71. 10.1007/s12015-011-9298-7
Article
CAS
PubMed
Google Scholar
Ku M, Koche RP, Rheinbay E, Mendenhall EM, Endoh M, Mikkelsen TS, et al.: Genomewide analysis of PRC1 and PRC2 occupancy identifies two classes of bivalent domains.
PLoS Genet 2008, 4:e1000242. 10.1371/journal.pgen.1000242
Article
PubMed Central
PubMed
Google Scholar
Ram O, Goren A, Amit I, Shoresh N, Yosef N, Ernst J, et al.: Combinatorial patterning of chromatin regulators uncovered by genome-wide location analysis in human cells.
Cell 2011, 147:1628–39. 10.1016/j.cell.2011.09.057
Article
PubMed Central
CAS
PubMed
Google Scholar
Haslinger A, Schwarz TJ, Covic M, Lie DC: Expression of Sox11 in adult neurogenic niches suggests a stage-specific role in adult neurogenesis.
Eur J Neurosci 2009, 29:2103–14.
Article
PubMed
Google Scholar
Axell MZ, Zlateva S, Curtis M: A method for rapid derivation and propagation of neural progenitors from human embryonic stem cells.
J Neurosci Methods 2009, 184:275–84. 10.1016/j.jneumeth.2009.08.015
Article
PubMed
Google Scholar
Kim KP, Thurston A, Mummery C, Ward-van Oostwaard D, Priddle H, Allegrucci C, et al.: Gene-specific vulnerability to imprinting variability in human embryonic stem cell lines.
Genome Res 2007, 17:1731–42. 10.1101/gr.6609207
Article
PubMed Central
CAS
PubMed
Google Scholar
Nishino K, Toyoda M, Yamazaki-Inoue M, Fukawatase Y, Chikazawa E, Sakaguchi H, et al.: DNA methylation dynamics in human induced pluripotent stem cells over time.
PLoS Genet 2011, 7:e1002085. 10.1371/journal.pgen.1002085
Article
PubMed Central
CAS
PubMed
Google Scholar
Xie P, Sun Y, Ouyang Q, Hu L, Tan Y, Zhou X, et al.: Physiological oxygen prevents frequent silencing of the DLK1-DIO3 cluster during human embryonic stem cells culture.
Stem Cells 2014, 391:401.
Google Scholar
Astuti D, Latif F, Wagner K, Gentle D, Cooper WN, Catchpoole D, et al.: Epigenetic alteration at the DLK1-GTL2 imprinted domain in human neoplasia: analysis of neuroblastoma, phaeochromocytoma and Wilms’ tumour.
Br J Cancer 2005, 92:1574–80. 10.1038/sj.bjc.6602478
Article
PubMed Central
CAS
PubMed
Google Scholar
Wang P, Ren Z, Sun P: Overexpression of the long non-coding RNA MEG3 impairs in vitro glioma cell proliferation.
J Cell Biochem 2012, 113:1868–74. 10.1002/jcb.24055
Article
CAS
PubMed
Google Scholar
Di Sano F, Fazi B, Tufi R, Nardacci R, Piacentini M: Reticulon-1C acts as a molecular switch between endoplasmic reticulum stress and genotoxic cell death pathway in human neuroblastoma cells.
J Neurochem 2007, 102:345–53. 10.1111/j.1471-4159.2007.04479.x
Article
CAS
PubMed
Google Scholar