Long non-coding RNA SOX2OT: expression signature, splicing patterns, and emerging roles in pluripotency and tumorigenesis

Aguilo, 2011, Long noncoding RNA, polycomb, and the ghosts haunting INK4b-ARF-INK4a expression, Cancer Res., 71, 5365, 10.1158/0008-5472.CAN-10-4379

Amaral, P. P. and Mattick, 2008, Noncoding RNA in development, Mamm. Genome, 19, 454, 10.1007/s00335-008-9136-7

Amaral, 2009, Complex architecture and regulated expression of the Sox2ot locus during vertebrate development, RNA, 15, 2013, 10.1261/rna.1705309

Askarian-Amiri, 2014, Emerging role of long non-coding RNA SOX2OT in SOX2 regulation in breast cancer, PLoS ONE, 9, e102140, 10.1371/journal.pone.0102140

Avilion, 2003, Multipotent cell lineages in early mouse development depend on SOX2 function, Genes Dev., 17, 126, 10.1101/gad.224503

Balsara, 2002, Chromosomal imbalances in human lung cancer, Oncogene, 21, 6877, 10.1038/sj.onc.1205836

Bass, 2009, SOX2 is an amplified lineage-survival oncogene in lung and esophageal squamous cell carcinomas, Nat. Genet., 41, 1238, 10.1038/ng.465

Boer, 2007, Elevating the levels of Sox2 in embryonal carcinoma cells and embryonic stem cells inhibits the expression of Sox2:Oct-3/4 target genes, Nucleic Acids Res., 35, 1773, 10.1093/nar/gkm059

Boumahdi, 2014, SOX2 controls tumour initiation and cancer stem-cell functions in squamous-cell carcinoma, Nature, 511, 246, 10.1038/nature13305

Boyer, 2005, Core transcriptional regulatory circuitry in human embryonic stem cells, Cell, 122, 947, 10.1016/j.cell.2005.08.020

Brockdorff, 2013, Noncoding RNA and Polycomb recruitment, RNA, 19, 429, 10.1261/rna.037598.112

Cao, 2002, Role of histone H3 lysine 27 methylation in Polycomb-group silencing, Science, 298, 1039, 10.1126/science.1076997

Cardoso, 2000, The human EZH2 gene: genomic organisation and revised mapping in 7q35 within the critical region for malignant myeloid disorders, Eur. J. Hum. Genet., 8, 174, 10.1038/sj.ejhg.5200439

Chen, 2008, The molecular mechanism governing the oncogenic potential of SOX2 in breast cancer, J. Biol. Chem., 283, 17969, 10.1074/jbc.M802917200

Denoeud, 2007, Prominent use of distal 5′ transcription start sites and discovery of a large number of additional exons in ENCODE regions, Genome Res., 17, 746, 10.1101/gr.5660607

Dinger, 2008, Differentiating protein-coding and noncoding RNA: challenges and ambiguities, PLoS Comput. Biol., 4, e1000176, 10.1371/journal.pcbi.1000176

Esteller, 2011, Non-coding RNAs in human disease, Nat. Rev., 12, 861, 10.1038/nrg3074

Fantes, 2003, Mutations in SOX2 cause anophthalmia, Nat. Genet., 33, 461, 10.1038/ng1120

Fong, 2008, Regulation of self-renewal and pluripotency by Sox2 in human embryonic stem cells, Stem Cells, 26, 1931, 10.1634/stemcells.2007-1002

Gebhart, 2000, Patterns of genomic imbalances in human solid tumors, Int. J. Oncol., 162, 383, 10.3892/ijo.16.2.383

Gupta, 2010, Long non-coding RNA HOTAIR reprograms chromatin state to promote cancer metastasis, Nature, 464, 1071, 10.1038/nature08975

Gure, 2000, Serological identification of embryonic neural proteins as highly immunogenic tumor antigens in small cell lung cancer, Proc. Natl. Acad. Sci. U.S.A., 97, 4198, 10.1073/pnas.97.8.4198

Gutschner, 2013, The noncoding RNA MALAT1 is a critical regulator of the metastasis phenotype of lung cancer cells, Cancer Res., 73, 1180, 10.1158/0008-5472.CAN-12-2850

Guttman, 2009, Chromatin signature reveals over a thousand highly conserved large noncoding RNAs in mammals, Nature, 458, 223, 10.1038/nature07672

Hou, 2014, A long noncoding RNA Sox2ot regulates lung cancer cell proliferation and is a prognostic indicator of poor survival, Int. J. Biochem. Cell Biol., 53, 380, 10.1016/j.biocel.2014.06.004

Hung, 2010, Long noncoding RNA in genome regulation: prospects and mechanisms, RNA Biol., 7, 582, 10.4161/rna.7.5.13216

Hussenet, 2010, SOX2 is an oncogene activated by recurrent 3q26.3 amplifications in human lung squamous cell carcinomas, PLoS ONE, 5, e8960, 10.1371/journal.pone.0008960

Hütz, 2013, The stem cell factor SOX2 regulates the tumorigenic potential in human gastric cancer cells, Carcinogenesis, 35, 942, 10.1093/carcin/bgt410

Jia, 2011, SOX2 promotes tumorigenesis and increases the anti-apoptotic property of human prostate cancer cell, J. Mol. Cell Biol., 3, 230, 10.1093/jmcb/mjr002

Jiang, 2004, Genomic profiles in stage I primary non small cell lung cancer using comparative genomic hybridization analysis of cDNA microarrays, Neoplasia, 6, 623, 10.1593/neo.04142

Kapranov, 2007, RNA maps reveal new RNA classes and a possible function for pervasive transcription, Science, 316, 1484, 10.1126/science.1138341

Kimura, 2006, Diversification of transcriptional modulation: largescale identification and characterization of putative alternative promoters of human genes, Genome Res., 16, 55, 10.1101/gr.4039406

Kopp, 2008, Small increases in the level of Sox2 trigger the differentiation of mouse embryonic stem cells, Stem Cells, 26, 903, 10.1634/stemcells.2007-0951

Kotake, 2011, Long non-coding RNA ANRIL is required for the PRC2 recruitment to and silencing of p15INK4B tumor suppressor gene, Oncogene, 30, 1956, 10.1038/onc.2010.568

Kretz, 2012, Suppression of progenitor differentiation requires the long noncoding RNA ANCR, Gene Dev., 26, 338, 10.1101/gad.182121.111

Loewer, 2010, Large intergenic non-coding RNA-RoR modulates reprogramming of human, Nat. Genet., 42, 1113, 10.1038/ng.710

Mandalos, 2014, Sox2 acts as a rheostat of epithelial to mesenchymal transition during neural crest development, Front. Physiol., 5, 345, 10.3389/fphys.2014.00345

Massion, 2002, Genomic copy number analysis of non-small cell lung cancer using array comparative genomic hybridization: implications of the phosphatidylinositol 3-kinase pathway, Cancer Res., 62, 3636

Meng, 2015, Towards a therapy for Angelman syndrome by targeting a long non-coding RNA, Nature, 518, 409, 10.1038/nature13975

Mercer, 2009, Long non-coding RNAs: insights into functions, Nat. Rev. Genet., 10, 155, 10.1038/nrg2521

Mercer, 2008, Specific expression of long noncoding RNAs in the mouse brain, Proc. Natl. Acad. Sci. U.S.A., 105, 716, 10.1073/pnas.0706729105

Mikkelsen, 2007, Genomewide maps of chromatin state in pluripotent and lineage-committed cells, Nature, 448, 553, 10.1038/nature06008

Ng, 2013, The long noncoding RNA RMST interacts with SOX2 to regulate neurogenesis, Mol. Cell, 51, 349, 10.1016/j.molcel.2013.07.017

Ng, 2011, Human long non-coding RNAs promote pluripotency and neuronal differentiation by association with chromatin modifiers and transcription factors, EMBO J., 31, 522, 10.1038/emboj.2011.459

Numata, 2003, Identification of putative noncoding RNAs among the RIKEN mouse full-length cDNA collection, Genome Res., 13, 1301, 10.1101/gr.1011603

Perez, 2007, Long, abundantly expressed non-coding transcripts are altered in cancer, Hum. Mol. Genet., 17, 642, 10.1093/hmg/ddm336

Prensner, 2011, The emergence of lncRNAs in cancer biology, Cancer Discov., 1, 391, 10.1158/2159-8290.CD-11-0209

Rodriguez-Pinilla, 2007, Sox2: a possible driver of the basal-like phenotype in sporadic breast cancer, Mod. Pathol., 20, 474, 10.1038/modpathol.3800760

Sanada, 2006, Histopathologic evaluation of stepwise progression of pancreatic carcinoma with immunohistochemical analysis of gastric epithelial transcription factor SOX2: comparison of expression patterns between invasive components and cancerous or nonneoplastic intraductal components, Pancreas, 32, 164, 10.1097/01.mpa.0000202947.80117.a0

Sattler, 2000, Novel amplification unit at chromosome 3q25–q27 in human prostate cancer, Prostate, 45, 207, 10.1002/1097-0045(20001101)45:3207::AID-PROS23.0.CO;2-H

Shahryari, 2014, Two novel splice variants of SOX2OT, SOX2OT-S1, and SOX2OT-S2 are coupregulated with SOX2 and OCT4 in esophageal squamous cell carcinoma, Stem Cells, 32, 126, 10.1002/stem.1542

Simons, 2006, Transposon free regions in mammalian genomes, Genome Res., 16, 164, 10.1101/gr.4624306

Takahashi, 2007, Induction of pluripotent stem cells from adult human fibroblasts by defined factors, Cell, 131, 861, 10.1016/j.cell.2007.11.019

Takahashi, 2006, Induction of pluripotent stem cells from mouse embryonic and adult fibroblast cultures by defined factors, Cell, 126, 663, 10.1016/j.cell.2006.07.024

Wang, 2011, Molecular mechanisms of long noncoding RNAs, Mol. Cell, 43, 904, 10.1016/j.molcel.2011.08.018

Yap, 2010, Molecular interplay of the noncoding RNA ANRIL and methylated histone H3 lysine 27 by polycomb CBX7 in transcriptional silencing of INK4a, Mol. Cell., 38, 662, 10.1016/j.molcel.2010.03.021

Yu, 2008, Epigenetic silencing of tumour suppressor gene p15 by its antisense RNA, Nature, 451, 202, 10.1038/nature06468