References
- Chatterton Z , BurkeD , EmslieKRet al. Validation of DNA methylation biomarkers for diagnosis of acute lymphoblastic leukemia . Clin. Chem.60 ( 7 ), 995 – 1003 ( 2014 ).
- Figueroa ME , ChenSC , AnderssonAKet al. Integrated genetic and epigenetic analysis of childhood acute lymphoblastic leukemia . J. Clin. Invest.123 ( 7 ), 3099 – 3111 ( 2013 ).
- Berdasco M , EstellerM . Aberrant epigenetic landscape in cancer: how cellular identity goes awry . Dev. Cell19 ( 5 ), 698 – 711 ( 2010 ).
- Nordlund J , BacklinCL , ZachariadisVet al. DNA methylation-based subtype prediction for pediatric acute lymphoblastic leukemia . Clin. Epigenetics7 ( 1 ), 11 ( 2015 ).
- Gutschner T , DiederichsS . The hallmarks of cancer: a long non-coding RNA point of view . RNA Biol.9 ( 6 ), 703 – 719 ( 2012 ).
- Huarte M , RinnJL . Large non-coding RNAs: missing links in cancer?Hum. Mol. Genet.19 ( R2 ), R152 – R161 ( 2010 ).
- Guttman M , RinnJL . Modular regulatory principles of large non-coding RNAs . Nature482 ( 7385 ), 339 – 346 ( 2012 ).
- Mercer TR , MattickJS . Structure and function of long noncoding RNAs in epigenetic regulation . Nat. Struct. Mol. Biol.20 ( 3 ), 300 – 307 ( 2013 ).
- Gupta RA , ShahN , WangKCet al. Long non-coding RNA HOTAIR reprograms chromatin state to promote cancer metastasis . Nature464 ( 7291 ), 1071 – 1076 ( 2010 ).
- Almamun M , LevinsonBT , Van SwaayACet al. Integrated methylome and transcriptome analysis reveals novel regulatory elements in pediatric acute lymphoblastic leukemia . Epigenetics10 ( 9 ), 882 – 890 ( 2015 ).
- Pelechano V , SteinmetzLM . Gene regulation by antisense transcription . Nat. Rev. Genet.14 ( 12 ), 880 – 893 ( 2013 ).
- Katayama S , TomaruY , KasukawaTet al. Antisense transcription in the mammalian transcriptome . Science309 ( 5740 ), 1564 – 1566 ( 2005 ).
- Hong D , KurzrockR , KimYet al. AZD9150, a next-generation antisense oligonucleotide inhibitor of STAT3 with early evidence of clinical activity in lymphoma and lung cancer . Sci. Transl. Med.7 ( 314 ), 314ra185 ( 2015 ).
- Shearwin KE , CallenBP , EganJB . Transcriptional interference – a crash course . Trends Genet.21 ( 6 ), 339 – 345 ( 2005 ).
- Bulger M , GroudineM . Functional and mechanistic diversity of distal transcription enhancers . Cell144 ( 3 ), 327 – 339 ( 2011 ).
- Andersson R , GebhardC , Miguel-EscaladaIet al. An atlas of active enhancers across human cell types and tissues . Nature507 ( 7493 ), 455 – 461 ( 2014 ).
- Gonzalez I , MunitaR , AgirreEet al. A lncRNA regulates alternative splicing via establishment of a splicing-specific chromatin signature . Nat. Struct. Mol. Biol.22 ( 5 ), 370 – 376 ( 2015 ).
- Almamun M , LevinsonBT , GaterSTet al. Genome-wide DNA methylation analysis in precursor B-cells . Epigenetics9 ( 12 ), 1588 – 1595 ( 2014 ).
- Jung M , KadamS , XiongW , RauchTA , JinSG , PfeiferGP . MIRA-seq for DNA methylation analysis of CpG islands . Epigenomics7 ( 5 ), 695 – 706 ( 2015 ).
- Lorincz MC , DickersonDR , SchmittM , GroudineM . Intragenic DNA methylation alters chromatin structure and elongation efficiency in mammalian cells . Nat. Struct. Mol. Biol.11 ( 11 ), 1068 – 1075 ( 2004 ).
- Maunakea AK , NagarajanRP , BilenkyMet al. Conserved role of intragenic DNA methylation in regulating alternative promoters . Nature466 ( 7303 ), 253 – 257 ( 2010 ).
- Maunakea AK , ChepelevI , CuiK , ZhaoK . Intragenic DNA methylation modulates alternative splicing by recruiting MeCP2 to promote exon recognition . Cell Res.23 ( 11 ), 1256 – 1269 ( 2013 ).
- Collingwood MA , RoseSD , HuangLet al. Chemical modification patterns compatible with high potency dicer-substrate small interfering RNAs . Oligonucleotides18 ( 2 ), 187 – 200 ( 2008 ).