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Editorial

Toward Integrative Annotation of Cell Type-Specific Epigenomes to Better Understand Human Biology and Disease

Pages 519-521 | Published online: 25 Jun 2015

References

  • Romanoski CE , GlassCK , StunnenbergHGet al. Epigenomics: roadmap for regulation . Nature518 ( 7539 ), 314 – 316 ( 2015 ).
  • Roadmap Epigenomics Consortium , KundajeA , MeulemanWet al.Integrative analysis of 111 reference human epigenomes . Nature518 ( 7539 ), 317 – 330 ( 2015 ).
  • Siersbæk R , RabieeA , NielsenRet al. Transcription factor cooperativity in early adipogenic hotspots and super-enhancers . Cell Rep.7 ( 5 ), 1443 – 1455 ( 2014 ).
  • Ziller MJ , EdriR , YaffeYet al. Dissecting neural differentiation regulatory networks through epigenetic footprinting . Nature518 ( 7539 ), 355 – 359 ( 2015 ).
  • Whyte WA , OrlandoDA , HniszDet al. Master transcription factors and mediator establish super-enhancers at key cell identity genes . Cell153 ( 2 ), 307 – 319 ( 2013 ).
  • Hnisz D , AbrahamBJ , LeeTIet al. Super-enhancers in the control of cell identity and disease . Cell155 ( 4 ), 934 – 947 ( 2013 ).
  • Siersbæk R , BaekS , RabieeAet al. Molecular architecture of transcription factor hotspots in early adipogenesis . Cell Rep.7 ( 5 ), 1434 – 1442 ( 2014 ).
  • Tsankov AM , GuH , AkopianVet al. Transcription factor binding dynamics during human ES cell differentiation . Nature518 ( 7539 ), 344 – 349 ( 2015 ).
  • Liu Z , MerkurjevD , YangFet al. Enhancer activation requires trans-recruitment of a mega transcription factor complex . Cell159 ( 2 ), 358 – 373 ( 2014 ).
  • Xie X , RigorP , BaldiP . MotifMap: a human genome-wide map of candidate regulatory motif sites . Bioinformatics25 ( 2 ), 167 – 174 ( 2009 ).
  • Heidari N , PhanstielDH , HeCet al. Genome-wide map of regulatory interactions in the human genome . Genome Res.24 ( 12 ), 1905 – 1917 ( 2014 ).
  • Schoenfelder S , Furlan-MagarilM , MifsudBet al. The pluripotent regulatory circuitry connecting promoters to their long-range interacting elements . Genome Res.25 ( 4 ), 582 – 597 ( 2015 ).
  • Dixon JR , SelvarajS , YueFet al. Topological domains in mammalian genomes identified by analysis of chromatin interactions . Nature485 ( 7398 ), 376 – 380 ( 2012 ).
  • Rao SS , HuntleyMH , DurandNCet al. A 3D map of the human genome at kilobase resolution reveals principles of chromatin looping . Cell159 ( 7 ), 1665 – 1680 ( 2014 ).
  • Dowen JM , FanZP , HniszDet al. Control of cell identity genes occurs in insulated neighborhoods in mammalian chromosomes . Cell159 ( 2 ), 374 – 387 ( 2014 ).
  • Vietri Rudan M , BarringtonC , HendersonSet al. Comparative Hi-C reveals that CTCF underlies evolution of chromosomal domain architecture . Cell Rep.10 ( 8 ), 1297 – 1309 ( 2015 ).
  • Cuadrado A , RemeseiroS , GrañaOet al. The contribution of cohesin-SA1 to gene expression and chromatin architecture in two murine tissues . Nucleic Acids Res.43 ( 6 ), 3056 – 3067 ( 2015 ).
  • Dixon JR , JungI , SelvarajSet al. Chromatin architecture reorganization during stem cell differentiation . Nature518 ( 7539 ), 331 – 336 ( 2015 ).
  • Babaei S , AkhtarW , de JongJet al. 3D hotspots of recurrent retroviral insertions reveal long-range interactions with cancer genes . Nat. Commun.6 , 6381 ( 2015 ).
  • Amin V , HarrisRA , OnuchicVet al. Epigenomic footprints across 111 reference epigenomes reveal tissue-specific epigenetic regulation of lincRNAs . Nat. Commun.6 , 6370 ( 2015 ).
  • Leung D , JungI , RajagopalNet al. Integrative analysis of haplotype-resolved epigenomes across human tissues . Nature518 ( 7539 ), 350 – 354 ( 2015 ).
  • Farh KK , MarsonA , ZhuJet al. Genetic and epigenetic fine mapping of causal autoimmune disease variants . Nature518 ( 7539 ), 337 – 343 ( 2015 ).
  • Wijetunga NA , DelahayeF , ZhaoYMet al. The meta-epigenomic structure of purified human stem cell populations is defined at cis-regulatory sequences . Nat. Commun.5 , 5195 ( 2014 ).

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