TY - JOUR AU - Li, B. AU - Carey, M. AU - Workman, J. L. PY - 2007 DA - 2007// TI - The role of chromatin during transcription JO - Cell VL - 128 UR - https://doi.org/10.1016/j.cell.2007.01.015 DO - 10.1016/j.cell.2007.01.015 ID - Li2007 ER - TY - JOUR AU - Luger, K. PY - 2003 DA - 2003// TI - Structure and dynamic behavior of nucleosomes JO - Curr Opin Genet Dev VL - 13 UR - https://doi.org/10.1016/S0959-437X(03)00026-1 DO - 10.1016/S0959-437X(03)00026-1 ID - Luger2003 ER - TY - JOUR AU - Xu, D. AU - Bai, J. AU - Duan, Q. AU - Costa, M. AU - Dai, W. PY - 2009 DA - 2009// TI - Covalent modifications of histones during mitosis and meiosis JO - Cell Cycle VL - 8 UR - https://doi.org/10.4161/cc.8.22.9908 DO - 10.4161/cc.8.22.9908 ID - Xu2009 ER - TY - JOUR AU - Bannister, A. J. AU - Kouzarides, T. PY - 2011 DA - 2011// TI - Regulation of chromatin by histone modifications JO - Cell Res VL - 21 UR - https://doi.org/10.1038/cr.2011.22 DO - 10.1038/cr.2011.22 ID - Bannister2011 ER - TY - JOUR AU - Alabert, C. AU - Groth, A. PY - 2012 DA - 2012// TI - Chromatin replication and epigenome maintenance JO - Nat Rev Mol Cell Biol VL - 13 UR - https://doi.org/10.1038/nrm3288 DO - 10.1038/nrm3288 ID - Alabert2012 ER - TY - JOUR AU - Portela, A. AU - Esteller, M. PY - 2010 DA - 2010// TI - Epigenetic modifications and human disease JO - Nat Biotechnol VL - 28 UR - https://doi.org/10.1038/nbt.1685 DO - 10.1038/nbt.1685 ID - Portela2010 ER - TY - JOUR AU - Chi, P. AU - Allis, C. D. AU - Wang, G. G. PY - 2010 DA - 2010// TI - Covalent histone modifications–miswritten, misinterpreted and mis-erased in human cancers JO - Nat Rev Cancer VL - 10 UR - https://doi.org/10.1038/nrc2876 DO - 10.1038/nrc2876 ID - Chi2010 ER - TY - JOUR AU - Kamakaka, R. T. AU - Biggins, S. PY - 2005 DA - 2005// TI - Histone variants: deviants? JO - Genes Dev VL - 19 UR - https://doi.org/10.1101/gad.1272805 DO - 10.1101/gad.1272805 ID - Kamakaka2005 ER - TY - JOUR AU - Weber, C. M. AU - Henikoff, S. PY - 2014 DA - 2014// TI - Histone variants: dynamic punctuation in transcription JO - Genes Dev VL - 28 UR - https://doi.org/10.1101/gad.238873.114 DO - 10.1101/gad.238873.114 ID - Weber2014 ER - TY - JOUR AU - Adam, M. AU - Robert, F. AU - Larochelle, M. AU - Gaudreau, L. PY - 2001 DA - 2001// TI - H2A.Z is required for global chromatin integrity and for recruitment of RNA polymerase II under specific conditions JO - Mol Cell Biol VL - 21 UR - https://doi.org/10.1128/MCB.21.18.6270-6279.2001 DO - 10.1128/MCB.21.18.6270-6279.2001 ID - Adam2001 ER - TY - JOUR AU - Barski, A. AU - Cuddapah, S. AU - Cui, K. AU - Roh, T. Y. AU - Schones, D. E. AU - Wang, Z. PY - 2007 DA - 2007// TI - High-resolution profiling of histone methylations in the human genome JO - Cell VL - 129 UR - https://doi.org/10.1016/j.cell.2007.05.009 DO - 10.1016/j.cell.2007.05.009 ID - Barski2007 ER - TY - JOUR AU - Guillemette, B. AU - Bataille, A. R. AU - Gevry, N. AU - Adam, M. AU - Blanchette, M. AU - Robert, F. PY - 2005 DA - 2005// TI - Variant histone H2A.Z is globally localized to the promoters of inactive yeast genes and regulates nucleosome positioning JO - PLoS Biol VL - 3 UR - https://doi.org/10.1371/journal.pbio.0030384 DO - 10.1371/journal.pbio.0030384 ID - Guillemette2005 ER - TY - JOUR AU - Santisteban, M. S. AU - Kalashnikova, T. AU - Smith, M. M. PY - 2000 DA - 2000// TI - Histone H2A.Z regulates transcription and is partially redundant with nucleosome remodeling complexes JO - Cell VL - 103 UR - https://doi.org/10.1016/S0092-8674(00)00133-1 DO - 10.1016/S0092-8674(00)00133-1 ID - Santisteban2000 ER - TY - JOUR AU - Zhang, H. AU - Roberts, D. N. AU - Cairns, B. R. PY - 2005 DA - 2005// TI - Genome-wide dynamics of Htz1, a histone H2A variant that poises repressed/basal promoters for activation through histone loss JO - Cell VL - 123 UR - https://doi.org/10.1016/j.cell.2005.08.036 DO - 10.1016/j.cell.2005.08.036 ID - Zhang2005 ER - TY - JOUR AU - Raisner, R. M. AU - Hartley, P. D. AU - Meneghini, M. D. AU - Bao, M. Z. AU - Liu, C. L. AU - Schreiber, S. L. PY - 2005 DA - 2005// TI - Histone variant H2A.Z marks the 5′ ends of both active and inactive genes in euchromatin JO - Cell VL - 123 UR - https://doi.org/10.1016/j.cell.2005.10.002 DO - 10.1016/j.cell.2005.10.002 ID - Raisner2005 ER - TY - JOUR AU - Ku, M. AU - Jaffe, J. D. AU - Koche, R. P. AU - Rheinbay, E. AU - Endoh, M. AU - Koseki, H. PY - 2012 DA - 2012// TI - H2A.Z landscapes and dual modifications in pluripotent and multipotent stem cells underlie complex genome regulatory functions JO - Genome Biol VL - 13 UR - https://doi.org/10.1186/gb-2012-13-10-r85 DO - 10.1186/gb-2012-13-10-r85 ID - Ku2012 ER - TY - JOUR AU - Hu, G. AU - Cui, K. AU - Northrup, D. AU - Liu, C. AU - Wang, C. AU - Tang, Q. PY - 2013 DA - 2013// TI - H2A.Z facilitates access of active and repressive complexes to chromatin in embryonic stem cell self-renewal and differentiation JO - Cell Stem Cell VL - 12 UR - https://doi.org/10.1016/j.stem.2012.11.003 DO - 10.1016/j.stem.2012.11.003 ID - Hu2013 ER - TY - JOUR AU - Mito, Y. AU - Henikoff, J. G. AU - Henikoff, S. PY - 2005 DA - 2005// TI - Genome-scale profiling of histone H3.3 replacement patterns JO - Nat Genet VL - 37 UR - https://doi.org/10.1038/ng1637 DO - 10.1038/ng1637 ID - Mito2005 ER - TY - JOUR AU - Mito, Y. AU - Henikoff, J. G. AU - Henikoff, S. PY - 2007 DA - 2007// TI - Histone replacement marks the boundaries of cis-regulatory domains JO - Science VL - 315 UR - https://doi.org/10.1126/science.1134004 DO - 10.1126/science.1134004 ID - Mito2007 ER - TY - JOUR AU - Ahmad, K. AU - Henikoff, S. PY - 2002 DA - 2002// TI - The histone variant H3.3 marks active chromatin by replication-independent nucleosome assembly JO - Mol Cell VL - 9 UR - https://doi.org/10.1016/S1097-2765(02)00542-7 DO - 10.1016/S1097-2765(02)00542-7 ID - Ahmad2002 ER - TY - JOUR AU - Goldberg, A. D. AU - Banaszynski, L. A. AU - Noh, K. M. AU - Lewis, P. W. AU - Elsaesser, S. J. AU - Stadler, S. PY - 2010 DA - 2010// TI - Distinct factors control histone variant H3.3 localization at specific genomic regions JO - Cell VL - 140 UR - https://doi.org/10.1016/j.cell.2010.01.003 DO - 10.1016/j.cell.2010.01.003 ID - Goldberg2010 ER - TY - JOUR AU - Ray-Gallet, D. AU - Woolfe, A. AU - Vassias, I. AU - Pellentz, C. AU - Lacoste, N. AU - Puri, A. PY - 2011 DA - 2011// TI - Dynamics of histone H3 deposition in vivo reveal a nucleosome gap-filling mechanism for H3.3 to maintain chromatin integrity JO - Mol Cell VL - 44 UR - https://doi.org/10.1016/j.molcel.2011.12.006 DO - 10.1016/j.molcel.2011.12.006 ID - Ray-Gallet2011 ER - TY - JOUR AU - Jin, C. AU - Zang, C. AU - Wei, G. AU - Cui, K. AU - Peng, W. AU - Zhao, K. PY - 2009 DA - 2009// TI - H3.3/H2A.Z double variant-containing nucleosomes mark ‘nucleosome-free regions’ of active promoters and other regulatory regions JO - Nat Genet VL - 41 UR - https://doi.org/10.1038/ng.409 DO - 10.1038/ng.409 ID - Jin2009 ER - TY - JOUR AU - Changolkar, L. N. AU - Pehrson, J. R. PY - 2006 DA - 2006// TI - macroH2A1 histone variants are depleted on active genes but concentrated on the inactive X chromosome JO - Mol Cell Biol VL - 26 UR - https://doi.org/10.1128/MCB.02258-05 DO - 10.1128/MCB.02258-05 ID - Changolkar2006 ER - TY - JOUR AU - Costanzi, C. AU - Pehrson, J. R. PY - 1998 DA - 1998// TI - Histone macroH2A1 is concentrated in the inactive X chromosome of female mammals JO - Nature VL - 393 UR - https://doi.org/10.1038/31275 DO - 10.1038/31275 ID - Costanzi1998 ER - TY - JOUR AU - Gamble, M. J. AU - Frizzell, K. M. AU - Yang, C. AU - Krishnakumar, R. AU - Kraus, W. L. PY - 2010 DA - 2010// TI - The histone variant macroH2A1 marks repressed autosomal chromatin, but protects a subset of its target genes from silencing JO - Genes Dev VL - 24 UR - https://doi.org/10.1101/gad.1876110 DO - 10.1101/gad.1876110 ID - Gamble2010 ER - TY - JOUR AU - LeRoy, G. AU - Chepelev, I. AU - DiMaggio, P. A. AU - Blanco, M. A. AU - Zee, B. M. AU - Zhao, K. PY - 2012 DA - 2012// TI - Proteogenomic characterization and mapping of nucleosomes decoded by Brd and HP1 proteins JO - Genome Biol VL - 13 UR - https://doi.org/10.1186/gb-2012-13-8-r68 DO - 10.1186/gb-2012-13-8-r68 ID - LeRoy2012 ER - TY - JOUR AU - Wang, Z. AU - Zang, C. AU - Rosenfeld, J. A. AU - Schones, D. E. AU - Barski, A. AU - Cuddapah, S. PY - 2008 DA - 2008// TI - Combinatorial patterns of histone acetylations and methylations in the human genome JO - Nat Genet VL - 40 UR - https://doi.org/10.1038/ng.154 DO - 10.1038/ng.154 ID - Wang2008 ER - TY - JOUR AU - LeRoy, G. AU - Rickards, B. AU - Flint, S. J. PY - 2008 DA - 2008// TI - The double bromodomain proteins Brd2 and Brd3 couple histone acetylation to transcription JO - Mol Cell VL - 30 UR - https://doi.org/10.1016/j.molcel.2008.01.018 DO - 10.1016/j.molcel.2008.01.018 ID - LeRoy2008 ER - TY - JOUR AU - Tolstorukov, M. Y. AU - Kharchenko, P. V. AU - Goldman, J. A. AU - Kingston, R. E. AU - Park, P. J. PY - 2009 DA - 2009// TI - Comparative analysis of H2A.Z nucleosome organization in the human and yeast genomes JO - Genome Res VL - 19 UR - https://doi.org/10.1101/gr.084830.108 DO - 10.1101/gr.084830.108 ID - Tolstorukov2009 ER - TY - JOUR AU - Kaplan, N. AU - Moore, I. K. AU - Fondufe-Mittendorf, Y. AU - Gossett, A. J. AU - Tillo, D. AU - Field, Y. PY - 2009 DA - 2009// TI - The DNA-encoded nucleosome organization of a eukaryotic genome JO - Nature VL - 458 UR - https://doi.org/10.1038/nature07667 DO - 10.1038/nature07667 ID - Kaplan2009 ER - TY - JOUR AU - Tolstorukov, M. Y. AU - Goldman, J. A. AU - Gilbert, C. AU - Ogryzko, V. AU - Kingston, R. E. AU - Park, P. J. PY - 2012 DA - 2012// TI - Histone variant H2A.Bbd is associated with active transcription and mRNA processing in human cells JO - Mol Cell VL - 47 UR - https://doi.org/10.1016/j.molcel.2012.06.011 DO - 10.1016/j.molcel.2012.06.011 ID - Tolstorukov2012 ER - TY - JOUR PY - 2012 DA - 2012// TI - An integrated encyclopedia of DNA elements in the human genome JO - Nature VL - 489 UR - https://doi.org/10.1038/nature11247 DO - 10.1038/nature11247 ID - ref33 ER - TY - JOUR AU - Song, L. AU - Crawford, G. E. PY - 2010 DA - 2010// TI - DNase-seq: a high-resolution technique for mapping active gene regulatory elements across the genome from mammalian cells JO - Cold Spring Harb Protoc ID - Song2010 ER - TY - JOUR AU - Heinz, S. AU - Benner, C. AU - Spann, N. AU - Bertolino, E. AU - Lin, Y. C. AU - Laslo, P. PY - 2010 DA - 2010// TI - Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities JO - Mol Cell VL - 38 UR - https://doi.org/10.1016/j.molcel.2010.05.004 DO - 10.1016/j.molcel.2010.05.004 ID - Heinz2010 ER - TY - JOUR AU - Creyghton, M. P. AU - Cheng, A. W. AU - Welstead, G. G. AU - Kooistra, T. AU - Carey, B. W. AU - Steine, E. J. PY - 2010 DA - 2010// TI - Histone H3K27ac separates active from poised enhancers and predicts developmental state JO - Proc Natl Acad Sci U S A VL - 107 UR - https://doi.org/10.1073/pnas.1016071107 DO - 10.1073/pnas.1016071107 ID - Creyghton2010 ER - TY - JOUR AU - Heintzman, N. D. AU - Stuart, R. K. AU - Hon, G. AU - Fu, Y. AU - Ching, C. W. AU - Hawkins, R. D. PY - 2007 DA - 2007// TI - Distinct and predictive chromatin signatures of transcriptional promoters and enhancers in the human genome JO - Nat Genet VL - 39 UR - https://doi.org/10.1038/ng1966 DO - 10.1038/ng1966 ID - Heintzman2007 ER - TY - JOUR AU - May, D. AU - Blow, M. J. AU - Kaplan, T. AU - McCulley, D. J. AU - Jensen, B. C. AU - Akiyama, J. A. PY - 2011 DA - 2011// TI - Large-scale discovery of enhancers from human heart tissue JO - Nat Genet VL - 44 UR - https://doi.org/10.1038/ng.1006 DO - 10.1038/ng.1006 ID - May2011 ER - TY - JOUR AU - Andersson, R. AU - Refsing Andersen, P. AU - Valen, E. AU - Core, L. J. AU - Bornholdt, J. AU - Boyd, M. PY - 2014 DA - 2014// TI - Nuclear stability and transcriptional directionality separate functionally distinct RNA species JO - Nat Commun VL - 5 UR - https://doi.org/10.1038/ncomms6336 DO - 10.1038/ncomms6336 ID - Andersson2014 ER - TY - JOUR AU - Wang, D. AU - Garcia-Bassets, I. AU - Benner, C. AU - Li, W. AU - Su, X. AU - Zhou, Y. PY - 2011 DA - 2011// TI - Reprogramming transcription by distinct classes of enhancers functionally defined by eRNA JO - Nature VL - 474 UR - https://doi.org/10.1038/nature10006 DO - 10.1038/nature10006 ID - Wang2011 ER - TY - JOUR AU - Kim, T. K. AU - Hemberg, M. AU - Gray, J. M. AU - Costa, A. M. AU - Bear, D. M. AU - Wu, J. PY - 2010 DA - 2010// TI - Widespread transcription at neuronal activity-regulated enhancers JO - Nature VL - 465 UR - https://doi.org/10.1038/nature09033 DO - 10.1038/nature09033 ID - Kim2010 ER - TY - JOUR AU - Jin, C. AU - Felsenfeld, G. PY - 2007 DA - 2007// TI - Nucleosome stability mediated by histone variants H3.3 and H2A.Z JO - Genes Dev VL - 21 UR - https://doi.org/10.1101/gad.1547707 DO - 10.1101/gad.1547707 ID - Jin2007 ER - TY - JOUR AU - Phillips, J. E. AU - Corces, V. G. PY - 2009 DA - 2009// TI - CTCF: master weaver of the genome JO - Cell VL - 137 UR - https://doi.org/10.1016/j.cell.2009.06.001 DO - 10.1016/j.cell.2009.06.001 ID - Phillips2009 ER - TY - JOUR AU - Won, K. J. AU - Chepelev, I. AU - Ren, B. AU - Wang, W. PY - 2008 DA - 2008// TI - Prediction of regulatory elements in mammalian genomes using chromatin signatures JO - BMC Bioinformatics VL - 9 UR - https://doi.org/10.1186/1471-2105-9-547 DO - 10.1186/1471-2105-9-547 ID - Won2008 ER - TY - JOUR AU - Won, K. J. AU - Ren, B. AU - Wang, W. PY - 2010 DA - 2010// TI - Genome-wide prediction of transcription factor binding sites using an integrated model JO - Genome Biol VL - 11 UR - https://doi.org/10.1186/gb-2010-11-1-r7 DO - 10.1186/gb-2010-11-1-r7 ID - Won2010 ER - TY - JOUR AU - Andersson, R. AU - Gebhard, C. AU - Miguel-Escalada, I. AU - Hoof, I. AU - Bornholdt, J. AU - Boyd, M. PY - 2014 DA - 2014// TI - An atlas of active enhancers across human cell types and tissues JO - Nature VL - 507 UR - https://doi.org/10.1038/nature12787 DO - 10.1038/nature12787 ID - Andersson2014 ER - TY - JOUR AU - Banerji, J. AU - Rusconi, S. AU - Schaffner, W. PY - 1981 DA - 1981// TI - Expression of a beta-globin gene is enhanced by remote SV40 DNA sequences JO - Cell VL - 27 UR - https://doi.org/10.1016/0092-8674(81)90413-X DO - 10.1016/0092-8674(81)90413-X ID - Banerji1981 ER - TY - JOUR AU - Kundaje, A. AU - Kyriazopoulou-Panagiotopoulou, S. AU - Libbrecht, M. AU - Smith, C. L. AU - Raha, D. AU - Winters, E. E. PY - 2012 DA - 2012// TI - Ubiquitous heterogeneity and asymmetry of the chromatin environment at regulatory elements JO - Genome Res VL - 22 UR - https://doi.org/10.1101/gr.136366.111 DO - 10.1101/gr.136366.111 ID - Kundaje2012 ER - TY - JOUR AU - Lai, W. K. AU - Buck, M. J. PY - 2010 DA - 2010// TI - ArchAlign: coordinate-free chromatin alignment reveals novel architectures JO - Genome Biol VL - 11 UR - https://doi.org/10.1186/gb-2010-11-12-r126 DO - 10.1186/gb-2010-11-12-r126 ID - Lai2010 ER - TY - JOUR AU - Nielsen, F. G. AU - Markus, K. G. AU - Friborg, R. M. AU - Favrholdt, L. M. AU - Stunnenberg, H. G. AU - Huynen, M. PY - 2012 DA - 2012// TI - CATCHprofiles: clustering and alignment tool for ChIP profiles JO - PLoS One VL - 7 UR - https://doi.org/10.1371/journal.pone.0028272 DO - 10.1371/journal.pone.0028272 ID - Nielsen2012 ER - TY - JOUR AU - Li, W. AU - Notani, D. AU - Ma, Q. AU - Tanasa, B. AU - Nunez, E. AU - Chen, A. Y. PY - 2013 DA - 2013// TI - Functional roles of enhancer RNAs for oestrogen-dependent transcriptional activation JO - Nature VL - 498 UR - https://doi.org/10.1038/nature12210 DO - 10.1038/nature12210 ID - Li2013 ER - TY - JOUR AU - Min, I. M. AU - Waterfall, J. J. AU - Core, L. J. AU - Munroe, R. J. AU - Schimenti, J. AU - Lis, J. T. PY - 2011 DA - 2011// TI - Regulating RNA polymerase pausing and transcription elongation in embryonic stem cells JO - Genes Dev VL - 25 UR - https://doi.org/10.1101/gad.2005511 DO - 10.1101/gad.2005511 ID - Min2011 ER - TY - JOUR AU - Core, L. J. AU - Waterfall, J. J. AU - Lis, J. T. PY - 2008 DA - 2008// TI - Nascent RNA sequencing reveals widespread pausing and divergent initiation at human promoters JO - Science VL - 322 UR - https://doi.org/10.1126/science.1162228 DO - 10.1126/science.1162228 ID - Core2008 ER - TY - JOUR AU - Lam, M. T. AU - Cho, H. AU - Lesch, H. P. AU - Gosselin, D. AU - Heinz, S. AU - Tanaka-Oishi, Y. PY - 2013 DA - 2013// TI - Rev-Erbs repress macrophage gene expression by inhibiting enhancer-directed transcription JO - Nature VL - 498 UR - https://doi.org/10.1038/nature12209 DO - 10.1038/nature12209 ID - Lam2013 ER - TY - JOUR AU - Bargaje, R. AU - Alam, M. P. AU - Patowary, A. AU - Sarkar, M. AU - Ali, T. AU - Gupta, S. PY - 2012 DA - 2012// TI - Proximity of H2A.Z containing nucleosome to the transcription start site influences gene expression levels in the mammalian liver and brain JO - Nucleic Acids Res VL - 40 UR - https://doi.org/10.1093/nar/gks665 DO - 10.1093/nar/gks665 ID - Bargaje2012 ER - TY - JOUR AU - Mavrich, T. N. AU - Jiang, C. AU - Ioshikhes, I. P. AU - Li, X. AU - Venters, B. J. AU - Zanton, S. J. PY - 2008 DA - 2008// TI - Nucleosome organization in the Drosophila genome JO - Nature VL - 453 UR - https://doi.org/10.1038/nature06929 DO - 10.1038/nature06929 ID - Mavrich2008 ER - TY - JOUR AU - Zilberman, D. AU - Coleman-Derr, D. AU - Ballinger, T. AU - Henikoff, S. PY - 2008 DA - 2008// TI - Histone H2A.Z and DNA methylation are mutually antagonistic chromatin marks JO - Nature VL - 456 UR - https://doi.org/10.1038/nature07324 DO - 10.1038/nature07324 ID - Zilberman2008 ER - TY - JOUR AU - Xu, Z. AU - Wei, W. AU - Gagneur, J. AU - Perocchi, F. AU - Clauder-Munster, S. AU - Camblong, J. PY - 2009 DA - 2009// TI - Bidirectional promoters generate pervasive transcription in yeast JO - Nature VL - 457 UR - https://doi.org/10.1038/nature07728 DO - 10.1038/nature07728 ID - Xu2009 ER - TY - JOUR AU - Weber, C. M. AU - Ramachandran, S. AU - Henikoff, S. PY - 2014 DA - 2014// TI - Nucleosomes are context-specific, H2A.Z-modulated barriers to RNA polymerase JO - Mol Cell VL - 53 UR - https://doi.org/10.1016/j.molcel.2014.02.014 DO - 10.1016/j.molcel.2014.02.014 ID - Weber2014 ER - TY - JOUR AU - Blackwood, E. M. AU - Kadonaga, J. T. PY - 1998 DA - 1998// TI - Going the distance: a current view of enhancer action JO - Science VL - 281 UR - https://doi.org/10.1126/science.281.5373.60 DO - 10.1126/science.281.5373.60 ID - Blackwood1998 ER - TY - JOUR AU - Krivega, I. AU - Dean, A. PY - 2012 DA - 2012// TI - Enhancer and promoter interactions-long distance calls JO - Curr Opin Genet Dev VL - 22 UR - https://doi.org/10.1016/j.gde.2011.11.001 DO - 10.1016/j.gde.2011.11.001 ID - Krivega2012 ER - TY - JOUR AU - Zhang, Y. AU - Wong, C. H. AU - Birnbaum, R. Y. AU - Li, G. AU - Favaro, R. AU - Ngan, C. Y. PY - 2013 DA - 2013// TI - Chromatin connectivity maps reveal dynamic promoter-enhancer long-range associations JO - Nature VL - 504 UR - https://doi.org/10.1038/nature12716 DO - 10.1038/nature12716 ID - Zhang2013 ER - TY - JOUR AU - Langmead, B. AU - Trapnell, C. AU - Pop, M. AU - Salzberg, S. L. PY - 2009 DA - 2009// TI - Ultrafast and memory-efficient alignment of short DNA sequences to the human genome JO - Genome Biol VL - 10 UR - https://doi.org/10.1186/gb-2009-10-3-r25 DO - 10.1186/gb-2009-10-3-r25 ID - Langmead2009 ER - TY - JOUR AU - Mortazavi, A. AU - Williams, B. A. AU - McCue, K. AU - Schaeffer, L. AU - Wold, B. PY - 2008 DA - 2008// TI - Mapping and quantifying mammalian transcriptomes by RNA-Seq JO - Nat Methods VL - 5 UR - https://doi.org/10.1038/nmeth.1226 DO - 10.1038/nmeth.1226 ID - Mortazavi2008 ER - TY - JOUR AU - Harrow, J. AU - Frankish, A. AU - Gonzalez, J. M. AU - Tapanari, E. AU - Diekhans, M. AU - Kokocinski, F. PY - 2012 DA - 2012// TI - GENCODE: the reference human genome annotation for The ENCODE Project JO - Genome Res VL - 22 UR - https://doi.org/10.1101/gr.135350.111 DO - 10.1101/gr.135350.111 ID - Harrow2012 ER - TY - JOUR AU - Saeed, A. I. AU - Bhagabati, N. K. AU - Braisted, J. C. AU - Liang, W. AU - Sharov, V. AU - Howe, E. A. PY - 2006 DA - 2006// TI - TM4 microarray software suite JO - Methods Enzymol VL - 411 UR - https://doi.org/10.1016/S0076-6879(06)11009-5 DO - 10.1016/S0076-6879(06)11009-5 ID - Saeed2006 ER -