A TAD boundary is preserved upon deletion of the CTCF-rich Firre locus
暂无分享,去创建一个
[1] Anton J. Enright,et al. Genomic positional conservation identifies topological anchor point RNAs linked to developmental loci , 2018, Genome Biology.
[2] John L Rinn,et al. Spatiotemporal allele organization by allele-specific CRISPR live-cell imaging: SNP-CLING , 2017, Nature Structural & Molecular Biology.
[3] Daniel S. Day,et al. YY1 Is a Structural Regulator of Enhancer-Promoter Loops , 2017, Cell.
[4] Leonardo Beccari,et al. The HoxD cluster is a dynamic and resilient TAD boundary controlling the segregation of antagonistic regulatory landscapes , 2017, bioRxiv.
[5] Erez Lieberman Aiden,et al. A Cell type-specific Class of Chromatin Loops Anchored at Large DNA Methylation Nadirs , 2017, bioRxiv.
[6] Jennifer E. Phillips-Cremins,et al. Crossed wires: 3D genome misfolding in human disease , 2017, The Journal of cell biology.
[7] Chris Berdik. Bladder cancer: 4 big questions , 2017, Nature.
[8] Bing Ren,et al. The Three-Dimensional Organization of Mammalian Genomes. , 2017, Annual review of cell and developmental biology.
[9] Erez Lieberman Aiden,et al. Cohesin Loss Eliminates All Loop Domains , 2017, Cell.
[10] Nuno A. Fonseca,et al. Two independent modes of chromatin organization revealed by cohesin removal , 2017, Nature.
[11] Yijun Ruan,et al. Evolutionarily Conserved Principles Predict 3D Chromatin Organization. , 2017, Molecular cell.
[12] F. Pauler,et al. Mapping the mouse Allelome reveals tissue-specific regulation of allelic expression , 2017, eLife.
[13] Sébastien Phan,et al. ChromEMT: Visualizing 3D chromatin structure and compaction in interphase and mitotic cells , 2017, Science.
[14] William Stafford Noble,et al. Orientation-dependent Dxz4 contacts shape the 3D structure of the inactive X chromosome , 2017, Nature Communications.
[15] Job Dekker,et al. Hi-C 2.0: An optimized Hi-C procedure for high-resolution genome-wide mapping of chromosome conformation. , 2017, Methods.
[16] Jennifer E. Phillips-Cremins,et al. YY1 and CTCF orchestrate a 3D chromatin looping switch during early neural lineage commitment , 2017, Genome research.
[17] L. Mirny,et al. Targeted Degradation of CTCF Decouples Local Insulation of Chromosome Domains from Genomic Compartmentalization , 2017, Cell.
[18] Jeannie T. Lee,et al. The X chromosome in space , 2017, Nature Reviews Genetics.
[19] Edith Heard,et al. Novel players in X inactivation: insights into Xist-mediated gene silencing and chromosome conformation , 2017, Nature Structural &Molecular Biology.
[20] Z. Kutalik,et al. cis-Acting Complex-Trait-Associated lincRNA Expression Correlates with Modulation of Chromosomal Architecture. , 2017, Cell reports.
[21] James Taylor,et al. Chromatin States in Mouse Sperm Correlate with Embryonic and Adult Regulatory Landscapes. , 2017, Cell reports.
[22] G. Stein,et al. The connection between BRG1, CTCF and topoisomerases at TAD boundaries , 2017, Nucleus.
[23] Jesse M. Engreitz,et al. Long non-coding RNAs: spatial amplifiers that control nuclear structure and gene expression , 2016, Nature Reviews Molecular Cell Biology.
[24] S. Mundlos,et al. Formation of new chromatin domains determines pathogenicity of genomic duplications , 2016, Nature.
[25] Michael D. Wilson,et al. Topoisomerase II beta interacts with cohesin and CTCF at topological domain borders , 2016, Genome Biology.
[26] Job Dekker,et al. SMARCA4 regulates gene expression and higher-order chromatin structure in proliferating mammary epithelial cells , 2016, Genome research.
[27] Howard Y. Chang,et al. Structural organization of the inactive X chromosome in the mouse , 2016, Nature.
[28] Neva C. Durand,et al. Deletion of DXZ4 on the human inactive X chromosome alters higher-order genome architecture , 2016, Proceedings of the National Academy of Sciences.
[29] James T. Robinson,et al. Juicebox Provides a Visualization System for Hi-C Contact Maps with Unlimited Zoom. , 2016, Cell systems.
[30] Neva C. Durand,et al. Juicer Provides a One-Click System for Analyzing Loop-Resolution Hi-C Experiments. , 2016, Cell systems.
[31] J. Rinn,et al. "Cat's Cradling" the 3D Genome by the Act of LncRNA Transcription. , 2016, Molecular cell.
[32] Jesse R. Dixon,et al. Chromatin Domains: The Unit of Chromosome Organization. , 2016, Molecular cell.
[33] L. Mirny,et al. Formation of Chromosomal Domains in Interphase by Loop Extrusion , 2015, bioRxiv.
[34] Chinmay J. Shukla,et al. Function and evolution of local repeats in the Firre locus , 2016, Nature Communications.
[35] Anton Goloborodko,et al. Compaction and segregation of sister chromatids via active loop extrusion , 2016, bioRxiv.
[36] Jean-Philippe Vert,et al. HiC-Pro: an optimized and flexible pipeline for Hi-C data processing , 2015, Genome Biology.
[37] Peter H. L. Krijger,et al. CTCF Binding Polarity Determines Chromatin Looping. , 2015, Molecular cell.
[38] S. Hadjur,et al. Genetic Tailors: CTCF and Cohesin Shape the Genome During Evolution. , 2015, Trends in genetics : TIG.
[39] Neva C. Durand,et al. Chromatin extrusion explains key features of loop and domain formation in wild-type and engineered genomes , 2015, Proceedings of the National Academy of Sciences.
[40] Judith B. Zaugg,et al. Genetic Control of Chromatin States in Humans Involves Local and Distal Chromosomal Interactions , 2015, Cell.
[41] Michael Q. Zhang,et al. CRISPR Inversion of CTCF Sites Alters Genome Topology and Enhancer/Promoter Function , 2015, Cell.
[42] William Stafford Noble,et al. Bipartite structure of the inactive mouse X chromosome , 2015, Genome Biology.
[43] J. Rinn,et al. Multiplexable, locus-specific targeting of long RNAs with CRISPR-Display , 2015, Nature Methods.
[44] A. Visel,et al. Disruptions of Topological Chromatin Domains Cause Pathogenic Rewiring of Gene-Enhancer Interactions , 2015, Cell.
[45] J. Dekker,et al. Condensin-Driven Remodeling of X-Chromosome Topology during Dosage Compensation , 2015, Nature.
[46] Pedro P. Rocha,et al. CTCF establishes discrete functional chromatin domains at the Hox clusters during differentiation , 2015, Science.
[47] D. Odom,et al. Comparative Hi-C Reveals that CTCF Underlies Evolution of Chromosomal Domain Architecture , 2015, Cell reports.
[48] Jennifer A. Erwin,et al. Locus-specific targeting to the X chromosome revealed by the RNA interactome of CTCF. , 2015, Molecular cell.
[49] Neva C. Durand,et al. A 3D Map of the Human Genome at Kilobase Resolution Reveals Principles of Chromatin Looping , 2014, Cell.
[50] Yanli Wang,et al. Topologically associating domains are stable units of replication-timing regulation , 2014, Nature.
[51] W. Huber,et al. Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2 , 2014, Genome Biology.
[52] Mitchell Guttman,et al. RNA and dynamic nuclear organization , 2014, Science.
[53] Meagan E. Sullender,et al. Rational design of highly active sgRNAs for CRISPR-Cas9–mediated gene inactivation , 2014, Nature Biotechnology.
[54] V. Corces,et al. CTCF: an architectural protein bridging genome topology and function , 2014, Nature Reviews Genetics.
[55] David R. Kelley,et al. Topological organization of multichromosomal regions by the long intergenic noncoding RNA Firre , 2014, Nature Structural &Molecular Biology.
[56] Jennifer E. Phillips-Cremins,et al. Architectural Protein Subclasses Shape 3D Organization of Genomes during Lineage Commitment , 2013, Cell.
[57] K. Niakan,et al. Derivation of extraembryonic endoderm stem (XEN) cells from mouse embryos and embryonic stem cells , 2013, Nature Protocols.
[58] Job Dekker,et al. Analysis of long-range chromatin interactions using Chromosome Conformation Capture. , 2012, Methods.
[59] Data production leads,et al. An integrated encyclopedia of DNA elements in the human genome , 2012 .
[60] Matthew T. Maurano,et al. Widespread plasticity in CTCF occupancy linked to DNA methylation , 2012, Genome research.
[61] J. Sedat,et al. Spatial partitioning of the regulatory landscape of the X-inactivation centre , 2012, Nature.
[62] Jesse R. Dixon,et al. Topological Domains in Mammalian Genomes Identified by Analysis of Chromatin Interactions , 2012, Nature.
[63] Steven L Salzberg,et al. Fast gapped-read alignment with Bowtie 2 , 2012, Nature Methods.
[64] Martin Renqiang Min,et al. An integrated encyclopedia of DNA elements in the human genome , 2012 .
[65] Thomas M. Keane,et al. Mouse genomic variation and its effect on phenotypes and gene regulation , 2011, Nature.
[66] Colin N. Dewey,et al. RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome , 2011, BMC Bioinformatics.
[67] William Stafford Noble,et al. FIMO: scanning for occurrences of a given motif , 2011, Bioinform..
[68] C. Glass,et al. Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities. , 2010, Molecular cell.
[69] Aaron R. Quinlan,et al. BIOINFORMATICS APPLICATIONS NOTE , 2022 .
[70] V. Corces,et al. CTCF: Master Weaver of the Genome , 2009, Cell.
[71] Richard A Young,et al. Chromatin immunoprecipitation and microarray-based analysis of protein location , 2006, Nature Protocols.
[72] Wyeth W. Wasserman,et al. JASPAR: an open-access database for eukaryotic transcription factor binding profiles , 2004, Nucleic Acids Res..