The epigenetic landscape ofAlurepeats delineates the structural and functional genomic architecture of colon cancer cells
出版年份 2016 全文链接
标题
The epigenetic landscape ofAlurepeats delineates the structural and functional genomic architecture of colon cancer cells
作者
关键词
-
出版物
GENOME RESEARCH
Volume 27, Issue 1, Pages 118-132
出版商
Cold Spring Harbor Laboratory
发表日期
2016-12-21
DOI
10.1101/gr.207522.116
参考文献
相关参考文献
注意：仅列出部分参考文献，下载原文获取全部文献信息。- DNA methylation variation of human-specific Alu repeats
- (2016) Arundhati Bakshi et al. Epigenetics
- Three-dimensional disorganization of the cancer genome occurs coincident with long-range genetic and epigenetic alterations
- (2016) Phillippa C. Taberlay et al. GENOME RESEARCH
- A knowledgebase of the human Alu repetitive elements
- (2016) Izaskun Mallona et al. JOURNAL OF BIOMEDICAL INFORMATICS
- Epigenetic modulators, modifiers and mediators in cancer aetiology and progression
- (2016) Andrew P. Feinberg et al. NATURE REVIEWS GENETICS
- Aluretrotransposons promote differentiation of human carcinoma cells through the aryl hydrocarbon receptor
- (2016) Antonio Morales-Hernández et al. NUCLEIC ACIDS RESEARCH
- Reprogramming triggers endogenous L1 and Alu retrotransposition in human induced pluripotent stem cells
- (2016) Sabine Klawitter et al. Nature Communications
- Quantification of Unmethylated Alu (QUAlu): a tool to assess global hypomethylation in routine clinical samples
- (2016) Raquel Buj et al. Oncotarget
- MIEN1 is tightly regulated by SINE Alu methylation in its promoter
- (2016) Smrithi Rajendiran et al. Oncotarget
- Placental Hypomethylation Is More Pronounced in Genomic Loci Devoid of Retroelements
- (2016) Aniruddha Chatterjee et al. G3-Genes Genomes Genetics
- Enrichment analysis of Alu elements with different spatial chromatin proximity in the human genome
- (2016) Zhuoya Gu et al. Protein & Cell
- The role of Alu elements in the cis-regulation of RNA processing
- (2015) Chammiran Daniel et al. CELLULAR AND MOLECULAR LIFE SCIENCES
- Retrotransposition creates sloping shores: a graded influence of hypomethylated CpG islands on flanking CpG sites
- (2015) Fiorella C. Grandi et al. GENOME RESEARCH
- The role of DNA methylation in directing the functional organization of the cancer epigenome
- (2015) Fides D. Lay et al. GENOME RESEARCH
- Integrative analysis of 111 reference human epigenomes
- (2015) Anshul Kundaje et al. NATURE
- Function and information content of DNA methylation
- (2015) Dirk Schübeler NATURE
- Competition between DNA methylation and transcription factors determines binding of NRF1
- (2015) Silvia Domcke et al. NATURE
- Cell-of-origin chromatin organization shapes the mutational landscape of cancer
- (2015) Paz Polak et al. NATURE
- A-to-I editing of coding and non-coding RNAs by ADARs
- (2015) Kazuko Nishikura NATURE REVIEWS MOLECULAR CELL BIOLOGY
- IntergenicAluexonisation facilitates the evolution of tissue-specific transcript ends
- (2015) Mojca Tajnik et al. NUCLEIC ACIDS RESEARCH
- Intermediate DNA methylation is a conserved signature of genome regulation
- (2015) GiNell Elliott et al. Nature Communications
- SINE transcription by RNA polymerase III is suppressed by histone methylation but not by DNA methylation
- (2015) Dhaval Varshney et al. Nature Communications
- Role of DNA Methylation in Modulating Transcription Factor Occupancy
- (2015) Matthew T. Maurano et al. Cell Reports
- Epigenetic regulation of transcription and possible functions of mammalian short interspersed elements, SINEs
- (2015) Kenji Ichiyanagi GENES & GENETIC SYSTEMS
- Effects of cytosine methylation on transcription factor binding sites
- (2014) Yulia A Medvedeva et al. BMC GENOMICS
- Architectural proteins: regulators of 3D genome organization in cell fate
- (2014) Elena Gómez-Díaz et al. TRENDS IN CELL BIOLOGY
- CTCF Haploinsufficiency Destabilizes DNA Methylation and Predisposes to Cancer
- (2014) Christopher J. Kemp et al. Cell Reports
- Evolution of Alu Elements toward Enhancers
- (2014) Ming Su et al. Cell Reports
- Large hypomethylated blocks as a universal defining epigenetic alteration in human solid tumors
- (2014) Winston Timp et al. Genome Medicine
- Long range epigenetic silencing is a trans-species mechanism that results in cancer specific deregulation by overriding the chromatin domains of normal cells
- (2013) Marta Forn et al. Molecular Oncology
- DNA hypomethylation within specific transposable element families associates with tissue-specific enhancer landscape
- (2013) Mingchao Xie et al. NATURE GENETICS
- Exploring the three-dimensional organization of genomes: interpreting chromatin interaction data
- (2013) Job Dekker et al. NATURE REVIEWS GENETICS
- Mining cancer methylomes: prospects and challenges
- (2013) Clare Stirzaker et al. TRENDS IN GENETICS
- TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions
- (2013) Daehwan Kim et al. GENOME BIOLOGY
- Regional Activation of the Cancer Genome by Long-Range Epigenetic Remodeling
- (2012) Saul A. Bert et al. CANCER CELL
- Widespread plasticity in CTCF occupancy linked to DNA methylation
- (2012) H. Wang et al. GENOME RESEARCH
- Epigenetic Nucleosomes: Alu Sequences and CG as Nucleosome Positioning Element
- (2012) F. Salih et al. JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
- Latent Regulatory Potential of Human-Specific Repetitive Elements
- (2012) Michelle C. Ward et al. MOLECULAR CELL
- Chromatin organization is a major influence on regional mutation rates in human cancer cells
- (2012) Benjamin Schuster-Böckler et al. NATURE
- Functions of DNA methylation: islands, start sites, gene bodies and beyond
- (2012) Peter A. Jones NATURE REVIEWS GENETICS
- Evaluation of single CpG sites as proxies of CpG island methylation states at the genome scale
- (2012) Víctor Barrera et al. NUCLEIC ACIDS RESEARCH
- Alu expression in human cell lines and their retrotranspositional potential
- (2012) Andrew J Oler et al. Mobile DNA
- Impact of Alu repeats on the evolution of human p53 binding sites
- (2011) Feng Cui et al. Biology Direct
- Sperm Methylation Profiles Reveal Features of Epigenetic Inheritance and Evolution in Primates
- (2011) Antoine Molaro et al. CELL
- Validation of a DNA methylation microarray for 450,000 CpG sites in the human genome
- (2011) Juan Sandoval et al. Epigenetics
- Global methylation profiles in DNA from different blood cell types
- (2011) Hui-Chen Wu et al. Epigenetics
- Global DNA hypomethylation coupled to repressive chromatin domain formation and gene silencing in breast cancer
- (2011) G. C. Hon et al. GENOME RESEARCH
- Increased methylation variation in epigenetic domains across cancer types
- (2011) Kasper Daniel Hansen et al. NATURE GENETICS
- Regions of focal DNA hypermethylation and long-range hypomethylation in colorectal cancer coincide with nuclear lamina–associated domains
- (2011) Benjamin P Berman et al. NATURE GENETICS
- Repetitive DNA and next-generation sequencing: computational challenges and solutions
- (2011) Todd J. Treangen et al. NATURE REVIEWS GENETICS
- Genome-wide approaches for cancer gene discovery
- (2011) Paul M. Lizardi et al. TRENDS IN BIOTECHNOLOGY
- Replication Timing: A Fingerprint for Cell Identity and Pluripotency
- (2011) Tyrone Ryba et al. PLoS Computational Biology
- Alu elements: know the SINEs
- (2011) Prescott Deininger GENOME BIOLOGY
- Sensitive measurement of unmethylated repeat DNA sequences by end-specific PCR
- (2010) Keith Rand et al. BIOTECHNIQUES
- Methylation status of individual CpG sites within Alu elements in the human genome and Alu hypomethylation in gastric carcinomas
- (2010) Shengyan Xiang et al. BMC CANCER
- Evolutionarily conserved replication timing profiles predict long-range chromatin interactions and distinguish closely related cell types
- (2010) T. Ryba et al. GENOME RESEARCH
- Chromatin and sequence features that define the fine and gross structure of genomic methylation patterns
- (2010) J. R. Edwards et al. GENOME RESEARCH
- Alu and Satα hypomethylation in Helicobacter pylori-infected gastric mucosae
- (2010) Takeichi Yoshida et al. INTERNATIONAL JOURNAL OF CANCER
- Methods for DNA methylation analysis and applications in colon cancer
- (2010) Mireia Jordà et al. MUTATION RESEARCH-FUNDAMENTAL AND MOLECULAR MECHANISMS OF MUTAGENESIS
- Taking the measure of the methylome
- (2010) Stephan Beck NATURE BIOTECHNOLOGY
- Quantitative comparison of genome-wide DNA methylation mapping technologies
- (2010) Christoph Bock et al. NATURE BIOTECHNOLOGY
- Discovery and characterization of chromatin states for systematic annotation of the human genome
- (2010) Jason Ernst et al. NATURE BIOTECHNOLOGY
- Consolidation of the cancer genome into domains of repressive chromatin by long-range epigenetic silencing (LRES) reduces transcriptional plasticity
- (2010) Marcel W. Coolen et al. NATURE CELL BIOLOGY
- Genome-scale DNA methylation mapping of clinical samples at single-nucleotide resolution
- (2010) Hongcang Gu et al. NATURE METHODS
- Alternative splicing and evolution: diversification, exon definition and function
- (2010) Hadas Keren et al. NATURE REVIEWS GENETICS
- Principles and challenges of genome-wide DNA methylation analysis
- (2010) Peter W. Laird NATURE REVIEWS GENETICS
- Distinctive patterns of age-dependent hypomethylation in interspersed repetitive sequences
- (2010) Pornrutsami Jintaridth et al. PHYSIOLOGICAL GENOMICS
- Epigenomic analysis of Alu repeats in human ependymomas
- (2010) H. Xie et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Differential expression analysis for sequence count data
- (2010) Simon Anders et al. GENOME BIOLOGY
- Human DNA methylomes at base resolution show widespread epigenomic differences
- (2009) Ryan Lister et al. NATURE
- Differential methylation of tissue- and cancer-specific CpG island shores distinguishes human induced pluripotent stem cells, embryonic stem cells and fibroblasts
- (2009) Akiko Doi et al. NATURE GENETICS
- The human colon cancer methylome shows similar hypo- and hypermethylation at conserved tissue-specific CpG island shores
- (2009) Rafael A Irizarry et al. NATURE GENETICS
- The impact of retrotransposons on human genome evolution
- (2009) Richard Cordaux et al. NATURE REVIEWS GENETICS
- High-throughput sequence-based epigenomic analysis of Alu repeats in human cerebellum
- (2009) Hehuang Xie et al. NUCLEIC ACIDS RESEARCH
- Chromatin remodeling at Alu repeats by epigenetic treatment activates silenced microRNA-512-5p with downregulation of Mcl-1 in human gastric cancer cells
- (2009) Y Saito et al. ONCOGENE
- DNA hypomethylation in cancer cells
- (2009) Melanie Ehrlich Epigenomics
- Evolutionary rate heterogeneity of Alu repeats upstream of the APOA5 gene: do they regulate APOA5 expression?
- (2008) Edward A. Ruiz-Narváez et al. JOURNAL OF HUMAN GENETICS
- Domain organization of human chromosomes revealed by mapping of nuclear lamina interactions
- (2008) Lars Guelen et al. NATURE
- DNA methylation landscapes: provocative insights from epigenomics
- (2008) Miho M. Suzuki et al. NATURE REVIEWS GENETICS
- Epigenetics in Cancer
- (2008) Manel Esteller NEW ENGLAND JOURNAL OF MEDICINE
- Bivalent domains enforce transcriptional memory of DNA methylated genes in cancer cells
- (2008) J. Rodriguez et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
Discover Peeref hubs
Discuss science. Find collaborators. Network.
Join a conversationAdd your recorded webinar
Do you already have a recorded webinar? Grow your audience and get more views by easily listing your recording on Peeref.
Upload Now