Improving Infinium MethylationEPIC data processing: re-annotation of enhancers and long noncoding RNA genes and benchmarking of normalization methods
出版年份 2022 全文链接
标题
Improving Infinium MethylationEPIC data processing: re-annotation of enhancers and long noncoding RNA genes and benchmarking of normalization methods
作者
关键词
-
出版物
Epigenetics
Volume 17, Issue 13, Pages 2434-2454
出版商
Informa UK Limited
发表日期
2022-11-10
DOI
10.1080/15592294.2022.2135201
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。- Enhanced cell deconvolution of peripheral blood using DNA methylation for high-resolution immune profiling
- (2022) Lucas A. Salas et al. Nature Communications
- Immune profiles and DNA methylation alterations related with non-muscle-invasive bladder cancer outcomes
- (2022) Ji-Qing Chen et al. Clinical Epigenetics
- Genome-Wide DNA Methylation Profiling of Esophageal Squamous Cell Carcinoma from Global High-Incidence Regions Identifies Crucial Genes and Potential Cancer Markers
- (2021) Fazlur Rahman Talukdar et al. CANCER RESEARCH
- DNA methylation landscapes of 1538 breast cancers reveal a replication-linked clock, epigenomic instability and cis-regulation
- (2021) Rajbir Nath Batra et al. Nature Communications
- Integrative Analysis of Epigenome and Transcriptome Data Reveals Aberrantly Methylated Promoters and Enhancers in Hepatocellular Carcinoma
- (2021) Peng Huang et al. Frontiers in Oncology
- Epigenetic Link Between Statin Therapy and Type 2 Diabetes
- (2020) Carolina Ochoa-Rosales et al. DIABETES CARE
- A Dysregulated DNA Methylation Landscape Linked to Gene Expression in MLL-Rearranged AML
- (2020) Michael A. Koldobskiy et al. Epigenetics
- The influences of DNA methylation and epigenetic clocks, on metabolic disease, in middle-aged Koreans
- (2020) Ho-Sun Lee et al. Clinical Epigenetics
- DNA hypermethylation in disease: mechanisms and clinical relevance
- (2019) Melanie Ehrlich Epigenetics
- DNA Methylation in Epidermal Differentiation, Aging, and Cancer
- (2019) Florian Köhler et al. JOURNAL OF INVESTIGATIVE DERMATOLOGY
- Identifying blood-specific age-related DNA methylation markers on the Illumina MethylationEPIC® BeadChip
- (2019) Hussain Alsaleh et al. FORENSIC SCIENCE INTERNATIONAL
- Analysis of DNA methylation in cancer: location revisited
- (2018) Alexander Koch et al. Nature Reviews Clinical Oncology
- Epigenetics of breast cancer: Biology and clinical implication in the era of precision medicine
- (2018) Barbara Pasculli et al. SEMINARS IN CANCER BIOLOGY
- Variation in DNA Methylation of Human Blood over a 1-Year Period using the Illumina MethylationEPIC array
- (2018) Ina Zaimi et al. Epigenetics
- The DNA methylation landscape of glioblastoma disease progression shows extensive heterogeneity in time and space
- (2018) Johanna Klughammer et al. NATURE MEDICINE
- Clinical epigenetics: seizing opportunities for translation
- (2018) María Berdasco et al. NATURE REVIEWS GENETICS
- LNCipedia 5: towards a reference set of human long non-coding RNAs
- (2018) Pieter-Jan Volders et al. NUCLEIC ACIDS RESEARCH
- Systematic evaluation of DNA methylation age estimation with common preprocessing methods and the Infinium MethylationEPIC BeadChip array
- (2018) Lisa M McEwen et al. Clinical Epigenetics
- DNA methylation–based immune response signature improves patient diagnosis in multiple cancers
- (2017) Jana Jeschke et al. JOURNAL OF CLINICAL INVESTIGATION
- DNA methylation heterogeneity defines a disease spectrum in Ewing sarcoma
- (2017) Nathan C Sheffield et al. NATURE MEDICINE
- Marked for death: targeting epigenetic changes in cancer
- (2017) Sophia Xiao Pfister et al. NATURE REVIEWS DRUG DISCOVERY
- Ensembl 2018
- (2017) Daniel R Zerbino et al. NUCLEIC ACIDS RESEARCH
- Epigenetic Identity in AML Depends on Disruption of Nonpromoter Regulatory Elements and Is Affected by Antagonistic Effects of Mutations in Epigenetic Modifiers
- (2017) Jacob L. Glass et al. Cancer Discovery
- RCP: a novel probe design bias correction method for Illumina Methylation BeadChip
- (2016) Liang Niu et al. BIOINFORMATICS
- DNA Methylation in Cancer and Aging
- (2016) M. Klutstein et al. CANCER RESEARCH
- Targeting the cancer epigenome for therapy
- (2016) Peter A. Jones et al. NATURE REVIEWS GENETICS
- The molecular hallmarks of epigenetic control
- (2016) C. David Allis et al. NATURE REVIEWS GENETICS
- Comprehensive characterization, annotation and innovative use of Infinium DNA methylation BeadChip probes
- (2016) Wanding Zhou et al. NUCLEIC ACIDS RESEARCH
- Epigenetic Determinants of Cancer
- (2016) Stephen B. Baylin et al. Cold Spring Harbor Perspectives in Biology
- Validation of a DNA methylation microarray for 850,000 CpG sites of the human genome enriched in enhancer sequences
- (2016) Sebastian Moran et al. Epigenomics
- Portraying breast cancers with long noncoding RNAs
- (2016) O. Van Grembergen et al. Science Advances
- Integrated methylome and transcriptome analysis reveals novel regulatory elements in pediatric acute lymphoblastic leukemia
- (2015) Md Almamun et al. Epigenetics
- Genome-wide DNA methylome analysis reveals epigenetically dysregulated non-coding RNAs in human breast cancer
- (2015) Yongsheng Li et al. Scientific Reports
- Genome-wide DNA methylation detection by MethylCap-seq and Infinium HumanMethylation450 BeadChips: an independent large-scale comparison
- (2015) Tim De Meyer et al. Scientific Reports
- Inferring regulatory element landscapes and transcription factor networks from cancer methylomes
- (2015) Lijing Yao et al. GENOME BIOLOGY
- Between-array normalization for 450K data
- (2015) Jonathan A. Heiss et al. Frontiers in Genetics
- Enhancer RNAs
- (2014) Wenbo Li et al. CELL CYCLE
- DNA methylome profiling beyond promoters - taking an epigenetic snapshot of the breast tumor microenvironment
- (2014) Jana Jeschke et al. FEBS Journal
- An atlas of active enhancers across human cell types and tissues
- (2014) Robin Andersson et al. NATURE
- Genome-Wide DNA Methylation Analysis of Human Pancreatic Islets from Type 2 Diabetic and Non-Diabetic Donors Identifies Candidate Genes That Influence Insulin Secretion
- (2014) Tasnim Dayeh et al. PLoS Genetics
- A data-driven approach to preprocessing Illumina 450K methylation array data
- (2013) Ruth Pidsley et al. BMC GENOMICS
- A comprehensive overview of Infinium HumanMethylation450 data processing
- (2013) S. Dedeurwaerder et al. BRIEFINGS IN BIOINFORMATICS
- An evaluation of analysis pipelines for DNA methylation profiling using the Illumina HumanMethylation450 BeadChip platform
- (2013) Francesco Marabita et al. Epigenetics
- DNA methylation: roles in mammalian development
- (2013) Zachary D. Smith et al. NATURE REVIEWS GENETICS
- Low-level processing of Illumina Infinium DNA Methylation BeadArrays
- (2013) Timothy J. Triche et al. NUCLEIC ACIDS RESEARCH
- Additional annotation enhances potential for biologically-relevant analysis of the Illumina Infinium HumanMethylation450 BeadChip array
- (2013) Magda E Price et al. Epigenetics & Chromatin
- Genome-wide signatures of differential DNA methylation in pediatric acute lymphoblastic leukemia
- (2013) Jessica Nordlund et al. GENOME BIOLOGY
- DNA methylation of distal regulatory sites characterizes dysregulation of cancer genes
- (2013) Dvir Aran et al. GENOME BIOLOGY
- DNA methylation age of human tissues and cell types
- (2013) Steve Horvath GENOME BIOLOGY
- A beta-mixture quantile normalization method for correcting probe design bias in Illumina Infinium 450 k DNA methylation data
- (2012) Andrew E. Teschendorff et al. BIOINFORMATICS
- Comprehensive molecular portraits of human breast tumours
- (2012) Daniel C. Koboldt et al. NATURE
- The hallmarks of cancer
- (2012) Tony Gutschner et al. RNA Biology
- Epigenomic Enhancer Profiling Defines a Signature of Colon Cancer
- (2012) B. Akhtar-Zaidi et al. SCIENCE
- Complete pipeline for Infinium® Human Methylation 450K BeadChip data processing using subset quantile normalization for accurate DNA methylation estimation
- (2012) Nizar Touleimat et al. Epigenomics
- SWAN: Subset-quantile Within Array Normalization for Illumina Infinium HumanMethylation450 BeadChips
- (2012) Jovana Maksimovic et al. GENOME BIOLOGY
- Gel-free multiplexed reduced representation bisulfite sequencing for large-scale DNA methylation profiling
- (2012) Patrick Boyle et al. GENOME BIOLOGY
- DNA methylation profiling reveals a predominant immune component in breast cancers
- (2011) Sarah Dedeurwaerder et al. EMBO Molecular Medicine
- Validation of a DNA methylation microarray for 450,000 CpG sites in the human genome
- (2011) Juan Sandoval et al. Epigenetics
- High density DNA methylation array with single CpG site resolution
- (2011) Marina Bibikova et al. GENOMICS
- Mapping and analysis of chromatin state dynamics in nine human cell types
- (2011) Jason Ernst et al. NATURE
- Evaluation of the Infinium Methylation 450K technology
- (2011) Sarah Dedeurwaerder et al. Epigenomics
- Quantitative comparison of genome-wide DNA methylation mapping technologies
- (2010) Christoph Bock et al. NATURE BIOTECHNOLOGY
- Establishing, maintaining and modifying DNA methylation patterns in plants and animals
- (2010) Julie A. Law et al. NATURE REVIEWS GENETICS
- Principles and challenges of genome-wide DNA methylation analysis
- (2010) Peter W. Laird NATURE REVIEWS GENETICS
- Long noncoding RNAs: functional surprises from the RNA world
- (2009) J. E. Wilusz et al. GENES & DEVELOPMENT
- Human DNA methylomes at base resolution show widespread epigenomic differences
- (2009) Ryan Lister et al. NATURE
- Genome-wide DNA methylation profiling using Infinium®assay
- (2009) Marina Bibikova et al. Epigenomics
Find the ideal target journal for your manuscript
Explore over 38,000 international journals covering a vast array of academic fields.
SearchCreate your own webinar
Interested in hosting your own webinar? Check the schedule and propose your idea to the Peeref Content Team.
Create Now