ATAC-seq footprinting unravels kinetics of transcription factor binding during zygotic genome activation
出版年份 2020 全文链接
标题
ATAC-seq footprinting unravels kinetics of transcription factor binding during zygotic genome activation
作者
关键词
-
出版物
Nature Communications
Volume 11, Issue 1, Pages -
出版商
Springer Science and Business Media LLC
发表日期
2020-08-26
DOI
10.1038/s41467-020-18035-1
参考文献
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注意:仅列出部分参考文献,下载原文获取全部文献信息。- svist4get: a simple visualization tool for genomic tracks from sequencing experiments
- (2019) Artyom A. Egorov et al. BMC BIOINFORMATICS
- Quantification of Differential Transcription Factor Activity and Multiomics-Based Classification into Activators and Repressors: diffTF
- (2019) Ivan Berest et al. Cell Reports
- A LINE1-Nucleolin Partnership Regulates Early Development and ESC Identity
- (2018) Michelle Percharde et al. CELL
- Detecting Differential Transcription Factor Activity from ATAC-Seq Data
- (2018) Ignacio Tripodi et al. MOLECULES
- TFAP2C regulates transcription in human naive pluripotency by opening enhancers
- (2018) William A. Pastor et al. NATURE CELL BIOLOGY
- Chromatin analysis in human early development reveals epigenetic transition during ZGA
- (2018) Jingyi Wu et al. NATURE
- GENCODE reference annotation for the human and mouse genomes
- (2018) Adam Frankish et al. NUCLEIC ACIDS RESEARCH
- DUX-family transcription factors regulate zygotic genome activation in placental mammals
- (2017) Alberto De Iaco et al. NATURE GENETICS
- Conserved roles of mouse DUX and human DUX4 in activating cleavage-stage genes and MERVL/HERVL retrotransposons
- (2017) Peter G Hendrickson et al. NATURE GENETICS
- Conservation and innovation in the DUX4-family gene network
- (2017) Jennifer L Whiddon et al. NATURE GENETICS
- HOCOMOCO: towards a complete collection of transcription factor binding models for human and mouse via large-scale ChIP-Seq analysis
- (2017) Ivan V Kulakovskiy et al. NUCLEIC ACIDS RESEARCH
- JASPAR 2018: update of the open-access database of transcription factor binding profiles and its web framework
- (2017) Aziz Khan et al. NUCLEIC ACIDS RESEARCH
- Ensembl 2018
- (2017) Daniel R Zerbino et al. NUCLEIC ACIDS RESEARCH
- Impact of cytosine methylation on DNA binding specificities of human transcription factors
- (2017) Yimeng Yin et al. SCIENCE
- Mammalian zygotic genome activation
- (2017) Petr Svoboda SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY
- Bivariate Genomic Footprinting Detects Changes in Transcription Factor Activity
- (2017) Songjoon Baek et al. Cell Reports
- UROPA: a tool for Universal RObust Peak Annotation
- (2017) Maria Kondili et al. Scientific Reports
- Complex heatmaps reveal patterns and correlations in multidimensional genomic data
- (2016) Zuguang Gu et al. BIOINFORMATICS
- MaternalSall4Is Indispensable for Epigenetic Maturation of Mouse Oocytes
- (2016) Kai Xu et al. JOURNAL OF BIOLOGICAL CHEMISTRY
- The landscape of accessible chromatin in mammalian preimplantation embryos
- (2016) Jingyi Wu et al. NATURE
- Genome-wide footprinting: ready for prime time?
- (2016) Myong-Hee Sung et al. NATURE METHODS
- Genomic footprinting
- (2016) Jeff Vierstra et al. NATURE METHODS
- deepTools2: a next generation web server for deep-sequencing data analysis
- (2016) Fidel Ramírez et al. NUCLEIC ACIDS RESEARCH
- MERVL/Zscan4 Network Activation Results in Transient Genome-wide DNA Demethylation of mESCs
- (2016) Mélanie A. Eckersley-Maslin et al. Cell Reports
- Novel PRD-like homeodomain transcription factors and retrotransposon elements in early human development
- (2015) Virpi Töhönen et al. Nature Communications
- Trimmomatic: a flexible trimmer for Illumina sequence data
- (2014) Anthony M. Bolger et al. BIOINFORMATICS
- footprintDB: a database of transcription factors with annotated cis elements and binding interfaces
- (2013) Alvaro Sebastian et al. BIOINFORMATICS
- Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position
- (2013) Jason D Buenrostro et al. NATURE METHODS
- STAR: ultrafast universal RNA-seq aligner
- (2012) Alexander Dobin et al. BIOINFORMATICS
- An expansive human regulatory lexicon encoded in transcription factor footprints
- (2012) Shane Neph et al. NATURE
- Identifying ChIP-seq enrichment using MACS
- (2012) Jianxing Feng et al. Nature Protocols
- MEME-ChIP: motif analysis of large DNA datasets
- (2011) Philip Machanick et al. BIOINFORMATICS
- Integrative genomics viewer
- (2011) James T Robinson et al. NATURE BIOTECHNOLOGY
- Dinucleotide Weight Matrices for Predicting Transcription Factor Binding Sites: Generalizing the Position Weight Matrix
- (2010) Rahul Siddharthan PLoS One
- Global mapping of protein-DNA interactions in vivo by digital genomic footprinting
- (2009) Jay R Hesselberth et al. NATURE METHODS
- Mapping identifiers for the integration of genomic datasets with the R/Bioconductor package biomaRt
- (2009) Steffen Durinck et al. Nature Protocols
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