232 related articles for article (PubMed ID: 34071577)
1. OCRDetector: Accurately Detecting Open Chromatin Regions via Plasma Cell-Free DNA Sequencing Data.
Wang J; Chen L; Zhang X; Tong Y; Zheng T
Int J Mol Sci; 2021 May; 22(11):. PubMed ID: 34071577
[TBL] [Abstract][Full Text] [Related]
2. OCRFinder: a noise-tolerance machine learning method for accurately estimating open chromatin regions.
Ren J; Liu Y; Zhu X; Wang X; Li Y; Liu Y; Hu W; Zhang X; Wang J
Front Genet; 2023; 14():1184744. PubMed ID: 37323658
[TBL] [Abstract][Full Text] [Related]
3. Comprehensive DNA methylation analysis of tissue of origin of plasma cell-free DNA by methylated CpG tandem amplification and sequencing (MCTA-Seq).
Liu X; Ren J; Luo N; Guo H; Zheng Y; Li J; Tang F; Wen L; Peng J
Clin Epigenetics; 2019 Jun; 11(1):93. PubMed ID: 31234922
[TBL] [Abstract][Full Text] [Related]
4. Genomic Features of Open Chromatin Regions (OCRs) in Wild Soybean and Their Effects on Gene Expressions.
Huang MK; Zhang L; Zhou LM; Yung WS; Li MW; Lam HM
Genes (Basel); 2021 Apr; 12(5):. PubMed ID: 33923056
[TBL] [Abstract][Full Text] [Related]
5. Quantification, Dynamic Visualization, and Validation of Bias in ATAC-Seq Data with ataqv.
Orchard P; Kyono Y; Hensley J; Kitzman JO; Parker SCJ
Cell Syst; 2020 Mar; 10(3):298-306.e4. PubMed ID: 32213349
[TBL] [Abstract][Full Text] [Related]
6. Interrogating the Accessible Chromatin Landscape of Eukaryote Genomes Using ATAC-seq.
Marinov GK; Shipony Z
Methods Mol Biol; 2021; 2243():183-226. PubMed ID: 33606259
[TBL] [Abstract][Full Text] [Related]
7. CharPlant: A De Novo Open Chromatin Region Prediction Tool for Plant Genomes.
Shen Y; Chen LL; Gao J
Genomics Proteomics Bioinformatics; 2021 Oct; 19(5):860-871. PubMed ID: 33662624
[TBL] [Abstract][Full Text] [Related]
8. Orientation-aware plasma cell-free DNA fragmentation analysis in open chromatin regions informs tissue of origin.
Sun K; Jiang P; Cheng SH; Cheng THT; Wong J; Wong VWS; Ng SSM; Ma BBY; Leung TY; Chan SL; Mok TSK; Lai PBS; Chan HLY; Sun H; Chan KCA; Chiu RWK; Lo YMD
Genome Res; 2019 Mar; 29(3):418-427. PubMed ID: 30808726
[TBL] [Abstract][Full Text] [Related]
9. Comparison of differential accessibility analysis strategies for ATAC-seq data.
Gontarz P; Fu S; Xing X; Liu S; Miao B; Bazylianska V; Sharma A; Madden P; Cates K; Yoo A; Moszczynska A; Wang T; Zhang B
Sci Rep; 2020 Jun; 10(1):10150. PubMed ID: 32576878
[TBL] [Abstract][Full Text] [Related]
10. Optimization of ATAC-seq in wheat seedling roots using INTACT-isolated nuclei.
Debernardi JM; Burguener G; Bubb K; Liu Q; Queitsch C; Dubcovsky J
BMC Plant Biol; 2023 May; 23(1):270. PubMed ID: 37211599
[TBL] [Abstract][Full Text] [Related]
11. Genome-Wide Identification of Regulatory DNA Elements in Crop Plants.
Li Z; Wang K
Methods Mol Biol; 2020; 2072():85-99. PubMed ID: 31541440
[TBL] [Abstract][Full Text] [Related]
12. [Advances in assay for transposase-accessible chromatin with high-throughput sequencing].
Wu J; Quan JP; Ye Y; Wu ZF; Yang J; Yang M; Zheng EQ
Yi Chuan; 2020 Apr; 42(4):333-346. PubMed ID: 32312702
[TBL] [Abstract][Full Text] [Related]
13. CoBRA: Containerized Bioinformatics Workflow for Reproducible ChIP/ATAC-seq Analysis.
Qiu X; Feit AS; Feiglin A; Xie Y; Kesten N; Taing L; Perkins J; Gu S; Li Y; Cejas P; Zhou N; Jeselsohn R; Brown M; Shirley Liu X; Long HW
Genomics Proteomics Bioinformatics; 2021 Aug; 19(4):652-661. PubMed ID: 34284136
[TBL] [Abstract][Full Text] [Related]
14. An optimized approach for multiplexing single-nuclear ATAC-seq using oligonucleotide-conjugated antibodies.
Bera BS; Thompson TV; Sosa E; Nomaru H; Reynolds D; Dubin RA; Maqbool SB; Zheng D; Morrow BE; Greally JM; Suzuki M
Epigenetics Chromatin; 2023 Apr; 16(1):14. PubMed ID: 37118773
[TBL] [Abstract][Full Text] [Related]
15. Discovering single nucleotide variants and indels from bulk and single-cell ATAC-seq.
Massarat AR; Sen A; Jaureguy J; Tyndale ST; Fu Y; Erikson G; McVicker G
Nucleic Acids Res; 2021 Aug; 49(14):7986-7994. PubMed ID: 34313779
[TBL] [Abstract][Full Text] [Related]
16. Visualization of the landscape of the read alignment shape of ATAC-seq data using Hellinger distance metric.
Cheng JH; Zheng C; Yamada R; Okada D
Genes Cells; 2024 Jan; 29(1):5-16. PubMed ID: 37989133
[TBL] [Abstract][Full Text] [Related]
17. Nuclease deficiencies alter plasma cell-free DNA methylation profiles.
Han DSC; Ni M; Chan RWY; Wong DKL; Hiraki LT; Volpi S; Jiang P; Lui KO; Chan KCA; Chiu RWK; Lo YMD
Genome Res; 2021 Nov; 31(11):2008-2021. PubMed ID: 34470801
[TBL] [Abstract][Full Text] [Related]
18. Genome-Wide Mapping of Active Regulatory Elements Using ATAC-seq.
Marinov GK; Shipony Z; Kundaje A; Greenleaf WJ
Methods Mol Biol; 2023; 2611():3-19. PubMed ID: 36807060
[TBL] [Abstract][Full Text] [Related]
19. Synergism of open chromatin regions involved in regulating genes in Bombyx mori.
Zhang Q; Cheng T; Sun Y; Wang Y; Feng T; Li X; Liu L; Li Z; Liu C; Xia Q; He H
Insect Biochem Mol Biol; 2019 Jul; 110():10-18. PubMed ID: 31004794
[TBL] [Abstract][Full Text] [Related]
20. Genome-Scale Analysis of Cell-Specific Regulatory Codes Using Nuclear Enzymes.
Baek S; Sung MH
Methods Mol Biol; 2016; 1418():225-40. PubMed ID: 27008018
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
