FRINK Linked Data Fragments server

Matches in SemOpenAlex for { <https://semopenalex.org/work/W4320027172> ?p ?o ?g. }

• W4320027172 endingPage "1450" @default.
• W4320027172 startingPage "1450" @default.
• W4320027172 abstract "<ns4:p><ns4:bold>Background:</ns4:bold> DNA methylation, the most common epigenetic modification, is defined as the removal or addition of methyl groups to cytosine bases. Studying DNA methylation provides insight into the regulation of gene expression, transposon mobility, genomic stability, and genomic imprinting. Whole-genome DNA methylation profiling (WGDM) is a powerful tool to find DNA methylation. This technique combines standard whole-genome sequencing methodology (<ns4:italic>e.g.</ns4:italic>, Illumina high-throughput sequencing) with additional steps where unmethylated cytosine is converted to uracil. However, factors such as low cytosine conversion efficiency and inadequate DNA recovery during sample preparation oftentimes render poor-quality data. It is therefore imperative to benchmark sample preparation protocols to increase sequencing data quality and reduce false positives in methylation detection.</ns4:p><ns4:p> <ns4:bold>Methods:</ns4:bold> A survey analysis was performed to investigate the efficiency of the following commercially available cytosine conversion kits when coupled with the NEBNext® Ultra™ DNA Library Prep Kit for Illumina (NEB): Zymo Research EZ DNA Methylation™ kit (hereafter known as Zymo Conversion kit), QIAGEN EpiTect Bisulfite kit (hereafter known as QIAGEN Conversion kit), and NEBNext® Enzymatic Methyl-seq Conversion Module (hereafter known as NEB EM-seq kit). Input DNA was derived from soybean (<ns4:italic>Glycine max</ns4:italic> [L.] Merrill) leaf tissue.</ns4:p><ns4:p> <ns4:bold>Results:</ns4:bold> Of those tested, the QIAGEN Conversion kit provided the best sample recovery and the highest number of sequencing reads, whereas the Zymo Conversion kit had the best cytosine conversion efficiency and the least duplication. The sequence library obtained with the NEB EM-seq kit had the highest mapping efficiency (percentage of reads mapped to the genome). The data quality (defined by Phred score) and methylated cytosine call were similar between kits.</ns4:p><ns4:p> <ns4:bold>Conclusions: </ns4:bold>This study offers the groundwork for selecting an effective DNA methylation detection kit for crop genome research.</ns4:p>" @default.
• W4320027172 created "2023-02-12" @default.
• W4320027172 creator A5068622952 @default.
• W4320027172 creator A5082522261 @default.
• W4320027172 creator A5087395047 @default.
• W4320027172 date "2022-12-07" @default.
• W4320027172 modified "2023-10-14" @default.
• W4320027172 title "Evaluation of cytosine conversion methods for whole-genome DNA methylation profiling" @default.
• W4320027172 cites W1565432779 @default.
• W4320027172 cites W1770941044 @default.
• W4320027172 cites W1967384725 @default.
• W4320027172 cites W1997453048 @default.
• W4320027172 cites W2000225203 @default.
• W4320027172 cites W2038523604 @default.
• W4320027172 cites W2068668716 @default.
• W4320027172 cites W2099908820 @default.
• W4320027172 cites W2131271579 @default.
• W4320027172 cites W2131374955 @default.
• W4320027172 cites W2141292707 @default.
• W4320027172 cites W2152656267 @default.
• W4320027172 cites W2167501668 @default.
• W4320027172 cites W2432815617 @default.
• W4320027172 cites W2473736871 @default.
• W4320027172 cites W2560609054 @default.
• W4320027172 cites W2591367881 @default.
• W4320027172 cites W2610986140 @default.
• W4320027172 cites W2758690282 @default.
• W4320027172 cites W2793268473 @default.
• W4320027172 cites W2805216920 @default.
• W4320027172 cites W2953607276 @default.
• W4320027172 cites W3092019124 @default.
• W4320027172 cites W3169544586 @default.
• W4320027172 doi "https://doi.org/10.12688/f1000research.128391.1" @default.
• W4320027172 hasPublicationYear "2022" @default.
• W4320027172 type Work @default.
• W4320027172 citedByCount "0" @default.
• W4320027172 crossrefType "journal-article" @default.
• W4320027172 hasAuthorship W4320027172A5068622952 @default.
• W4320027172 hasAuthorship W4320027172A5082522261 @default.
• W4320027172 hasAuthorship W4320027172A5087395047 @default.
• W4320027172 hasBestOaLocation W43200271721 @default.
• W4320027172 hasConcept C104317684 @default.
• W4320027172 hasConcept C140173407 @default.
• W4320027172 hasConcept C141231307 @default.
• W4320027172 hasConcept C150194340 @default.
• W4320027172 hasConcept C153911025 @default.
• W4320027172 hasConcept C17757408 @default.
• W4320027172 hasConcept C189235521 @default.
• W4320027172 hasConcept C190727270 @default.
• W4320027172 hasConcept C2776023528 @default.
• W4320027172 hasConcept C41091548 @default.
• W4320027172 hasConcept C51679486 @default.
• W4320027172 hasConcept C54355233 @default.
• W4320027172 hasConcept C552990157 @default.
• W4320027172 hasConcept C70721500 @default.
• W4320027172 hasConcept C86803240 @default.
• W4320027172 hasConceptScore W4320027172C104317684 @default.
• W4320027172 hasConceptScore W4320027172C140173407 @default.
• W4320027172 hasConceptScore W4320027172C141231307 @default.
• W4320027172 hasConceptScore W4320027172C150194340 @default.
• W4320027172 hasConceptScore W4320027172C153911025 @default.
• W4320027172 hasConceptScore W4320027172C17757408 @default.
• W4320027172 hasConceptScore W4320027172C189235521 @default.
• W4320027172 hasConceptScore W4320027172C190727270 @default.
• W4320027172 hasConceptScore W4320027172C2776023528 @default.
• W4320027172 hasConceptScore W4320027172C41091548 @default.
• W4320027172 hasConceptScore W4320027172C51679486 @default.
• W4320027172 hasConceptScore W4320027172C54355233 @default.
• W4320027172 hasConceptScore W4320027172C552990157 @default.
• W4320027172 hasConceptScore W4320027172C70721500 @default.
• W4320027172 hasConceptScore W4320027172C86803240 @default.
• W4320027172 hasFunder F4320309837 @default.
• W4320027172 hasFunder F4320310362 @default.
• W4320027172 hasLocation W43200271721 @default.
• W4320027172 hasOpenAccess W4320027172 @default.
• W4320027172 hasPrimaryLocation W43200271721 @default.
• W4320027172 hasRelatedWork W1513538597 @default.
• W4320027172 hasRelatedWork W1545950939 @default.
• W4320027172 hasRelatedWork W172747452 @default.
• W4320027172 hasRelatedWork W2057329510 @default.
• W4320027172 hasRelatedWork W2070339716 @default.
• W4320027172 hasRelatedWork W2094827321 @default.
• W4320027172 hasRelatedWork W2570149195 @default.
• W4320027172 hasRelatedWork W3032578724 @default.
• W4320027172 hasRelatedWork W3159109601 @default.
• W4320027172 hasRelatedWork W4210257611 @default.
• W4320027172 hasVolume "11" @default.
• W4320027172 isParatext "false" @default.
• W4320027172 isRetracted "false" @default.
• W4320027172 workType "article" @default.