DNA 5-methylcytosine detection and methylation phasing using PacBio circular consensus sequencing.

Peng Ni, Fan Nie, Zeyu Zhong, Jinrui Xu, Neng Huang, Jun Zhang, Haochen Zhao, You Zou, Yuanfeng Huang, Jinchen Li, Chuan-Le Xiao, Feng Luo, Jianxin Wang

July 2023 Nat Commun

Synopsis of Social media discussions

Several discussions celebrate the innovative aspects of combining deep learning with PacBio sequencing, citing increased accuracy and robustness, as well as potential for broader applications in methylation detection. The tone is generally positive and future-focused, emphasizing the research's importance and potential impact on genomics advancements.

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Most discussions express support or approval of the publication, emphasizing the usefulness of new tools and methods.

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Interest
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The discussions show high interest, with many posts highlighting the potential of the sequencing techniques and deep-learning approaches.

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Engagement
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Posts demonstrate active engagement by referencing specific methods, tools, and their implications, such as mention of high accuracy and robustness.

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Impact
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While not all posts are equally detailed, there is a recognition that this research could significantly influence future genomic studies.

Social Mentions

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21 Posts

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45

Total Likes

24

Extended Reach

177,419

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Posts referencing the article

Enhanced Detection of DNA 5-methylcytosine Using PacBio CCS Technology

Enhanced Detection of DNA 5-methylcytosine Using PacBio CCS Technology

This video discusses using PacBio CCS sequencing combined with deep learning to improve DNA 5-methylcytosine detection and methylation phasing, achieving high accuracy and robustness for genomic analysis.

STEM RTCL TV

October 21, 2023

45 views

  • Qian Cheng
    @sgqcheng (Twitter)

    New Bioinformatics tools using #deeplearning: DNA 5-methylcytosine detection and methylation phasing using PacBio circular consensus sequencing ⁦@NatureComms⁩ #BiotechNatureComms #PacBio #longreadsequencing #5mCpGs https://t.co/q7avo8pccL
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    July 9, 2023

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  • Nanopore_research
    @Nanoporepapers_ (Twitter)

    DNA 5-methylcytosine detection and methylation phasing using PacBio circular consensus sequencing Follow us :) https://t.co/nzJQgDedDe
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    July 9, 2023

  • Long-read metagenomics-Papers
    @LR_metagenomics (Twitter)

    PacBio: DNA 5-methylcytosine detection and methylation phasing using PacBio circular consensus sequencing https://t.co/lxEVaPZJv3
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    July 9, 2023

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  • Long-read metagenomics-Papers
    @LR_metagenomics (Twitter)

    nanopore: DNA 5-methylcytosine detection and methylation phasing using PacBio circular consensus sequencing https://t.co/XLOJC3nZ87
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    July 9, 2023

  • GenomeMining
    @MiningGenome (Twitter)

    DNA 5-methylcytosine detection and methylation phasing using PacBio circular consensus sequencing https://t.co/5LmLtlefAB High contiguity de novo genome sequence assembly of Trifoliate yam (Dioscorea dumetorum) using long read sequencing https://t.co/hLLBozbNmP #Genomics
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    February 18, 2023

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    @BiorxivB (Twitter)

    DNA 5-methylcytosine detection and methylation phasing using PacBio circular consensus sequencing https://t.co/gencty4Sv6
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    February 17, 2023

  • Eduardo Eyras
    @EduEyras (Twitter)

    DNA 5-methylcytosine detection and methylation phasing using PacBio circular consensus sequencing https://t.co/k8seNtMsHF
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    March 11, 2022

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  • Jon Seddon
    @JonSeddon2 (Twitter)

    RT @biorxivpreprint: DNA 5-methylcytosine detection and methylation phasing using PacBio circular consensus sequencing https://t.co/XYbxVI…
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    March 2, 2022

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  • Emanuel ebioman@genomic.social
    @ebioman (Twitter)

    RT @jsantoyo: DNA 5-methylcytosine detection and methylation phasing using PacBio circular consensus sequencing. #5mC #MethylationPhasing #…
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    March 2, 2022

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  • felix
    @felixlee0608 (Twitter)

    RT @jsantoyo: DNA 5-methylcytosine detection and methylation phasing using PacBio circular consensus sequencing. #5mC #MethylationPhasing #…
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    March 2, 2022

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  • Helio Rocha
    @_elioRocha (Twitter)

    #bioRxiv DNA 5-methylcytosine detection and methylation phasing using PacBio circular consensus sequencing #bioinfo https://t.co/vHuK9zNERn
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    March 2, 2022

  • k a y l e e
    @Kaylee__Mueller (Twitter)

    RT @jsantoyo: DNA 5-methylcytosine detection and methylation phasing using PacBio circular consensus sequencing. #5mC #MethylationPhasing #…
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    March 1, 2022

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  • Taco Jesse
    @TJesse62 (Twitter)

    RT @jsantoyo: DNA 5-methylcytosine detection and methylation phasing using PacBio circular consensus sequencing. #5mC #MethylationPhasing #…
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    March 1, 2022

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  • Javier Santoyo
    @jsantoyo (Twitter)

    DNA 5-methylcytosine detection and methylation phasing using PacBio circular consensus sequencing. #5mC #MethylationPhasing #LongRead #HiFi @PacBio #Sequencing https://t.co/wsV9HLHFHj @biorxivpreprint
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    March 1, 2022

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  • Niki Newell
    @NikiNewell7 (Twitter)

    RT @biorxivpreprint: DNA 5-methylcytosine detection and methylation phasing using PacBio circular consensus sequencing https://t.co/XYbxVI…
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    March 1, 2022

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  • Jennifer Malsom
    @J_Malsom (Twitter)

    RT @biorxivpreprint: DNA 5-methylcytosine detection and methylation phasing using PacBio circular consensus sequencing https://t.co/XYbxVI…
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    March 1, 2022

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  • CompBiolPapers
    @CompBiolPapers (Twitter)

    DNA 5-methylcytosine detection and methylation phasing using PacBio circular consensus sequencing [NEW RESULTS] https://t.co/LpUPeSLQRX
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    March 1, 2022

  • k a y l e e
    @Kaylee__Mueller (Twitter)

    RT @biorxivpreprint: DNA 5-methylcytosine detection and methylation phasing using PacBio circular consensus sequencing https://t.co/XYbxVI…
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    March 1, 2022

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  • Long-read metagenomics-Papers
    @LR_metagenomics (Twitter)

    nanopore: DNA 5-methylcytosine detection and methylation phasing using PacBio circular consensus sequencing https://t.co/3nv0Bteqoq
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    March 1, 2022

  • bioRxiv Bioinfo
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    DNA 5-methylcytosine detection and methylation phasing using PacBio circular consensus sequencing https://t.co/y4kn3Pf253 #biorxiv_bioinfo
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    March 1, 2022

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  • bioRxiv
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    DNA 5-methylcytosine detection and methylation phasing using PacBio circular consensus sequencing https://t.co/XYbxVI1bfc #bioRxiv
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    March 1, 2022

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Abstract Synopsis

  • Long single-molecular sequencing technologies like PacBio CCS and nanopore sequencing are effective for detecting DNA 5-methylcytosine (5mCpG) in repetitive genomic areas, but current PacBio methods lack accuracy.
  • A new deep-learning method called ccsmeth improves the detection of 5mCpGs with PacBio CCS, achieving high accuracy (0.90) and excellent correlation (>0.90) with traditional bisulfite sequencing.
  • Additionally, a Nextflow pipeline, ccsmethphase, enables haplotype-aware methylation detection and has been tested on sequencing a Chinese family trio, showcasing its robustness and accuracy.