Flongle data for KnowYourCG: Facilitating base-level sparse methylome interpretation
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ONT-based 5mC and 5hmC signals across four mouse tissues (lung, blood, uterus, and cortex) profiled with low-pass Flongle flowcells (~1M CpGs per sample). Decoding DNA methylomes for biological insights is critical in epigenetics research. We present KnowYourCG (KYCG), a data interpretation framework designed for functional DNA methylation analysis. Unlike existing tools that target genes or genomic intervals, KYCG features direct base-level screenings of diverse biological and technical influences, including sequence motifs, transcription factor binding, histone modifications, replication timing, cell-type-specific methylation, and trait associations. Through implementing efficient infrastructure that rapidly screens and investigates thousands of knowledge bases, KYCG addresses the challenges of data sparsity in various methylation datasets, including low-pass or single-cell DNA methylomes, 5-hydroxymethylation profiles, spatial DNA methylation maps, and array-based datasets ..., , # Flongle data for KnowYourCG: Facilitating base-level sparse methylome interpretation Dataset DOI: [10.5061/dryad.zgmsbccq9](10.5061/dryad.zgmsbccq9) ## Description of the data and file structure Oxford Nanopore Technology (ONT) is an emerging approach to directly discriminate 5mC, 5hmC, and unmodified C from ion current signals, bypassing cytosine deamination methods that cannot separate 5mC and 5hmC. Here, we provide ONT-based 5mC signals across four mouse tissues (lung, blood, uterus, and cortex) profiled with low-pass Flongle flowcells (~1M CpGs per sample). Each of the four mouse tissues is stored as .cg file to capture the methylation information. ### Files and variables #### File: uterus.tar **Description:** uterus 20231207_1654_MN36407_AQY317_deaa9eb5 * Contents: One `.cg` file (`uterus_20231207_1654_MN36407_AQY317_deaa9eb5.cg`) * Tissue type: Mouse uterus * Sequencing date: 2023-12-07 * Flowcell ID: MN36407 * Experiment tag: AQY317 * Approx. coverage: ~1M CpGs * Notes:...,
基于牛津纳米孔测序技术（Oxford Nanopore Technology，ONT）的5-甲基胞嘧啶（5mC）与5-羟甲基胞嘧啶（5hmC）信号数据集，涵盖4种小鼠组织（肺、血液、子宫及大脑皮层），采用低通量Flongle测序流动槽进行测序，每个样本约覆盖100万个CpG位点。表观遗传学研究中，解码DNA甲基化组以获取生物学洞见至关重要。本研究发布KnowYourCG（KYCG）——一款专为功能性DNA甲基化分析设计的数据解读框架。与现有针对基因或基因组区间的工具不同，KYCG支持直接对碱基级别的多种生物学与技术影响因素进行筛选，包括序列基序、转录因子结合、组蛋白修饰、复制时序、细胞类型特异性甲基化以及性状关联。通过搭建可快速筛查与调研数千个知识库的高效基础设施，KYCG可解决多种甲基化数据集的数据稀疏性挑战，涵盖低通量或单细胞DNA甲基化组、5-羟甲基化谱、空间DNA甲基化图谱以及基于芯片的数据集…… # 用于KnowYourCG的Flongle数据：助力碱基级稀疏甲基组解读 数据集DOI：[10.5061/dryad.zgmsbccq9] ## 数据与文件结构说明 牛津纳米孔测序技术（ONT）是一种新兴的直接通过离子电流信号区分5mC、5hmC与未修饰胞嘧啶的方法，规避了无法区分5mC与5hmC的胞嘧啶脱氨法。本数据集提供基于ONT的4种小鼠组织的5mC信号，采用低通量Flongle测序流动槽进行测序，每个样本约覆盖100万个CpG位点。4种小鼠组织的数据均存储为.cg格式文件，以捕获甲基化信息。 ### 文件与变量 #### 文件：uterus.tar **描述：** uterus 20231207_1654_MN36407_AQY317_deaa9eb5 * 内容：1个.cg格式文件（`uterus_20231207_1654_MN36407_AQY317_deaa9eb5.cg`） * 组织类型：小鼠子宫 * 测序日期：2023-12-07 * 流动槽ID：MN36407 * 实验标签：AQY317 * 大致覆盖度：约100万个CpG位点 * 备注：……
