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  • Analysis of blood methylation quantitative trait loci in East Asians identifies ancestry-specific effects associated with complex trait variation

    Sijia Wang, , 2021.11.16

    Description

    Methylation quantitative trait loci (mQTLs) are essential for understanding the role of DNA methylation changes in genetic predisposition, yet they have not been fully characterized in East Asians. We identified mQTLs in whole blood from 3,523 Chinese individuals and replicated them in additional 1,858 Chinese individuals from two cohorts. Over 9% of mQTLs displayed specificity to East-Asians, facilitating the fine-mapping of EA-specific genetic associations, as shown for variants associated with height. Trans-mQTLs hotspots revealed biological pathways contributing to EA-specific genetic associations, including an ERG-mediated 233 trans-mCpG network, implicated in hematopoietic cell differentiation, which reflects binding efficiency modulation of the ERG protein complex. More than 90% of mQTLs were shared between different blood cell-lineages, with the smaller fraction of lineage-specific mQTLs displaying preferential hypomethylation in the respective lineages. Our study provides new insights into the mQTL landscape across ethnicities and their downstream effects on cellular processes and diseases/traits.

    Analysis type

    Other

    OEZ008120

  • Genetic variants in Telomerase Reverse Transcriptase contribute to solar lentigines

    Sijia Wang, , 2021.12.08

    Description

    Aged individuals often show pigmentation changes in skin epithelium and its appendages. Among these phenotypes, Solar lentigines (SL), characterized by a localized accumulation of melanocytes in skin epidermis, are result from chronic sunlight exposure. Susceptibility to SL varies significantly among individuals, but the underlying genetic mechanisms were not well understood. Here we carried out GWAS of facial and non-facial SL in two East Asian and one Caucasian populations.

    Analysis type

    Other

    OEZ008165

  • CK1_MEGAHIT.assembly

    Xiaolan Lin, Xiamen University, 2023.05.17

    Analysis type

    De novo Assembly

    OEZ014093

  • N60_MEGAHIT.assembly

    Xiaolan Lin, Xiamen University, 2023.05.17

    Analysis type

    De novo Assembly

    OEZ014092

  • BN60_MEGAHIT.assembly

    Xiaolan Lin, Xiamen University, 2023.05.17

    Analysis type

    De novo Assembly

    OEZ014091

  • CK60_MEGAHIT.assembly

    Xiaolan Lin, Xiamen University, 2023.05.17

    Analysis type

    De novo Assembly

    OEZ014090

  • B60_MEGAHIT.assembly

    Xiaolan Lin, Xiamen University, 2023.05.17

    Analysis type

    De novo Assembly

    OEZ014094

  • T-ALL expression

    Yuting Dai, Shanghai Institute of Hematology, 2023.05.17

    Analysis type

    Other

    OEZ014089

  • Deep-rRNA

    Yu Zhang, , 2023.02.23

    Description

    Multiple sources including Greengenes (v4.8.1, 2019.5.1), RDP (v11.5, 2016.9.10), Rfam (v14.3, 2021.9), SILVA (v138, 2021.9), and NCBI 16S rRNA sequence (PRJNA33317, PRJNA33175) were downloaded and merged into a uniform format by scripts from riboPicker. The redundant rRNA sequences were further discarded using the prinseq-lite.pl from PRINSEQ after the sequence files were merged.

    Analysis type

    Other

    OEZ013256

  • Standard Genome Reference (Mock-Ref)

    Yu Zhang, , 2023.02.23

    Description

    This is the pooled reference genomes composed of 10 selected strains (Mock-Ref) used in MT-DeepSea.

    Analysis type

    Reference Alignment

    OEZ013255