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    Supplementary Table 1. Total 123 Types of Annotations Used With Resources and Descriptions

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    Luama Araújo
    This document lists 123 types of annotations from various resources including the Broad Institute, Roadmap Epigenomics Project, and FANTOM5 project. It describes cell and tissue-specific annotations such as 15-state chromatin models for adipose and mesenchymal stem cells, as well as histone modifications, enhancers, promoters, and super-enhancers.

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    Supplementary Table 1. Total 123 Types of Annotations Used With Resources and Descriptions

    Uploaded by

    Luama Araújo
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    This document lists 123 types of annotations from various resources including the Broad Institute, Roadmap Epigenomics Project, and FANTOM5 project. It describes cell and tissue-specific annotations such as 15-state chromatin models for adipose and mesenchymal stem cells, as well as histone modifications, enhancers, promoters, and super-enhancers.

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    This document lists 123 types of annotations from various resources including the Broad Institute, Roadmap Epigenomics Project, and FANTOM5 project. It describes cell and tissue-specific annotations such as 15-state chromatin models for adipose and mesenchymal stem cells, as well as histone modifications, enhancers, promoters, and super-enhancers.

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    Download as xlsx, pdf, or txt
    14 views6 pages

    Supplementary Table 1. Total 123 Types of Annotations Used With Resources and Descriptions

    Uploaded by

    Luama Araújo
    This document lists 123 types of annotations from various resources including the Broad Institute, Roadmap Epigenomics Project, and FANTOM5 project. It describes cell and tissue-specific annotations such as 15-state chromatin models for adipose and mesenchymal stem cells, as well as histone modifications, enhancers, promoters, and super-enhancers.

    Copyright:

    © All Rights Reserved
    Download as XLSX, PDF, TXT or read online from Scribd
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    of 6

    Supplementary Table 1.

    Total 123 types of annotations used with resources and descriptions


    Annotation Types Resource Description/Abbreviation
    General Broad Institute Coding
    UTR
    Promotor
    DHSs
    Intron
    Intergenic Region

    Cell and Tissue-speciRoadmap Epigenomics Project


    1) Adipose Nuclei Core 15-state model TssA
    TssAFlnk
    TxFlnk
    Tx
    TxWk
    EnhG
    Enh
    ZNF/Rpts
    Het
    TssBiv
    BivFlnk
    EnhBiv
    ReprPC
    ReprPCWk
    Quies
    Imputed Narrow Peak DNase
    H2A.Z
    H2AK5ac
    H2AK9ac
    H2BK12ac
    H2BK120ac
    H2BK15ac
    H2BK20ac
    H2BK5ac
    H3K14ac
    H3K18ac
    H3K23ac
    H3K23me2
    H3K56ac
    H3K27ac
    H3K27me3
    H3K36me3
    H3K4ac
    H3K4me1
    H3K4me2
    H3K4me3
    H3K79me1
    H3K79me2
    H3K9ac
    H3K9me1
    H3K9me3
    H3T11ph
    H4K12ac
    H4K20me1
    H4K5ac
    H4K8ac
    H4K91ac
    Assayed Narrow Peak H3K27ac
    H3K27me3
    H3K36me3
    H3K4me1
    H3K4me3
    H3K9ac
    H3K9me3
    Enhancers regions enh
    Promoter regions prom
    Dyadic regions dyadic
    Hinsz D. et al. 2013 Super-enhacers BI

    2) Mesenchymal stemCore
    c 15-state model TssA
    TssAFlnk
    TxFlnk
    Tx
    TxWk
    EnhG
    Enh
    ZNF/Rpts
    Het
    TssBiv
    BivFlnk
    EnhBiv
    ReprPC
    ReprPCWk
    Quies
    Imputed Narrow Peak DNase
    H2A.Z
    H2AK5ac
    H2AK9ac
    H2BK12ac
    H2BK120ac
    H2BK15ac
    H2BK20ac
    H2BK5ac
    H3K14ac
    H3K18ac
    H3K23ac
    H3K23me2
    H3K56ac
    H3K27ac
    H3K27me3
    H3K36me3
    H3K4ac
    H3K4me1
    H3K4me2
    H3K4me3
    H3K79me1
    H3K79me2
    H3K9ac
    H3K9me1
    H3K9me3
    H3T11ph
    H4K12ac
    H4K20me1
    H4K5ac
    H4K8ac
    H4K91ac
    Assayed Narrow Peak H3K27ac
    H3K27me3
    H3K36me3
    H3K4me1
    H3K4me3
    H3K9ac
    H3K9me3
    Enhancers regions enh
    Promoter regions prom
    Dyadic regions dyadic

    3) Adipose Tissue FANTOM5 Differentialy expressed enhance


    Hinsz D. et al. 2013 Super-enhacers UCSD
    d with resources and descriptions
    Description

    Active transcription start site (TSS)


    Flanking active TSS
    Transcrition at gene 5' and 3'
    Strong transcription
    Weak transcription
    Genic enhancers
    Enhancers
    ZNF genes & repeats
    Heterochromatin
    Bivalent/Poised TSS
    Flanking Bivalent TSS/Enh
    Bivalent Enhancer
    Repressed PolyComb
    Weak Repressed PolyComb
    Quiescent/Low
    DHSs region
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Overlap of DHS with EnhG, Enh, and ENhBiv for enhancers
    Overlap of DHS with TssA, TssAFlnk, and TssBiv
    Overlap of DHS with BivFlnk
    Super-enhancers based on data from National Center for Biotechnology Information (NCBI)

    Active transcription start site (TSS)


    Flanking active TSS
    Transcrition at gene 5' and 3'
    Strong transcription
    Weak transcription
    Genic enhancers
    Enhancers
    ZNF genes & repeats
    Heterochromatin
    Bivalent/Poised TSS
    Flanking Bivalent TSS/Enh
    Bivalent Enhancer
    Repressed PolyComb
    Weak Repressed PolyComb
    Quiescent/Low
    DHSs region
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Histone modification
    Overlap of DHS with EnhG, Enh, and ENhBiv for enhancers
    Overlap of DHS with TssA, TssAFlnk, and TssBiv
    Overlap of DHS with BivFlnk

    Enhancers
    Super-enhancers based on data from University of California San Diego (UCSD)

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