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    v0.1 cell line networks
    v0.2 aggregate tissue networks
    v0.3 TF enrichement tool
    v0.4 single-sample tissue networks
    v0.5 CLUEreg tool
    v0.6 colon cancer networks
    v0.7 drug networks
    v0.7.1 API v1
    v0.8 liver, cervix, and breast cancer networks
    v0.9 miRNA tissue networks
    v0.9.1 bootstrap 5
    v1.0 glioblastoma networks
    v1.0.1 drug combinations
    v1.1 Cell line networks
    v1.2 User upload network
    v1.2.1 Gene targeting table
    v1.2.2 DRAGON miRNA network
    v1.3 Network comparison
    v1.3.1 Guided tours
    v1.4.0 CCLE multi-omic map
    v1.5.0 EGRET networks

    Esophageal cancer networks

    Data sets 1 Networks Single-sample 32

    To get the full list of phenotypic variables, please check the menu below. Click on the bar plot to access the network view page.

    Tool description

    PANDA reconstructs a gene regulatory network using TF PPI, TF DNA binding motif as regulation prior, and gene expression samples. LIONESS reconstructs sample-specific PANDA networks for each gene expression sample. To download sample-specific networks, you can check the phenotypic information and select the networks by variables of interest.

    Publication
    The reference for this network is Ben Guebila et al. (in preparation) at the following link.
    # Tissue Tool netZoo release Network
    PPI
    Motif Expression
    Regulator
    nReg
    Genes Data Samples Precision
    Reference
    1 Esophageal Cancer LIONESS netZooPy 0.8
    AdjCodeVis
    TF 1132 18560 CCLE 32 D

    Variable description

    You can specify the sample network to download by phenotypic variable and you will get a TF/miRNA-by-gene matrix named after the CCLE sample reference. The number of edges is the number of TFs/miRNA * number of genes (~ 106).

    DepMap ID
    Cell name COSMIC ID
    Sex Race Culture Collection site
    Type
    Cancer
    TCGA code
    Network
    ACH-000216 JHESOAD1 - Male - - oesophagus - Esophageal Cancer ESCA
    Adj359 MBVis
    ACH-000305 ECGI10 753555.0 Male - - lymph_node - Esophageal Cancer ESCA
    Adj359 MBVis
    ACH-000318 TE10 753622.0 Male - - oesophagus Primary Esophageal Cancer ESCA
    Adj359 MBVis
    ACH-000353 TE15 753614.0 Female - - oesophagus Primary Esophageal Cancer ESCA
    Adj359 MBVis
    ACH-000383 OE33 910549.0 Female caucasian Adherent oesophagus Primary Esophageal Cancer ESCA
    Adj359 MBVis
    ACH-000408 TE5 735784.0 Female - - oesophagus - Esophageal Cancer ESCA
    Adj359 MBVis
    ACH-000452 TE8 753623.0 Male - - oesophagus - Esophageal Cancer ESCA
    Adj359 MBVis
    ACH-000488 TE11 946354.0 Male - - oesophagus Primary Esophageal Cancer ESCA
    Adj359 MBVis
    ACH-000544 OE21 1298359.0 Male - Adherent oesophagus Primary Esophageal Cancer ESCA
    Adj359 MBVis
    ACH-000561 TDOTT 1299064.0 Male - - bone Metastasis Esophageal Cancer ESCA
    Adj359 MBVis
    ACH-000605 TE6 946355.0 Male - Adherent oesophagus - Esophageal Cancer ESCA
    Adj359 MBVis
    ACH-000637 KYSE520 753575.0 Female asian Adherent oesophagus Primary Esophageal Cancer ESCA
    Adj359 MBVis
    ACH-000647 TE1 753621.0 Male - - oesophagus Primary Esophageal Cancer ESCA
    Adj359 MBVis
    ACH-000679 OE19 910079.0 Male - - oesophagus Primary Esophageal Cancer ESCA
    Adj359 MBVis
    ACH-000693 KYSE180 907318.0 Male asian Adherent oesophagus Primary Esophageal Cancer ESCA
    Adj359 MBVis
    ACH-000694 TE9 946353.0 Male - Adherent pleural_effusion Metastasis Esophageal Cancer ESCA
    Adj359 MBVis
    ACH-000717 COLO680N 906817.0 Female african_american - oesophagus - Esophageal Cancer ESCA
    Adj359 MBVis
    ACH-000726 TE14 - Male - - oesophagus - Esophageal Cancer ESCA
    Adj359 MBVis
    ACH-000777 KYSE30 - Male asian Adherent oesophagus Primary Esophageal Cancer ESCA
    Adj359 MBVis
    ACH-000784 KYSE70 753576.0 Male asian - oesophagus Primary Esophageal Cancer ESCA
    Adj359 MBVis
    ACH-000809 KYSE410 753574.0 Male asian Adherent oesophagus Primary Esophageal Cancer ESCA
    Adj359 MBVis
    ACH-000823 KYSE140 753573.0 Male asian Adherent oesophagus Primary Esophageal Cancer ESCA
    Adj359 MBVis
    ACH-000824 KYSE510 907321.0 Female asian - oesophagus Primary Esophageal Cancer ESCA
    Adj359 MBVis
    ACH-000855 KYSE150 907317.0 Female asian Adherent oesophagus Primary Esophageal Cancer ESCA
    Adj359 MBVis
    ACH-000865 KYSE450 907320.0 Male asian Adherent oesophagus Primary Esophageal Cancer ESCA
    Adj359 MBVis
    ACH-000873 KYSE270 907319.0 Male asian Adherent oesophagus Primary Esophageal Cancer ESCA
    Adj359 MBVis
    ACH-000917 TE4 1503371.0 Female - - lymph_node - Esophageal Cancer ESCA
    Adj359 MBVis
    ACH-001368 OACM51 1503363.0 Female - Suspension lymph_node Metastasis Esophageal Cancer ESCA
    Adj359 MBVis
    ACH-001496 ESO26 1503366.0 Male - Loosely Adherent oesophagus Primary Esophageal Cancer ESCA
    Adj359 MBVis
    ACH-001497 ESO51 1503367.0 Male - Suspension oesophagus Primary Esophageal Cancer ESCA
    Adj359 MBVis
    ACH-001500 FLO1 1503361.0 Male - Adherent oesophagus Primary Esophageal Cancer ESCA
    Adj359 MBVis
    ACH-001654 SKGT4 1503365.0 Male - Adherent oesophagus Primary Esophageal Cancer ESCA
    Adj359 MBVis
    DepMap ID CCLE Name COSMIC ID Sex Race Culture Collection site Type Cancer TCGA code Network
    Contact

    Department of Biostatistics
    Harvard T.H. Chan School of Public Health

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