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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

    Bladder cancer networks

    Data sets 1 Networks Single-sample 36

    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 Bladder Cancer LIONESS netZooPy 0.8
    AdjCodeVis
    TF 1132 18560 CCLE 36 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-000011 253J - Male - - lymph_node Metastasis Bladder Cancer BLCA
    Adj359 MBVis
    ACH-000018 T24 724812.0 Female caucasian Adherent urinary_tract Primary Bladder Cancer BLCA
    Adj359 MBVis
    ACH-000026 253JBV - Male - Adherent lymph_node Metastasis Bladder Cancer BLCA
    Adj359 MBVis
    ACH-000142 CAL29 1290730.0 Female - Adherent urinary_tract Primary Bladder Cancer BLCA
    Adj359 MBVis
    ACH-000242 RT4 687455.0 Male caucasian Adherent urinary_tract Primary Bladder Cancer BLCA
    Adj359 MBVis
    ACH-000384 SW780 687457.0 Female caucasian - urinary_tract Primary Bladder Cancer BLCA
    Adj359 MBVis
    ACH-000396 J82 753566.0 Male caucasian Adherent urinary_tract Primary Bladder Cancer BLCA
    Adj359 MBVis
    ACH-000473 RT112 909704.0 Female - Adherent urinary_tract Primary Bladder Cancer BLCA
    Adj359 MBVis
    ACH-000486 KU1919 907312.0 Male - Adherent urinary_tract - Bladder Cancer BLCA
    Adj359 MBVis
    ACH-000522 UMUC3 724838.0 Male - Adherent urinary_tract Primary Bladder Cancer BLCA
    Adj359 MBVis
    ACH-000545 VMCUB1 909780.0 Male - Adherent urinary_tract Primary Bladder Cancer BLCA
    Adj359 MBVis
    ACH-000547 HT1197 907065.0 Male caucasian Adherent urinary_tract Primary Bladder Cancer BLCA
    Adj359 MBVis
    ACH-000566 SW1710 909749.0 Female caucasian - urinary_tract Primary Bladder Cancer BLCA
    Adj359 MBVis
    ACH-000593 BC3C - Female caucasian Adherent urinary_tract Primary Bladder Cancer BLCA
    Adj359 MBVis
    ACH-000720 TCCSUP 687459.0 Female - Adherent urinary_tract Primary Bladder Cancer BLCA
    Adj359 MBVis
    ACH-000724 HT1376 907066.0 Female caucasian Adherent urinary_tract Primary Bladder Cancer BLCA
    Adj359 MBVis
    ACH-000741 UBLC1 - Female - Adherent urinary_tract Primary Bladder Cancer BLCA
    Adj359 MBVis
    ACH-000753 JMSU1 - Male - Adherent ascites Metastasis Bladder Cancer BLCA
    Adj359 MBVis
    ACH-000802 BFTC905 910926.0 Female asian Adherent urinary_tract Primary Bladder Cancer BLCA
    Adj359 MBVis
    ACH-000834 UMUC1 - Male african_american Adherent lymph_node Metastasis Bladder Cancer BLCA
    Adj359 MBVis
    ACH-000839 SCABER - Male african_american Adherent urinary_tract Primary Bladder Cancer BLCA
    Adj359 MBVis
    ACH-000862 KMBC2 - Unknown - - urinary_tract Primary Bladder Cancer BLCA
    Adj359 MBVis
    ACH-000896 647V 906797.0 Male - Adherent urinary_tract Primary Bladder Cancer BLCA
    Adj359 MBVis
    ACH-000905 5637 687452.0 Male caucasian Adherent urinary_tract - Bladder Cancer BLCA
    Adj359 MBVis
    ACH-000973 639V 906798.0 Male caucasian Adherent urinary_tract Primary Bladder Cancer BLCA
    Adj359 MBVis
    ACH-001183 RT11284 - Female - not found urinary_tract - Bladder Cancer BLCA
    Adj359 MBVis
    ACH-001407 UMUC13 - Male - Adherent lymph_node Metastasis Bladder Cancer -
    Adj359 MBVis
    ACH-001408 UMUC14 - Male - Adherent urinary_tract Metastasis Bladder Cancer -
    Adj359 MBVis
    ACH-001409 UMUC16 - Unknown - Adherent urinary_tract Primary Bladder Cancer -
    Adj359 MBVis
    ACH-001410 UMUC4 - Female - - lymph_node Metastasis Bladder Cancer -
    Adj359 MBVis
    ACH-001411 UMUC5 - Female - Adherent urinary_tract Primary Bladder Cancer -
    Adj359 MBVis
    ACH-001412 UMUC10 - Unknown - Adherent urinary_tract Primary Bladder Cancer -
    Adj359 MBVis
    ACH-001413 UMUC11 - Male - Adherent urinary_tract Primary Bladder Cancer -
    Adj359 MBVis
    ACH-001414 UMUC6 - Male - Adherent urinary_tract Primary Bladder Cancer -
    Adj359 MBVis
    ACH-001415 UMUC7 - Male - Adherent urinary_tract Primary Bladder Cancer -
    Adj359 MBVis
    ACH-001416 UMUC9 - Male - Adherent urinary_tract Primary Bladder Cancer -
    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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