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  • Changelog
    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

    Kidney cancer networks

    Data sets 1 Networks Single-sample 37

    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 Kidney Cancer LIONESS netZooPy 0.8
    AdjCodeVis
    TF 1132 18560 CCLE 37 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-000016 SLR21 - Unknown - - kidney Metastasis Kidney Cancer KIRC
    Adj359 MBVis
    ACH-000046 ACHN 905950.0 Male caucasian - pleural_effusion Metastasis Kidney Cancer KIRC
    Adj359 MBVis
    ACH-000127 SLR20 - Unknown - Adherent kidney Primary Kidney Cancer KIRC
    Adj359 MBVis
    ACH-000159 OSRC2 909250.0 Male - - kidney Primary Kidney Cancer KIRC
    Adj359 MBVis
    ACH-000171 VMRCRCZ 909781.0 Unknown asian - kidney Primary Kidney Cancer KIRC
    Adj359 MBVis
    ACH-000189 RCC10RGB 909974.0 Male asian Adherent kidney Primary Kidney Cancer KIRC
    Adj359 MBVis
    ACH-000234 CAKI2 - Male caucasian Adherent kidney Primary Kidney Cancer KIRC
    Adj359 MBVis
    ACH-000246 SLR23 - Unknown - Adherent kidney Metastasis Kidney Cancer KIRC
    Adj359 MBVis
    ACH-000250 KMRC20 1298169.0 Unknown - Adherent kidney Primary Kidney Cancer KIRC
    Adj359 MBVis
    ACH-000262 UOK101 - Female - not found kidney - Kidney Cancer KIRC
    Adj359 MBVis
    ACH-000272 SLR24 - Unknown - Adherent kidney Primary Kidney Cancer KIRC
    Adj359 MBVis
    ACH-000300 SLR25 - Unknown - - kidney Metastasis Kidney Cancer KIRC
    Adj359 MBVis
    ACH-000313 KMRC3 - Male asian Adherent kidney Primary Kidney Cancer KIRC
    Adj359 MBVis
    ACH-000317 TUHR14TKB - Male - Adherent kidney Primary Kidney Cancer KIRC
    Adj359 MBVis
    ACH-000375 G402 907298.0 Female caucasian - kidney Primary Kidney Cancer SARC
    Adj359 MBVis
    ACH-000385 SKRC20 - Unknown - not found kidney - Kidney Cancer KIRC
    Adj359 MBVis
    ACH-000411 769P 910922.0 Female caucasian Adherent kidney Primary Kidney Cancer KIRC
    Adj359 MBVis
    ACH-000428 UO31 905981.0 Unknown - - kidney - Kidney Cancer KIRC
    Adj359 MBVis
    ACH-000429 A704 910920.0 Male - - kidney Primary Kidney Cancer KIRC
    Adj359 MBVis
    ACH-000433 CAKI1 905963.0 Male caucasian Adherent skin Metastasis Kidney Cancer KIRC
    Adj359 MBVis
    ACH-000457 CAL54 910952.0 Male - - pleural_effusion Metastasis Kidney Cancer KIRC
    Adj359 MBVis
    ACH-000459 TUHR10TKB - Male - - kidney Primary Kidney Cancer KIRC
    Adj359 MBVis
    ACH-000484 VMRCRCW 1240224.0 Male - Adherent kidney Primary Kidney Cancer KIRC
    Adj359 MBVis
    ACH-000495 TUHR4TKB - Male - Adherent kidney Primary Kidney Cancer KIRC
    Adj359 MBVis
    ACH-000513 SNU1272 - Female asian - kidney - Kidney Cancer KIRC
    Adj359 MBVis
    ACH-000555 A498 905948.0 Male - - kidney Primary Kidney Cancer KIRC
    Adj359 MBVis
    ACH-000600 SLR26 - Unknown - not found kidney Primary Kidney Cancer KIRC
    Adj359 MBVis
    ACH-000649 786O 905947.0 Male caucasian Adherent kidney Primary Kidney Cancer KIRC
    Adj359 MBVis
    ACH-000684 KMRC1 1298168.0 Male - - kidney Primary Kidney Cancer KIRC
    Adj359 MBVis
    ACH-000709 KMRC2 - Male asian - kidney Primary Kidney Cancer KIRC
    Adj359 MBVis
    ACH-000792 BFTC909 910698.0 Male asian - kidney Primary Kidney Cancer KIRC
    Adj359 MBVis
    ACH-000907 SNU349 - Male asian Adherent kidney Primary Kidney Cancer KIRC
    Adj359 MBVis
    ACH-001163 CCLFPEDS0001T - Male - not found kidney Metastasis Kidney Cancer -
    Adj359 MBVis
    ACH-001194 SKRC31 - Unknown - not found lung Metastasis Kidney Cancer KIRC
    Adj359 MBVis
    ACH-001398 SW156 1240220.0 Male - - kidney Primary Kidney Cancer KIRC
    Adj359 MBVis
    ACH-001687 UMRC3 - Unknown - Adherent kidney Primary Kidney Cancer -
    Adj359 MBVis
    ACH-001688 UMRC7 - Male - Adherent kidney Primary Kidney 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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