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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

    Neuroblastoma cancer networks

    Data sets 1 Networks Single-sample 28

    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 Neuroblastoma LIONESS netZooPy 0.8
    AdjCodeVis
    TF 1132 18560 CCLE 28 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-000078 MHHNB11 908135.0 Male caucasian Adherent autonomic_ganglia Metastasis Neuroblastoma NB
    Adj359 MBVis
    ACH-000099 SIMA 753620.0 Male caucasian - autonomic_ganglia - Neuroblastoma NB
    Adj359 MBVis
    ACH-000120 CHP212 906820.0 Male - Adherent central_nervous_system - Neuroblastoma NB
    Adj359 MBVis
    ACH-000136 CHP126 910567.0 Female - - autonomic_ganglia Primary Neuroblastoma NB
    Adj359 MBVis
    ACH-000149 SKNSH 717431.0 Female - - bone_marrow Metastasis Neuroblastoma NB
    Adj359 MBVis
    ACH-000203 NH6 - Female - Mixed adherent and suspension autonomic_ganglia Metastasis Neuroblastoma NB
    Adj359 MBVis
    ACH-000227 KPNYN 907314.0 Male - Mixed adherent and suspension lymph_node Metastasis Neuroblastoma NB
    Adj359 MBVis
    ACH-000259 KELLY 753618.0 Female - - autonomic_ganglia Primary Neuroblastoma NB
    Adj359 MBVis
    ACH-000260 SKNAS 724828.0 Female caucasian Adherent bone_marrow Metastasis Neuroblastoma NB
    Adj359 MBVis
    ACH-000310 IMR32 - Male caucasian Adherent abdomen Metastasis Neuroblastoma NB
    Adj359 MBVis
    ACH-000312 SKNBE2 - Male - Mixed adherent and suspension bone_marrow Metastasis Neuroblastoma NB
    Adj359 MBVis
    ACH-000341 SKNFI 688087.0 Male caucasian Adherent bone_marrow Metastasis Neuroblastoma NB
    Adj359 MBVis
    ACH-000345 KPNRTBM1 924189.0 Female - - bone_marrow Metastasis Neuroblastoma NB
    Adj359 MBVis
    ACH-000366 SKNDZ 688086.0 Female caucasian Adherent bone_marrow Metastasis Neuroblastoma NB
    Adj359 MBVis
    ACH-000446 KPNSI9S - Male - Adherent autonomic_ganglia Metastasis Neuroblastoma NB
    Adj359 MBVis
    ACH-000804 NB1 949179.0 Male - Adherent lymph_node Metastasis Neuroblastoma NB
    Adj359 MBVis
    ACH-001300 CHLA15 - Female - not found autonomic_ganglia - Neuroblastoma -
    Adj359 MBVis
    ACH-001301 COGN278 - Unknown - not found autonomic_ganglia - Neuroblastoma -
    Adj359 MBVis
    ACH-001302 COGN305 - Unknown - not found autonomic_ganglia - Neuroblastoma -
    Adj359 MBVis
    ACH-001303 NB1643 - Male - not found abdomen - Neuroblastoma -
    Adj359 MBVis
    ACH-001344 GIMEN 906872.0 Male - Adherent bone_marrow Metastasis Neuroblastoma NB
    Adj359 MBVis
    ACH-001354 LAN2 - Female - Adherent autonomic_ganglia Primary Neuroblastoma -
    Adj359 MBVis
    ACH-001366 NGP - Male - Adherent lung Metastasis Neuroblastoma -
    Adj359 MBVis
    ACH-001367 NMB - Unknown - Adherent bone_marrow Metastasis Neuroblastoma -
    Adj359 MBVis
    ACH-001548 LS - Female - Adherent autonomic_ganglia Metastasis Neuroblastoma -
    Adj359 MBVis
    ACH-001603 NH12 908447.0 Male - - autonomic_ganglia Primary Neuroblastoma NB
    Adj359 MBVis
    ACH-001674 TGW 910780.0 Male - Adherent autonomic_ganglia Primary Neuroblastoma NB
    Adj359 MBVis
    ACH-001716 GOTO 906875.0 Male - - autonomic_ganglia - Neuroblastoma NB
    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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