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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

    Brain cancer networks

    Data sets 1 Networks Single-sample 84

    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 Brain Cancer LIONESS netZooPy 0.8
    AdjCodeVis
    TF 1132 18560 CCLE 84 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-000025 CH157MN - Female - Semi-adherent central_nervous_system - Brain Cancer -
    Adj359 MBVis
    ACH-000027 GOS3 - Male - - central_nervous_system Primary Brain Cancer -
    Adj359 MBVis
    ACH-000036 U343 - Unknown - Adherent central_nervous_system - Brain Cancer -
    Adj359 MBVis
    ACH-000040 U118MG 687588.0 Male - Adherent central_nervous_system Primary Brain Cancer GBM
    Adj359 MBVis
    ACH-000055 D283MED 906834.0 Male caucasian Adherent abdomen Metastasis Brain Cancer MB
    Adj359 MBVis
    ACH-000067 HS683 1240150.0 Male caucasian Adherent central_nervous_system Primary Brain Cancer LGG
    Adj359 MBVis
    ACH-000075 U87MG 687590.0 Unknown caucasian Adherent central_nervous_system Primary Brain Cancer GBM
    Adj359 MBVis
    ACH-000095 D341 - Male - - central_nervous_system - Brain Cancer MB
    Adj359 MBVis
    ACH-000098 GAMG 906868.0 Female - Adherent central_nervous_system Primary Brain Cancer LGG
    Adj359 MBVis
    ACH-000102 GMS10 906873.0 Male - - central_nervous_system Primary Brain Cancer GBM
    Adj359 MBVis
    ACH-000126 KG1C - Male - - central_nervous_system Primary Brain Cancer GBM
    Adj359 MBVis
    ACH-000128 LN319 - Male - Adherent central_nervous_system - Brain Cancer -
    Adj359 MBVis
    ACH-000137 8MGBA 687562.0 Female african_american Adherent central_nervous_system Primary Brain Cancer GBM
    Adj359 MBVis
    ACH-000152 M059K - Male - Adherent central_nervous_system Primary Brain Cancer GBM
    Adj359 MBVis
    ACH-000200 NMCG1 908449.0 Female - Adherent central_nervous_system Primary Brain Cancer LGG
    Adj359 MBVis
    ACH-000208 U178 - Male - not found central_nervous_system - Brain Cancer -
    Adj359 MBVis
    ACH-000211 DAOY 906833.0 Male caucasian Adherent central_nervous_system Primary Brain Cancer MB
    Adj359 MBVis
    ACH-000215 LN382 - Male - Adherent central_nervous_system - Brain Cancer -
    Adj359 MBVis
    ACH-000231 KALS1 907271.0 Female - - central_nervous_system Primary Brain Cancer LGG
    Adj359 MBVis
    ACH-000232 U251MG 905983.0 Male - - central_nervous_system Primary Brain Cancer GBM
    Adj359 MBVis
    ACH-000244 DKMG 906839.0 Female - Adherent central_nervous_system Primary Brain Cancer GBM
    Adj359 MBVis
    ACH-000269 AM38 910933.0 Male - - central_nervous_system Primary Brain Cancer GBM
    Adj359 MBVis
    ACH-000273 SF539 905984.0 Female - Mixed adherent and suspension central_nervous_system Primary Brain Cancer LGG
    Adj359 MBVis
    ACH-000283 A1207 - Female - - central_nervous_system - Brain Cancer -
    Adj359 MBVis
    ACH-000289 SNU466 - Male asian - central_nervous_system - Brain Cancer GBM
    Adj359 MBVis
    ACH-000323 42MGBA 687561.0 Male - Adherent central_nervous_system Primary Brain Cancer GBM
    Adj359 MBVis
    ACH-000328 LN215 - Female - - central_nervous_system - Brain Cancer -
    Adj359 MBVis
    ACH-000329 CCFSTTG1 906823.0 Female caucasian Adherent central_nervous_system Primary Brain Cancer GBM
    Adj359 MBVis
    ACH-000368 SNU1105 - Male asian - central_nervous_system Primary Brain Cancer GBM
    Adj359 MBVis
    ACH-000370 SNU626 - Male asian - central_nervous_system - Brain Cancer GBM
    Adj359 MBVis
    ACH-000376 SF295 905985.0 Female - Adherent central_nervous_system Primary Brain Cancer GBM
    Adj359 MBVis
    ACH-000389 H4 907042.0 Male caucasian Adherent central_nervous_system Primary Brain Cancer LGG
    Adj359 MBVis
    ACH-000437 SW1088 909745.0 Male caucasian Adherent central_nervous_system Primary Brain Cancer GBM
    Adj359 MBVis
    ACH-000445 KNS60 - Male - - central_nervous_system Primary Brain Cancer GBM
    Adj359 MBVis
    ACH-000455 LN428 - Male - not found central_nervous_system - Brain Cancer -
    Adj359 MBVis
    ACH-000464 CAS1 910943.0 Male - Adherent central_nervous_system Primary Brain Cancer GBM
    Adj359 MBVis
    ACH-000469 YH13 909905.0 Male - Adherent central_nervous_system Primary Brain Cancer GBM
    Adj359 MBVis
    ACH-000479 KNS81 - Male - - central_nervous_system Primary Brain Cancer GBM
    Adj359 MBVis
    ACH-000490 SF767 - Female - not found stomach Metastasis Brain Cancer CESC
    Adj359 MBVis
    ACH-000504 SNB75 905982.0 Female - Adherent central_nervous_system Primary Brain Cancer GBM
    Adj359 MBVis
    ACH-000543 SNU489 - Male asian - central_nervous_system - Brain Cancer GBM
    Adj359 MBVis
    ACH-000558 A172 687563.0 Male - - central_nervous_system Primary Brain Cancer GBM
    Adj359 MBVis
    ACH-000570 YKG1 687592.0 Female - - central_nervous_system Primary Brain Cancer GBM
    Adj359 MBVis
    ACH-000571 T98G 687586.0 Male caucasian Adherent central_nervous_system Primary Brain Cancer GBM
    Adj359 MBVis
    ACH-000591 LN235 - Male - not found central_nervous_system - Brain Cancer -
    Adj359 MBVis
    ACH-000592 TM31 - Female - - central_nervous_system - Brain Cancer -
    Adj359 MBVis
    ACH-000595 LN229 1240169.0 Female caucasian - central_nervous_system Primary Brain Cancer GBM
    Adj359 MBVis
    ACH-000609 SF126 909712.0 Female - - central_nervous_system Primary Brain Cancer GBM
    Adj359 MBVis
    ACH-000622 KNS42 907282.0 Male - Adherent central_nervous_system Primary Brain Cancer LGG
    Adj359 MBVis
    ACH-000623 SNU201 - Male asian - central_nervous_system Primary Brain Cancer GBM
    Adj359 MBVis
    ACH-000629 IOMMLEE - Male - - central_nervous_system - Brain Cancer -
    Adj359 MBVis
    ACH-000631 KS1 907313.0 Female - - central_nervous_system Primary Brain Cancer GBM
    Adj359 MBVis
    ACH-000634 LN340 - Male - not found central_nervous_system - Brain Cancer -
    Adj359 MBVis
    ACH-000655 SF268 905986.0 Female - Mixed adherent and suspension central_nervous_system Primary Brain Cancer GBM
    Adj359 MBVis
    ACH-000673 LN443 - Unknown - not found central_nervous_system - Brain Cancer -
    Adj359 MBVis
    ACH-000676 LN464 - Male - not found central_nervous_system - Brain Cancer -
    Adj359 MBVis
    ACH-000738 GB1 687568.0 Male - - central_nervous_system Primary Brain Cancer GBM
    Adj359 MBVis
    ACH-000756 GI1 906871.0 Male asian Adherent central_nervous_system Primary Brain Cancer LGG
    Adj359 MBVis
    ACH-000760 LNZ308 - Unknown - not found central_nervous_system - Brain Cancer LGG
    Adj359 MBVis
    ACH-000776 ONS76 909248.0 Female - - central_nervous_system Primary Brain Cancer MB
    Adj359 MBVis
    ACH-000807 SNU738 - Male asian - central_nervous_system - Brain Cancer -
    Adj359 MBVis
    ACH-000819 LN18 1240168.0 Male caucasian Adherent central_nervous_system Primary Brain Cancer GBM
    Adj359 MBVis
    ACH-000863 DBTRG05MG 906835.0 Female caucasian - central_nervous_system Primary Brain Cancer GBM
    Adj359 MBVis
    ACH-000883 SW1783 909750.0 Male caucasian - central_nervous_system Primary Brain Cancer LGG
    Adj359 MBVis
    ACH-000887 SF172 - Female - not found central_nervous_system - Brain Cancer -
    Adj359 MBVis
    ACH-001016 BECKER 906746.0 Male - - central_nervous_system - Brain Cancer GBM
    Adj359 MBVis
    ACH-001053 D425 - Unknown - not found central_nervous_system - Brain Cancer -
    Adj359 MBVis
    ACH-001054 D458 - Unknown - not found central_nervous_system - Brain Cancer -
    Adj359 MBVis
    ACH-001067 F5 - Male - not found central_nervous_system - Brain Cancer -
    Adj359 MBVis
    ACH-001172 R256 - Unknown - not found central_nervous_system - Brain Cancer -
    Adj359 MBVis
    ACH-001173 R262 - Unknown - not found central_nervous_system - Brain Cancer -
    Adj359 MBVis
    ACH-001201 SUMB002 - Unknown - - central_nervous_system - Brain Cancer -
    Adj359 MBVis
    ACH-001232 UW228 - Female - not found central_nervous_system - Brain Cancer -
    Adj359 MBVis
    ACH-001329 ANGMCSS - Male - Adherent central_nervous_system Primary Brain Cancer -
    Adj359 MBVis
    ACH-001605 NO10 908452.0 Male - - central_nervous_system Primary Brain Cancer LGG
    Adj359 MBVis
    ACH-001608 NP2 - Male - Adherent central_nervous_system Primary Brain Cancer -
    Adj359 MBVis
    ACH-001609 NP3 - Male - Adherent central_nervous_system Primary Brain Cancer -
    Adj359 MBVis
    ACH-001610 NP5 - Male - Adherent central_nervous_system Primary Brain Cancer -
    Adj359 MBVis
    ACH-001611 NP8 - Female - Adherent central_nervous_system Primary Brain Cancer -
    Adj359 MBVis
    ACH-001622 ONDA7 - Male - Adherent central_nervous_system Primary Brain Cancer -
    Adj359 MBVis
    ACH-001623 ONDA8 - Female - Adherent central_nervous_system Primary Brain Cancer -
    Adj359 MBVis
    ACH-001624 ONDA9 - Male - Adherent central_nervous_system Primary Brain Cancer -
    Adj359 MBVis
    ACH-001670 TASK1 - Female - Adherent central_nervous_system Primary Brain Cancer -
    Adj359 MBVis
    ACH-001711 PFSK1 683667.0 Male - Adherent central_nervous_system Primary Brain Cancer MB
    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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