BLCA-RegMap portal: a co-regulatory influence network view of bladder cancer heterogeneity

Pawlak, Geoffrey; Puig, Julia; Dispot, Aurélien; Dhifli, Wajdi; Elati, Mohamed

Document type :

Communication dans un congrès avec actes

Title :

BLCA-RegMap portal: a co-regulatory influence network view of bladder cancer heterogeneity

Author(s) :

Pawlak, Geoffrey [Auteur]
Hétérogénéité, Plasticité et Résistance aux Thérapies des Cancers = Cancer Heterogeneity, Plasticity and Resistance to Therapies - UMR 9020 - U 1277 [CANTHER]
Puig, Julia [Auteur]
Modeling & analysis for medical imaging and Diagnosis [MYRIAD]
Centre de Recherche en Acquisition et Traitement de l'Image pour la Santé [CREATIS]
Dispot, Aurélien [Auteur]
Hétérogénéité, Plasticité et Résistance aux Thérapies des Cancers = Cancer Heterogeneity, Plasticity and Resistance to Therapies - UMR 9020 - U 1277 [CANTHER]
Dhifli, Wajdi [Auteur]

Hétérogénéité, Plasticité et Résistance aux Thérapies des Cancers = Cancer Heterogeneity, Plasticity and Resistance to Therapies - UMR 9020 - U 1277 [CANTHER]
Elati, Mohamed [Auteur]

Hétérogénéité, Plasticité et Résistance aux Thérapies des Cancers = Cancer Heterogeneity, Plasticity and Resistance to Therapies - UMR 9020 - U 1277 [CANTHER]

Conference title :

25th international bladder cancer network

Conference organizers(s) :

IBCN

City :

Barcelona

Country :

Espagne

Start date of the conference :

2022-09-29

Publication date :

2022-09-29

HAL domain(s) :

Sciences du Vivant [q-bio]
Informatique [cs]

English abstract : [en]

Introduction: Bladder cancer studies performed in a variety of laboratories and by anumber of large-scale projects have given an unparalleled amount of information on tumors and in vitro models. Consolidating these data ...
Show more >Introduction: Bladder cancer studies performed in a variety of laboratories and by anumber of large-scale projects have given an unparalleled amount of information on tumors and in vitro models. Consolidating these data into an easily accessible and comprehensive system-level format is crucial to accelerate systems oncology model development.Methods: We combined network biology with machine learning and visualizationtechniques to execute a cycle of systems oncology model development: inference of the coregulatory networks (from transformed cells in vitro), interrogation of the tumors in vivo using the inferred networks, and intervention with the network (feeding back to the in vitro tumor models). First, analysis of the in vitro gene expression profiles of 36 bladder cancer cell lines of the CCLE with CoRegNet yields to the reconstruction of the first co-regulatory influence network (BLCA-CoRegNet) that contains 359 TFs/co-TFs linked by 508 significant co-operativity interactions and regulating 6,374 targets genes. Second, BLCA-CoRegNet based influence map (BLCA-RegMap), is built using a meta-cohorts of > 2500 tumours and >100 cell lines transcriptome profiles.Results: We introduce BLCA-RegMap a powerful web-based tool to help researchers torapidly access a co-regulatory influence network view of bladder cancer heterogeneity and plasticity. BLCA-RegMap allow user to: explore the similarities and differences between cancer subtypes and identify their possible core regulators; identify rare subtypes; align tumor and cell line transcriptional profiles; and define new targets related to the different states and plasticity of the tumours (undifferentiated vs differentiated, therapy sensitive vs resistant cells, etc.). BLCA-RegMap has a very intuitive interface, and no bioinformatics skills are required. For all the networks and plots that are generated, the user can run different annotation (classification, genomic alteration and clinical), add new transcriptome data, and the raw data to reproduce the plots can be downloaded for future analysis or publications.Conclusions: The identification of regulatory networks and the study of their plasticityshould allow to identify efficient therapeutic strategies and will pave the way for precision oncology.Show less >

Language :

Anglais

Peer reviewed article :

Oui

Audience :

Internationale

Popular science :

Non

Collections :

Cancer Heterogeneity, Plasticity and Resistance to Therapies (CANTHER) - UMR 9020 - UMR 1277

Source :

Harvested from HAL

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