Research graph
References from Target repositioning using multi-layer networks and machine learning: The case of prostate cancer. Local targets link to admitted publications; unresolved targets remain external evidence.
A review of computational drug repositioning: strategies, approaches, opportunities, challenges, and directions
10.1186/s13321-020-00450-7 · 2020 · External reference
Drug repositioning: a brief overview
10.1111/jphp.13273 · 2020 · External reference
Review of drug repositioning approaches and resources
2018 · External reference
Drug repositioning or target repositioning: a structural perspective of drug-target-indication relationship for available repurposed drugs
10.1016/j.csbj.2020.04.004 · 2020 · External reference
Why 90% of clinical drug development fails and how to improve it?
2022 · External reference
A review of computational drug repurposing
10.12793/tcp.2019.27.2.59 · 2019 · External reference
Off-target toxicity is a common mechanism of action of cancer drugs undergoing clinical trials
2019 · External reference
Drug combination therapy increases successful drug repositioning
2016 · External reference
Drug resistance in cancer: an overview
10.3390/cancers6031769 · 2014 · External reference
Integration strategies of multi-omics data for machine learning analysis
10.1016/j.csbj.2021.06.030 · 2021 · External reference
Overview of methods for characterization and visualization of a protein–protein interaction network in a multi-omics integration context
10.3389/fmolb.2022.962799 · 2022 · External reference
Machine learning prediction of oncology drug targets based on protein and network properties
10.1186/s12859-020-3442-9 · 2020 · External reference
Drug target prioritization for Alzheimer’s disease using protein interaction network analysis
10.1089/omi.2018.0131 · 2018 · External reference
Identification of target genes in cancer diseases using protein–protein interaction networks.
10.1007/s13721-018-0181-1 · 2019 · External reference
Metabolic network-based identification and prioritization of anticancer targets based on expression data in hepatocellular carcinoma
10.3389/fphys.2018.00916 · 2018 · External reference
Drug target prioritization by perturbed gene expression and network information
10.1038/srep17417 · 2015 · External reference
PWN: enhanced random walk on a warped network for disease target prioritization
2023 · External reference
Network-based target prioritization and drug candidate identification for multiple sclerosis: from analyzing ‘omics data’ to druggability simulation
10.1021/acschemneuro.1c00011 · 2021 · External reference
Drug target prediction and repositioning using an integrated network-based approach
10.1371/journal.pone.0060618 · 2013 · External reference
Artificial intelligence-based computational framework for drug-target prioritization and inference of novel repositionable drugs for Alzheimer’s disease
10.1186/s13195-021-00826-3 · 2021 · External reference
GuiltyTargets: prioritization of novel therapeutic targets with network representation learning
10.1109/tcbb.2020.3003830 · 2022 · External reference
Network-based characterization of drug-regulated genes, drug targets, and toxicity
10.1016/j.ymeth.2012.06.003 · 2012 · External reference
Emergence of power-law distributions in protein-protein interaction networks through study bias
2023 · External reference
On the limits of active module identification
10.1093/bib/bbab066 · 2021 · External reference
Correcting for the study bias associated with protein-protein interaction measurements reveals differences between protein degree distributions from different cancer types
10.3389/fgene.2015.00260 · 2015 · External reference
Universal multilayer network exploration by random walk with restart
10.1038/s42005-022-00937-9 · 2022 · External reference
Robustness and lethality in multilayer biological molecular networks
2020 · External reference
Large-scale identification of potential drug targets based on the topological features of human protein-protein interaction network
2015 · External reference
Mnbdr: a module network based method for drug repositioning
2021 · External reference
Network module-based drug repositioning for pulmonary arterial hypertension
2021 · External reference
Network medicine for disease module identification and drug repurposing with the NeDRex platform
10.1038/s41467-021-27138-2 · 2021 · External reference
Computational drug repositioning with random walk on a heterogeneous network
2019 · External reference
Drug repositioning based on individual bi-random walks on a heterogeneous network
10.1186/s12859-019-3117-6 · 2019 · External reference
Drug repurposing for cancer treatment through global propagation with a greedy algorithm in a multilayer network
2022 · External reference
RepCOOL: computational drug repositioning via integrating heterogeneous biological networks
10.1186/s12967-020-02541-3 · 2020 · External reference
Epigenomic and transcriptomic landscaping unraveled candidate repositioned therapeutics for non-functioning pituitary neuroendocrine tumors
2023 · External reference
A drug repurposing pipeline based on bladder cancer integrated proteotranscriptomics signatures
2023 · External reference
Drug repositioning through incomplete bi-cliques in an integrated drug-target-disease network
10.1039/c2ib00154c · 2012 · External reference
10.1101/cshperspect.a030361
10.1101/cshperspect.a030361 · External reference
Androgen deprivation therapy: past, present and future
10.1111/j.1464-410x.2012.11215.x · 2012 · External reference
Androgen receptor gene polymorphisms and risk of prostate cancer: a meta-analysis
10.1038/srep40554 · 2017 · External reference
Androgen receptor stabilization in recurrent prostate cancer is associated with hypersensitivity to low androgen
2001 · External reference
Overcoming drug resistance in advanced prostate cancer by drug repurposing
2022 · External reference
ERG/AKR1C3/AR constitutes a feed-forward loop for AR signaling in prostate cancer cells
10.1158/1078-0432.ccr-14-2352 · 2015 · External reference
DrugBank 5.0: a major update to the drugbank database for 2018
10.1093/nar/gkx1037 · 2018 · External reference
TTD: therapeutic target database
10.1093/nar/30.1.412 · 2002 · External reference
org. Hs. eg. db: genome wide annotation for Human
2019 · External reference
A reference map of the human binary protein interactome
10.1038/s41586-020-2188-x · 2020 · External reference
STRING v10: protein-protein interaction networks, integrated over the tree of life
10.1093/nar/gku1003 · 2015 · External reference
APID database: redefining protein-protein interaction experimental evidences and binary interactomes
10.1093/database/baz005 · 2019 · External reference
HitPredict: a database of quality assessed protein-protein interactions in nine species
10.1093/nar/gkq897 · 2011 · External reference
MiRTarBase update 2022: an informative resource for experimentally validated miRNA-target interactions
10.1093/nar/gkab1079 · 2022 · External reference
Mirwalk: an online resource for prediction of microrna binding sites
10.1371/journal.pone.0206239 · 2018 · External reference
REGNET: mining context-specific human transcription networks using composite genomic information
2014 · External reference
HTRIdb: an open-access database for experimentally verified human transcriptional regulation interactions
10.1186/1471-2164-13-405 · 2012 · External reference
TRRUST v2: an expanded reference database of human and mouse transcriptional regulatory interactions
2018 · External reference
Benchmark and integration of resources for the estimation of human transcription factor activities
10.1101/gr.240663.118 · 2019 · External reference
TransmiR v2.0: an updated transcription factor-microRNA regulation database
10.1093/nar/gky1023 · 2019 · External reference
KEGG: kyoto encyclopedia of genes and genomes
10.1093/nar/28.1.27 · 2000 · External reference
Reactome: a database of reactions, pathways and biological processes
10.1093/nar/gkq1018 · 2011 · External reference
WikiPathways: a multifaceted pathway database bridging metabolomics to other omics research
10.1093/nar/gkx1064 · 2018 · External reference
Graphite - a bioconductor package to convert pathway topology to gene network
10.1186/1471-2105-13-20 · 2012 · External reference
Unresolved reference
External reference
The human protein atlas: a spatial map of the human proteome
2018 · External reference
Massive mining of publicly available RNA-seq data from human and mouse
10.1038/s41467-018-03751-6 · 2018 · External reference
The cBio cancer genomics portal: an open platform for exploring multidimensional cancer genomics data
10.1158/2159-8290.cd-12-0095 · 2012 · External reference
10.1101/2021.06.29.449134
10.1101/2021.06.29.449134 · External reference
The igraph software package for complex network research
2006 · External reference
Random walk with restart on multiplex and heterogeneous biological networks
10.1093/bioinformatics/bty637 · 2019 · External reference
Assessment of network module identification across complex diseases
10.1038/s41592-019-0509-5 · 2019 · External reference
MONET: a toolbox integrating top-performing methods for network modularization
10.1093/bioinformatics/btaa236 · 2020 · External reference
Network-based in silico drug efficacy screening
10.1038/ncomms10331 · 2016 · External reference
TCRD and pharos 2021: mining the human proteome for disease biology
10.1093/nar/gkaa993 · 2021 · External reference
ChEMBL: a large-scale bioactivity database for drug discovery
10.1093/nar/gkr777 · 2012 · External reference
Feature selection based on information gain
2013 · External reference
Open-source machine learning: R meets weka
10.1007/s00180-008-0119-7 · 2009 · External reference
Building predictive models in R using the caret package
10.18637/jss.v028.i05 · 2008 · External reference
Regularization paths for generalized linear models via coordinate descent
10.18637/jss.v033.i01 · 2010 · External reference
Classification and regression by randomforest
2002 · External reference
e1071: misc functions of the department of statistics, probability theory group (Formerly: E1071), TU Wien
2022 · External reference
Unresolved reference
External reference
Patterns of structural variation define prostate cancer across disease states
10.1172/jci.insight.161370 · 2022 · External reference
Assembly of a parts list of the human mitotic cell cycle machinery
10.1093/jmcb/mjy063 · 2019 · External reference
The matthews correlation coefficient (MCC) should replace the ROC AUC as the standard metric for assessing binary classification
10.1186/s13040-023-00322-4 · 2023 · External reference
Coffee consumption and risk of prostate cancer: a systematic review and meta-analysis
2021 · External reference
A phase II trial of dasatinib in patients with metastatic castration-resistant prostate cancer treated previously with chemotherapy
10.1097/cad.0b013e328361feb0 · 2013 · External reference
Bruton’s tyrosine kinase (BTK) inhibitor (ibrutinib)-suppressed migration and invasion of prostate cancer
2020 · External reference
The role of ketoconazole in current prostate cancer care
10.1038/s41585-018-0077-y · 2018 · External reference
Calcitriol in combination therapy for prostate cancer: Pharmacokinetic and pharmacodynamic interactions
10.7150/jca.13470 · 2016 · External reference
Phase I/II study of 19-nor-1α-25-dihydroxyvitamin D2 (paricalcitol) in advanced, androgen-insensitive prostate cancer
10.1158/1078-0432.ccr-05-1237 · 2005 · External reference
Phase Ib trial with birabresib, a small-molecule inhibitor of bromodomain and extraterminal proteins, in patients with selected advanced solid tumors
10.1200/jco.2018.78.2292 · 2018 · External reference
Inhibition of Janus Kinase 1 synergizes docetaxel sensitivity in prostate cancer cells
10.1111/jcmm.16684 · 2021 · External reference
A phase II clinical trial of sorafenib in androgen-independent prostate cancer
10.1158/1078-0432.ccr-07-1355 · 2008 · External reference
Vemurafenib inhibits active PTK6 in PTEN-null prostate tumor cells
10.1158/1535-7163.mct-18-0862 · 2019 · External reference
Effects of the multikinase inhibitors Sorafenib and Regorafenib in PTEN deficient neoplasias
10.1016/j.ejca.2016.04.019 · 2016 · External reference
Abstract B032: combined A2AR and PARP inhibition in homologous recombination deficient (HRD) castrate-resistant prostate cancer (CRPC)
10.1158/1538-7445.prca2023-b032 · 2023 · External reference
CYP24A1 inhibition enhances the antitumor activity of calcitriol
10.1210/en.2009-1156 · 2010 · External reference
Unique spectrum of activating BRAF alterations in prostate cancer
10.1158/1078-0432.ccr-23-1393 · 2023 · External reference
Role of complement in regulating inflammation processes in renal and prostate cancers
10.3390/cells10092426 · 2021 · External reference
Role of the RAB7 protein in tumor progression and cisplatin chemoresistance
10.3390/cancers11081096 · 2019 · External reference
Supporting a role for the GTPase rab7 in prostate cancer progression
10.1371/journal.pone.0087882 · 2014 · External reference
Recent advances in prostate cancer: WNT signaling, chromatin regulation, and transcriptional coregulators
2023 · External reference
The insulin-like growth factor (IGF) axis as an anticancer target in prostate cancer
10.1016/j.canlet.2015.07.026 · 2015 · External reference
Discovery and validation of 3 Novel DNA methylation markers of prostate cancer prognosis
10.1016/j.juro.2007.01.010 · 2007 · External reference
The role of opioids and their receptors in urological malignancy: a review
2020 · External reference
Androgen represses opioid growth factor receptor (OGFR) in human prostate cancer LNCaP cells and OGFR expression in human prostate cancer tissue
2018 · External reference
Comprehensive genomics in androgen receptor-dependent castration-resistant prostate cancer identifies an adaptation pathway mediated by opioid receptor kappa 1
2022 · External reference
Activation of GPR30 stimulates GTP-binding of Gαi1 protein to sustain activation of Erk1/2 in inhibition of prostate cancer cell growth and modulates metastatic properties
2017 · External reference
The essential role of Giα2 in prostate cancer cell migration.
10.1158/1541-7786.mcr-12-0219 · 2012 · External reference
Novel role of Giα2 in cell migration: downstream of PI3-kinase–AKT and Rac1 in prostate cancer cells
2018 · External reference
Suppression of GNAI2 message in ovarian cancer
10.1186/1757-2215-7-6 · 2014 · External reference
Positive-unlabeled learning in bioinformatics and computational biology: a brief review
2022 · External reference
