PS4DR: a multimodal workflow for identification and prioritization of drugs based on pathway signatures

Connecting genetics and gene expression data for target prioritisation and drug repositioning

(2018) Enrico Ferrero et al.   BioData Mining

PI3Kβ inhibitor AZD6482 exerts antiproliferative activity and induces apoptosis in human glioblastoma cells

(2018) Peng-Fei Xu et al.   ONCOLOGY REPORTS

A phase I/II study combining tosedostat with capecitabine in patients with metastatic pancreatic ductal adenocarcinoma (PDAC).

(2017) Andrea Wang-Gillam et al.   JOURNAL OF CLINICAL ONCOLOGY

Pimozide reduces toxic forms of tau in TauC3 mice via 5′ adenosine monophosphate-activated protein kinase-mediated autophagy

(2017) Young Doo Kim et al.   JOURNAL OF NEUROCHEMISTRY

Analysis of genome-wide association data highlights candidates for drug repositioning in psychiatry

(2017) Hon-Cheong So et al.   NATURE NEUROSCIENCE

WikiPathways: a multifaceted pathway database bridging metabolomics to other omics research

(2017) Denise N Slenter et al.   NUCLEIC ACIDS RESEARCH

The Reactome Pathway Knowledgebase

(2017) Antonio Fabregat et al.   NUCLEIC ACIDS RESEARCH

DrugBank 5.0: a major update to the DrugBank database for 2018

(2017) David S Wishart et al.   NUCLEIC ACIDS RESEARCH

Kinase gene fusions in defined subsets of melanoma

(2017) Jacqueline Turner et al.   Pigment Cell & Melanoma Research

Fenofibrate inhibited pancreatic cancer cells proliferation via activation of p53 mediated by upregulation of LncRNA MEG3

(2016) Duanmin Hu et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Predicting microRNA-disease associations based on improved microRNA and disease similarities

(2016) Wei Lan et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

Open Targets: a platform for therapeutic target identification and validation

(2016) Gautier Koscielny et al.   NUCLEIC ACIDS RESEARCH

KEGG: new perspectives on genomes, pathways, diseases and drugs

(2016) Minoru Kanehisa et al.   NUCLEIC ACIDS RESEARCH

Targeting WEE1 Kinase in Cancer

(2016) Christopher J. Matheson et al.   TRENDS IN PHARMACOLOGICAL SCIENCES

Extraction and analysis of signatures from the Gene Expression Omnibus by the crowd

(2016) Zichen Wang et al.   Nature Communications

The harmonizome: a collection of processed datasets gathered to serve and mine knowledge about genes and proteins

(2016) Andrew D. Rouillard et al.   Database-The Journal of Biological Databases and Curation

PARP1 inhibitor olaparib (Lynparza) exerts synthetic lethal effect against ligase 4-deficient melanomas

(2016) Małgorzata Czyż et al.   Oncotarget

The MLN4924 inhibitor exerts a neuroprotective effect against oxidative stress injury via Nrf2 protein accumulation

(2016) Ana Cristina Andérica-Romero et al.   Redox Biology

DSigDB: drug signatures database for gene set analysis: Fig. 1.

(2015) Minjae Yoo et al.   BIOINFORMATICS

A survey of current trends in computational drug repositioning

(2015) Jiao Li et al.   BRIEFINGS IN BIOINFORMATICS

Integrative Data Analysis of Multi-Platform Cancer Data with a Multimodal Deep Learning Approach

(2015) Muxuan Liang et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

Synaptic structure and function are altered by the neddylation inhibitor MLN4924

(2015) Samantha L. Scudder et al.   MOLECULAR AND CELLULAR NEUROSCIENCE

Targeting the schizophrenia genome: a fast track strategy from GWAS to clinic

(2015) T Lencz et al.   MOLECULAR PSYCHIATRY

An analysis of the attrition of drug candidates from four major pharmaceutical companies

(2015) Michael J. Waring et al.   NATURE REVIEWS DRUG DISCOVERY

Landscape of Targeted Anti-Cancer Drug Synergies in Melanoma Identifies a Novel BRAF-VEGFR/PDGFR Combination Treatment

(2015) Adam A. Friedman et al.   PLoS One

In Silico Identification and In Vitro and In Vivo Validation of Anti-Psychotic Drug Fluspirilene as a Potential CDK2 Inhibitor and a Candidate Anti-Cancer Drug

(2015) Xi-Nan Shi et al.   PLoS One

Use of Genome-Wide Association Studies for Cancer Research and Drug Repositioning

(2015) Jizhun Zhang et al.   PLoS One

Drug Repositioning for Diabetes Based on 'Omics' Data Mining

(2015) Ming Zhang et al.   PLoS One

GRASP: analysis of genotype-phenotype results from 1390 genome-wide association studies and corresponding open access database

(2014) R. Leslie et al.   BIOINFORMATICS

Fibroblast growth factor receptor splice variants are stable markers of oncogenic transforming growth factor β1 signaling in metastatic breast cancers

(2014) Michael K Wendt et al.   BREAST CANCER RESEARCH

Inhibition of mTORC1/2 Overcomes Resistance to MAPK Pathway Inhibitors Mediated by PGC1  and Oxidative Phosphorylation in Melanoma

(2014) Y. N. V. Gopal et al.   CANCER RESEARCH

SYK Is a Candidate Kinase Target for the Treatment of Advanced Prostate Cancer

(2014) V. P. S. Ghotra et al.   CANCER RESEARCH

Identification of antipsychotic drug fluspirilene as a potential p53-MDM2 inhibitor: a combined computational and experimental study

(2014) Sachin P. Patil et al.   JOURNAL OF COMPUTER-AIDED MOLECULAR DESIGN

Serotonin 5-HT6 Receptor Antagonists for the Treatment of Cognitive Deficiency in Alzheimer’s Disease

(2014) Bellinda Benhamú et al.   JOURNAL OF MEDICINAL CHEMISTRY

Biological insights from 108 schizophrenia-associated genetic loci

(2014)   NATURE

LINCS Canvas Browser: interactive web app to query, browse and interrogate LINCS L1000 gene expression signatures

(2014) Qiaonan Duan et al.   NUCLEIC ACIDS RESEARCH

Olmesartan Potentiates the Anti-Angiogenic Effect of Sorafenib in Mice Bearing Ehrlich's Ascites Carcinoma: Role of Angiotensin (1–7)

(2014) Mohammad M. Abd-Alhaseeb et al.   PLoS One

Kinase fusions are frequent in Spitz tumours and spitzoid melanomas

(2014) Thomas Wiesner et al.   Nature Communications

The Druggable Genome: Evaluation of Drug Targets in Clinical Trials Suggests Major Shifts in Molecular Class and Indication

(2013) Mathias Rask-Andersen et al.   Annual Review of Pharmacology and Toxicology

The toxicity of nitrofuran compounds on melanoma and neuroblastoma cells is enhanced by Olaparib and ameliorated by melanin pigment

(2013) Ewan M. McNeil et al.   DNA REPAIR

Nilotinib-induced autophagic changes increase endogenous parkin level and ubiquitination, leading to amyloid clearance

(2013) Irina Lonskaya et al.   JOURNAL OF MOLECULAR MEDICINE-JMM

Crizotinib, a c-Met Inhibitor, Prevents Metastasis in a Metastatic Uveal Melanoma Model

(2013) O. Surriga et al.   MOLECULAR CANCER THERAPEUTICS

Systematic comparison of phenome-wide association study of electronic medical record data and genome-wide association study data

(2013) Joshua C Denny et al.   NATURE BIOTECHNOLOGY

The NHGRI GWAS Catalog, a curated resource of SNP-trait associations

(2013) Danielle Welter et al.   NUCLEIC ACIDS RESEARCH

The angiotensin II type I receptor blocker olmesartan inhibits the growth of pancreatic cancer by targeting stellate cell activities in mice

(2013) Atsushi Masamune et al.   SCANDINAVIAN JOURNAL OF GASTROENTEROLOGY

UniChem: a unified chemical structure cross-referencing and identifier tracking system

(2013) Jon Chambers et al.   Journal of Cheminformatics

graphite - a Bioconductor package to convert pathway topology to gene network

(2012) Gabriele Sales et al.   BMC BIOINFORMATICS

Rational drug repositioning guided by an integrated pharmacological network of protein, disease and drug

(2012) Hee Lee et al.   BMC Systems Biology

Bortezomib/proteasome inhibitor triggers both apoptosis and autophagy-dependent pathways in melanoma cells

(2012) Denis Selimovic et al.   CELLULAR SIGNALLING

Sensitivity of Selected Human Tumor Models to PF-04217903, a Novel Selective c-Met Kinase Inhibitor

(2012) H. Y. Zou et al.   MOLECULAR CANCER THERAPEUTICS

Use of genome-wide association studies for drug repositioning

(2012) Philippe Sanseau et al.   NATURE BIOTECHNOLOGY

Preclinical Pharmacokinetic and Pharmacodynamic Evaluation of Novel Anticancer Agents, ON01910.Na (Rigosertib, Estybon™) and ON013105, for Brain Tumor Chemotherapy

(2012) Silpa Nuthalapati et al.   PHARMACEUTICAL RESEARCH

Praziquantel Synergistically Enhances Paclitaxel Efficacy to Inhibit Cancer Cell Growth

(2012) Zhen Hua Wu et al.   PLoS One

A Review: Inflammatory Process in Alzheimer's Disease, Role of Cytokines

(2012) Jose Miguel Rubio-Perez et al.   TheScientificWorldJOURNAL

Fluoxetine synergys with anticancer drugs to overcome multidrug resistance in breast cancer cells

(2012) Ting Zhou et al.   TUMOR BIOLOGY

Exploiting drug-disease relationships for computational drug repositioning

(2011) J. T. Dudley et al.   BRIEFINGS IN BIOINFORMATICS

Inhibition of Wnt/β-Catenin Signaling by p38 MAP Kinase Inhibitors Is Explained by Cross-Reactivity with Casein Kinase Iδ/ɛ

(2011) Folkert Verkaar et al.   CHEMISTRY & BIOLOGY

Antitumor Activity of YM155, a Selective Small-Molecule Survivin Suppressant, Alone and in Combination with Docetaxel in Human Malignant Melanoma Models

(2011) Kentaro Yamanaka et al.   CLINICAL CANCER RESEARCH

Breast Cancer-Derived Bone Metastasis Can Be Effectively Reduced through Specific c-MET Inhibitor Tivantinib (ARQ 197) and shRNA c-MET Knockdown

(2011) S. Previdi et al.   MOLECULAR CANCER THERAPEUTICS

Fighting neurodegeneration with rapamycin: mechanistic insights

(2011) Jordi Bové et al.   NATURE REVIEWS NEUROSCIENCE

GWASdb: a database for human genetic variants identified by genome-wide association studies

(2011) Mulin Jun Li et al.   NUCLEIC ACIDS RESEARCH

DRAR-CPI: a server for identifying drug repositioning potential and adverse drug reactions via the chemical–protein interactome

(2011) Heng Luo et al.   NUCLEIC ACIDS RESEARCH

Systematic Drug Repositioning Based on Clinical Side-Effects

(2011) Lun Yang et al.   PLoS One

Discovery and Preclinical Validation of Drug Indications Using Compendia of Public Gene Expression Data

(2011) M. Sirota et al.   Science Translational Medicine

Histamine receptors in the CNS as targets for therapeutic intervention

(2011) Maria Beatrice Passani et al.   TRENDS IN PHARMACOLOGICAL SCIENCES

Inflammation and Alzheimer’s disease

(2010) Young-Jung Lee et al.   ARCHIVES OF PHARMACAL RESEARCH

Modeling sample variables with an Experimental Factor Ontology

(2010) James Malone et al.   BIOINFORMATICS

Inhibition of mTOR by Rapamycin Abolishes Cognitive Deficits and Reduces Amyloid-β Levels in a Mouse Model of Alzheimer's Disease

(2010) Patricia Spilman et al.   PLoS One

Discovery of drug mode of action and drug repositioning from transcriptional responses

(2010) F. Iorio et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Network-Based Elucidation of Human Disease Similarities Reveals Common Functional Modules Enriched for Pluripotent Drug Targets

(2010) Silpa Suthram et al.   PLoS Computational Biology

Belinostat: a new broad acting antineoplastic histone deacetylase inhibitor

(2009) Peter Gimsing   EXPERT OPINION ON INVESTIGATIONAL DRUGS

A multi-center phase II evaluation of the small molecule survivin suppressor YM155 in patients with unresectable stage III or IV melanoma

(2009) Karl D. Lewis et al.   INVESTIGATIONAL NEW DRUGS

Predicting new molecular targets for known drugs

(2009) Michael J. Keiser et al.   NATURE

A novel signaling pathway impact analysis

(2008) Adi Laurentiu Tarca et al.   BIOINFORMATICS

Erlotinib in combination with capecitabine and docetaxel in patients with metastatic breast cancer: A dose-escalation study

(2008) Chris Twelves et al.   EUROPEAN JOURNAL OF CANCER

Genetics of gene expression and its effect on disease

(2008) Valur Emilsson et al.   NATURE