FAIRsharing.zzaykv; Last edited: July 1, 2019, 12:57 p.m.; Last accessed: Jan 03 2022 7:09 p.m.

metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

metasource: bio.tools
version: extracted_at: 2022-11-04T11:26:40.491505

sider
metasource: bio.tools
version: extracted_at: 2022-11-04T11:26:40.491505

Other names: SIDER, sider

SIDER contains information on marketed medicines and their recorded adverse drug reactions. The information is extracted from public documents and package inserts. The available information include side effect frequency, drug and side effect classifications as well as links to further information, for example drug_target relations.

Webpage:

http://sideeffects.embl.de

Licence:

Name: Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)
URL: https://creativecommons.org/licenses/by-nc-sa/4.0/

Publications:

Publications
More detailed information about this field from each metasource.

A side effect resource to capture phenotypic effects of drugs
PMID: 20087340
metasource: Fairsharing.org
version: FAIRsharing.org: SIDER; Side Effect Resource; DOI: https://doi.org/10.25504/FAIRsharing.zzaykv; Last edited: July 1, 2019, 12:57 p.m.; Last accessed: Jan 03 2022 7:09 p.m.

The SIDER database of drugs and side effects
PMID: 26481350
metasource: bio.tools
version: extracted_at: 2022-11-04T11:26:40.491505

Systematic identification of proteins that elicit drug side effects
PMID: 23632385
metasource: bio.tools
version: extracted_at: 2022-11-04T11:26:40.491505

http://dx.doi.org/10.1093/nar/gkv1075
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

A side effect resource to capture phenotypic effects of drugs PubMed citations: 323.

323 articles citing: A side effect resource to capture phenotypic effects of drugs

Repurposing Drugs via Network Analysis: Opportunities for Psychiatric Disorders. PMID:35890359
An Integrative Heterogeneous Graph Neural Network-Based Method for Multi-Labeled Drug Repurposing. PMID:35873597
Comparison of Descriptor- and Fingerprint Sets in Machine Learning Models for ADME-Tox Targets. PMID:35755260
Clinical Utility of Medication-Based Risk Scores to Reduce Polypharmacy and Potentially Avoidable Healthcare Utilization. PMID:35745600
Lessons from SARS‑CoV‑2 and its variants (Review). PMID:35730623
Interdisciplinary analysis of drugs: Structural features and clinical data. PMID:35651960
A deep learning framework for drug repurposing via emulating clinical trials on real-world patient data. PMID:35603127
HGDTI: predicting drug-target interaction by using information aggregation based on heterogeneous graph neural network. PMID:35413800
A Study on Methodologies of Drug Repositioning Using Biomedical Big Data: A Focus on Diabetes Mellitus. PMID:35413782
Similarity-Based Method with Multiple-Feature Sampling for Predicting Drug Side Effects. PMID:35401786
HIDTI: integration of heterogeneous information to predict drug-target interactions. PMID:35260608
DOTA: Deep Learning Optimal Transport Approach to Advance Drug Repositioning for Alzheimer's Disease. PMID:35204697
In Silico Models for Hepatotoxicity. PMID:35188639
Emerging Bioinformatics Methods and Resources in Drug Toxicology. PMID:35188631
Resistance to Antimalarial Monotherapy Is Cyclic. PMID:35160232
Social Media Analytics for Pharmacovigilance of Antiepileptic Drugs. PMID:35027943
Repurposable drugs for SARS-CoV-2 and influenza sepsis with scRNA-seq data targeting post-transcription modifications. PMID:34993416
COVID-19 vaccinations: The unknowns, challenges, and hopes. PMID:34845731
DaiCee: A database for anti-cancer compounds with targets and side effect profiles. PMID:34803258
Learning from low-rank multimodal representations for predicting disease-drug associations. PMID:34736437
A drug repositioning algorithm based on a deep autoencoder and adaptive fusion. PMID:34717542
Towards a Consensus on Alzheimer's Disease Comorbidity? PMID:34640387
Machine learning approaches for drug combination therapies. PMID:34368832
Target identification among known drugs by deep learning from heterogeneous networks. PMID:34123272
DeepR2cov: deep representation learning on heterogeneous drug networks to discover anti-inflammatory agents for COVID-19. PMID:34117734
LUNAR :Drug Screening for Novel Coronavirus Based on Representation Learning Graph Convolutional Network. PMID:34081583
Drug Repurposing: Claiming the Full Benefit from Drug Development. PMID:33961142
GADTI: Graph Autoencoder Approach for DTI Prediction From Heterogeneous Network. PMID:33912218
Application of network link prediction in drug discovery. PMID:33845763
Application and evaluation of knowledge graph embeddings in biomedical data. PMID:33816992
Towards FAIR protocols and workflows: the OpenPREDICT use case. PMID:33816932
DTiGEMS+: drug-target interaction prediction using graph embedding, graph mining, and similarity-based techniques. PMID:33431036
Identifying new topoisomerase II poison scaffolds by combining publicly available toxicity data and 2D/3D-based virtual screening. PMID:33430961
Identification of Repurposable Drugs and Adverse Drug Reactions for Various Courses of COVID-19 Based on Single-Cell RNA Sequencing Data. PMID:33299905
Mapping scientific landscapes in UMLS research: a scientometric review. PMID:33059367
Possible involvement of NMDA receptor in the anxiolytic-like effect of caffeic acid in mice model of maternal separation stress. PMID:32944669
A learning-based method for drug-target interaction prediction based on feature representation learning and deep neural network. PMID:32938374
Predicting the frequencies of drug side effects. PMID:32917868
Advancing computer-aided drug discovery (CADD) by big data and data-driven machine learning modeling. PMID:32663517
A Novel Triple Matrix Factorization Method for Detecting Drug-Side Effect Association Based on Kernel Target Alignment. PMID:32596314
Aggregation and analysis of indication-symptom relationships for drugs approved in the USA. PMID:32495081
Prediction of Drug Side Effects with a Refined Negative Sample Selection Strategy. PMID:32454877
A comparative chemogenic analysis for predicting Drug-Target Pair via Machine Learning Approaches. PMID:32322011
BioHackathon 2015: Semantics of data for life sciences and reproducible research. PMID:32308977
Identifying Small Molecule-miRNA Associations Based on Credible Negative Sample Selection and Random Walk. PMID:32258003
MEDICASCY: A Machine Learning Approach for Predicting Small-Molecule Drug Side Effects, Indications, Efficacy, and Modes of Action. PMID:32237745
Virtual screening web servers: designing chemical probes and drug candidates in the cyberspace. PMID:32187356
Vienna LiverTox Workspace-A Set of Machine Learning Models for Prediction of Interactions Profiles of Small Molecules With Transporters Relevant for Regulatory Agencies. PMID:31998690
Database of adverse events associated with drugs and drug combinations. PMID:31882773
DDIGIP: predicting drug-drug interactions based on Gaussian interaction profile kernels. PMID:31874609
System level characterization of small molecule drugs and their affected long noncoding RNAs. PMID:31852840
Towards early detection of adverse drug reactions: combining pre-clinical drug structures and post-market safety reports. PMID:31849321
Advancing the state of the art in automatic extraction of adverse drug events from narratives. PMID:31841150
A Bayesian machine learning approach for drug target identification using diverse data types. PMID:31745082
Drug Side-Effect Prediction Via Random Walk on the Signed Heterogeneous Drug Network. PMID:31614686
Identifying relations of medications with adverse drug events using recurrent convolutional neural networks and gradient boosting. PMID:31504605
Artificial Intelligence for Drug Toxicity and Safety. PMID:31383376
Predicting gastrointestinal drug effects using contextualized metabolic models. PMID:31242176
Computational Identification of Novel Kir6 Channel Inhibitors. PMID:31178728
Early Detection of Adverse Drug Reactions in Social Health Networks: A Natural Language Processing Pipeline for Signal Detection. PMID:31162134
In silico Identification and Mechanism Exploration of Hepatotoxic Ingredients in Traditional Chinese Medicine. PMID:31130860
Auto-Generated Physiological Chain Data for an Ontological Framework for Pharmacology and Mechanism of Action to Determine Suspected Drugs in Cases of Dysuria. PMID:31119651
Revealing Drug-Target Interactions with Computational Models and Algorithms. PMID:31052598
Lyme Disease Patient Trajectories Learned from Electronic Medical Data for Stratification of Disease Risk and Therapeutic Response. PMID:30872757
Study of serious adverse drug reactions using FDA-approved drug labeling and MedDRA. PMID:30871458
Herb Target Prediction Based on Representation Learning of Symptom related Heterogeneous Network. PMID:30867892
Inferring Drug-Protein⁻Side Effect Relationships from Biomedical Text. PMID:30791472
Detecting Potential Adverse Drug Reactions Using a Deep Neural Network Model. PMID:30724742
Inverse similarity and reliable negative samples for drug side-effect prediction. PMID:30717666
In Silico Prediction of Small Molecule-miRNA Associations Based on the HeteSim Algorithm. PMID:30654189
Drug-induced diabetes type 2: In silico study involving class B GPCRs. PMID:30650080
Development of a Controlled Vocabulary-Based Adverse Drug Reaction Signal Dictionary for Multicenter Electronic Health Record-Based Pharmacovigilance. PMID:30649749
Predicting adverse drug reactions through interpretable deep learning framework. PMID:30591036
Adverse Drug Reaction Predictions Using Stacking Deep Heterogeneous Information Network Embedding Approach. PMID:30518099
Extraction of Information Related to Adverse Drug Events from Electronic Health Record Notes: Design of an End-to-End Model Based on Deep Learning. PMID:30478023
In Silico Profiling of Clinical Phenotypes for Human Targets Using Adverse Event Data. PMID:30477159
LPTK: a linguistic pattern-aware dependency tree kernel approach for the BioCreative VI CHEMPROT task. PMID:30346607
Rationalizing Secondary Pharmacology Screening Using Human Genetic and Pharmacological Evidence. PMID:30346593
Machine Learning for Drug-Target Interaction Prediction. PMID:30200333
Mining FDA resources to compute population-specific frequencies of adverse drug reactions. PMID:30197820
Prediction of Novel Drugs and Diseases for Hepatocellular Carcinoma Based on Multi-Source Simulated Annealing Based Random Walk. PMID:30173379
HARNESSING SOCIAL MEDIA FOR HEALTH INFORMATION MANAGEMENT. PMID:30147636
System Pharmacology-Based Strategy to Decode the Synergistic Mechanism of Zhi-zhu Wan for Functional Dyspepsia. PMID:30127739
Annotation and detection of drug effects in text for pharmacovigilance. PMID:30105604
Computational resources associating diseases with genotypes, phenotypes and exposures. PMID:30102366
Adverse Drug Reaction Related Post Detecting Using Sentiment Feature. PMID:30087872
An Integrated Local Classification Model of Predicting Drug-Drug Interactions via Dempster-Shafer Theory of Evidence. PMID:30087377
Learning predictive models of drug side-effect relationships from distributed representations of literature-derived semantic predications. PMID:30010902
Inferring potential small molecule-miRNA association based on triple layer heterogeneous network. PMID:29943160
Ontology-based literature mining and class effect analysis of adverse drug reactions associated with neuropathy-inducing drugs. PMID:29880031
Predicting Adverse Drug Effects from Literature- and Database-Mined Assertions. PMID:29876834
Causal Phenotyping for Susceptibility to Cardiotoxicity from Antineoplastic Breast Cancer Medications. PMID:29854236
In Silico Pharmacoepidemiologic Evaluation of Drug-Induced Cardiovascular Complications Using Combined Classifiers. PMID:29712429
Realizing drug repositioning by adapting a recommendation system to handle the process. PMID:29649971
A two-tiered unsupervised clustering approach for drug repositioning through heterogeneous data integration. PMID:29642848
Comparing the performance of meta-classifiers-a case study on selected imbalanced data sets relevant for prediction of liver toxicity. PMID:29626291
Predicting serious rare adverse reactions of novel chemicals. PMID:29617731
In Silico Prediction of Chemical Toxicity for Drug Design Using Machine Learning Methods and Structural Alerts. PMID:29515993
A hierarchical anatomical classification schema for prediction of phenotypic side effects. PMID:29494708
Recon3D enables a three-dimensional view of gene variation in human metabolism. PMID:29457794
Prediction of Effective Drug Combinations by an Improved Naïve Bayesian Algorithm. PMID:29401735
In silico profiling of systemic effects of drugs to predict unexpected interactions. PMID:29371651
Putative functional genes in idiopathic dilated cardiomyopathy. PMID:29311597
A unified frame of predicting side effects of drugs by using linear neighborhood similarity. PMID:29297371
Phenotyping and Visualizing Infusion-Related Reactions for Breast Cancer Patients. PMID:29295166
Towards Large-scale Twitter Mining for Drug-related Adverse Events. PMID:28967001
A network integration approach for drug-target interaction prediction and computational drug repositioning from heterogeneous information. PMID:28924171
Uncover the Underlying Mechanism of Drug-Induced Myopathy by Using Systems Biology Approaches. PMID:28831389
Large-Scale Analysis of Drug Side Effects via Complex Regulatory Modules Composed of microRNAs, Transcription Factors and Gene Sets. PMID:28729650
A simple mathematical approach to the analysis of polypharmacology and polyspecificity data. PMID:28690829
TCM-Mesh: The database and analytical system for network pharmacology analysis for TCM preparations. PMID:28588237
Trk Receptors and Neurotrophin Cross-Interactions: New Perspectives Toward Manipulating Therapeutic Side-Effects. PMID:28515680
Neuro-symbolic representation learning on biological knowledge graphs. PMID:28449114
Learning from biomedical linked data to suggest valid pharmacogenes. PMID:28427468
Use of Graph Database for the Integration of Heterogeneous Biological Data. PMID:28416946
Predicting neurological Adverse Drug Reactions based on biological, chemical and phenotypic properties of drugs using machine learning models. PMID:28408735
The anatomy of phenotype ontologies: principles, properties and applications. PMID:28387809
Computational Drug Repositioning Using Continuous Self-Controlled Case Series. PMID:28316874
Embedding of semantic predications. PMID:28284761
Data-Driven Prediction of Beneficial Drug Combinations in Spontaneous Reporting Systems. PMID:28269877
Positive-Unlabeled Learning for inferring drug interactions based on heterogeneous attributes. PMID:28249566
Curated human hyperbilirubinemia data and the respective OATP1B1 and 1B3 inhibition predictions. PMID:28243614
Large-scale bioactivity analysis of the small-molecule assayed proteome. PMID:28178331
Predicting Drug-Induced Cholestasis with the Help of Hepatic Transporters-An in Silico Modeling Approach. PMID:28166633
A physarum-inspired prize-collecting steiner tree approach to identify subnetworks for drug repositioning. PMID:28105946
Standard-based comprehensive detection of adverse drug reaction signals from nursing statements and laboratory results in electronic health records. PMID:28087585
Predicting potential drug-drug interactions by integrating chemical, biological, phenotypic and network data. PMID:28056782
Drug-drug interaction discovery and demystification using Semantic Web technologies. PMID:28031284
XTalkDB: a database of signaling pathway crosstalk. PMID:27899583
Integrating Clinical Phenotype and Gene Expression Data to Prioritize Novel Drug Uses. PMID:27860440
Large-scale identification of adverse drug reaction-related proteins through a random walk model. PMID:27805066
Side effect profile similarities shared between antidepressants and immune-modulators reveal potential novel targets for treating major depressive disorders. PMID:27765060
Prediction of new drug indications based on clinical data and network modularity. PMID:27678071
A Data-Driven Approach to Predicting Successes and Failures of Clinical Trials. PMID:27642066
Big Data Mining and Adverse Event Pattern Analysis in Clinical Drug Trials. PMID:27631620
Sieve-based coreference resolution enhances semi-supervised learning model for chemical-induced disease relation extraction. PMID:27630201
bioassayR: Cross-Target Analysis of Small Molecule Bioactivity. PMID:27367556
Using Social Media Data to Identify Potential Candidates for Drug Repurposing: A Feasibility Study. PMID:27311964
Combining machine learning, crowdsourcing and expert knowledge to detect chemical-induced diseases in text. PMID:27307137
IDAAPM: integrated database of ADMET and adverse effects of predictive modeling based on FDA approved drug data. PMID:27303447
DrugQuest - a text mining workflow for drug association discovery. PMID:27295093
Overlap in drug-disease associations between clinical practice guidelines and drug structured product label indications. PMID:27277160
The role of drug profiles as similarity metrics: applications to repurposing, adverse effects detection and drug-drug interactions. PMID:27273288
An Integrated Data Driven Approach to Drug Repositioning Using Gene-Disease Associations. PMID:27196054
Drug-induced adverse events prediction with the LINCS L1000 data. PMID:27153606
Ligand cluster-based protein network and ePlatton, a multi-target ligand finder. PMID:27143991
In silico methods for drug repurposing and pharmacology. PMID:27080087
Opportunities for Web-based Drug Repositioning: Searching for Potential Antihypertensive Agents with Hypotension Adverse Events. PMID:27036325
CD-REST: a system for extracting chemical-induced disease relation in literature. PMID:27016700
Illuminating drug action by network integration of disease genes: a case study of myocardial infarction. PMID:27004607
Disease-drug database for pharmacogenomic-based prescribing. PMID:26940584
BATMAN-TCM: a Bioinformatics Analysis Tool for Molecular mechANism of Traditional Chinese Medicine. PMID:26879404
ChemProt-3.0: a global chemical biology diseases mapping. PMID:26876982
Bridging semantics and syntax with graph algorithms-state-of-the-art of extracting biomedical relations. PMID:26851224
Improved prediction of drug-target interactions using regularized least squares integrating with kernel fusion technique. PMID:26851083
Network-based in silico drug efficacy screening. PMID:26831545
A multiple kernel learning algorithm for drug-target interaction prediction. PMID:26801218
Mapping the effects of drugs on the immune system. PMID:26619012
Dealing with the Data Deluge: Handling the Multitude Of Chemical Biology Data Sources. PMID:26609498
A Multiagent System for Integrated Detection of Pharmacovigilance Signals. PMID:26590975
Systems biology approaches for identifying adverse drug reactions and elucidating their underlying biological mechanisms. PMID:26559926
PharmDB-K: Integrated Bio-Pharmacological Network Database for Traditional Korean Medicine. PMID:26555441
Next generation informatics for big data in precision medicine era. PMID:26539249
Predicting drug side effects by multi-label learning and ensemble learning. PMID:26537615
Inferring Infection Patterns Based on a Connectivity Map of Host Transcriptional Responses. PMID:26508266
PDID: database of molecular-level putative protein-drug interactions in the structural human proteome. PMID:26504143
Systematic analysis of the associations between adverse drug reactions and pathways. PMID:26495310
Methods for biological data integration: perspectives and challenges. PMID:26490630
The SIDER database of drugs and side effects. PMID:26481350
Predicting Pharmacodynamic Drug-Drug Interactions through Signaling Propagation Interference on Protein-Protein Interaction Networks. PMID:26469276
Integrating Multiple Evidence Sources to Predict Adverse Drug Reactions Based on a Systems Pharmacology Model. PMID:26451329
A heuristic approach to determine an appropriate number of topics in topic modeling. PMID:26424364
The digital revolution in phenotyping. PMID:26420780
Identifying problematic drugs based on the characteristics of their targets. PMID:26388775
Leveraging MEDLINE indexing for pharmacovigilance - Inherent limitations and mitigation strategies. PMID:26342964
Geroprotectors.org: a new, structured and curated database of current therapeutic interventions in aging and age-related disease. PMID:26342919
Desiderata for computable representations of electronic health records-driven phenotype algorithms. PMID:26342218
Medication-indication knowledge bases: a systematic review and critical appraisal. PMID:26335981
Mining Electronic Health Records using Linked Data. PMID:26306276
Adverse Drug Events-based Tumor Stratification for Ovarian Cancer Patients Receiving Platinum Therapy. PMID:26306234
Towards a Computable Data Corpus of Temporal Correlations between Drug Administration and Lab Value Changes. PMID:26301507
Label Propagation Prediction of Drug-Drug Interactions Based on Clinical Side Effects. PMID:26196247
Relating Essential Proteins to Drug Side-Effects Using Canonical Component Analysis: A Structure-Based Approach. PMID:26121262
Publisher’s Note:Abstraction for data integration:Fusing mammalian molecular, cellular and phenotype big datasets for better knowledge extraction. PMID:26101093
Exploring Spanish health social media for detecting drug effects. PMID:26100267
Improving compound-protein interaction prediction by building up highly credible negative samples. PMID:26072486
A survey on the computational approaches to identify drug targets in the postgenomic era. PMID:26060814
Automatic Identification of Messages Related to Adverse Drug Reactions from Online User Reviews using Feature-based Classification. PMID:26060719
Comprehensive prediction of drug-protein interactions and side effects for the human proteome. PMID:26057345
Pharmacogenomic and clinical data link non-pharmacokinetic metabolic dysregulation to drug side effect pathogenesis. PMID:26055627
Analysis of the human diseasome using phenotype similarity between common, genetic, and infectious diseases. PMID:26051359
Targets of drugs are generally, and targets of drugs having side effects are specifically good spreaders of human interactome perturbations. PMID:25960144
Towards drug repositioning: a unified computational framework for integrating multiple aspects of drug similarity and disease similarity. PMID:25954437
Adverse Drug Event-based Stratification of Tumor Mutations: A Case Study of Breast Cancer Patients Receiving Aromatase Inhibitors. PMID:25954427
Pharmacovigilance on twitter? Mining tweets for adverse drug reactions. PMID:25954400
Automatic extraction of drug indications from FDA drug labels. PMID:25954385
Characterizing the sublanguage of online breast cancer forums for medications, symptoms, and emotions. PMID:25954356
Learning to identify treatment relations in clinical text. PMID:25954330
Exploring adverse drug events at the class level. PMID:25937884
Extracting research-quality phenotypes from electronic health records to support precision medicine. PMID:25937834
Prescription sequence symmetry analysis: assessing risk, temporality, and consistency for adverse drug reactions across datasets in five countries. PMID:25907076
GraphSAW: a web-based system for graphical analysis of drug interactions and side effects using pharmaceutical and molecular data. PMID:25881043
The role of ontologies in biological and biomedical research: a functional perspective. PMID:25863278
Comparing a knowledge-driven approach to a supervised machine learning approach in large-scale extraction of drug-side effect relationships from free-text biomedical literature. PMID:25860223
A survey of current trends in computational drug repositioning. PMID:25832646
Mining severe drug-drug interaction adverse events using Semantic Web technologies: a case study. PMID:25829948
Ranking adverse drug reactions with crowdsourcing. PMID:25800813
Similarity-based search of model organism, disease and drug effect phenotypes. PMID:25763178
Pharmacovigilance from social media: mining adverse drug reaction mentions using sequence labeling with word embedding cluster features. PMID:25755127
FXR antagonism of NSAIDs contributes to drug-induced liver injury identified by systems pharmacology approach. PMID:25631039
Mining hidden knowledge for drug safety assessment: topic modeling of LiverTox as a case study. PMID:25559675
Portable automatic text classification for adverse drug reaction detection via multi-corpus training. PMID:25451103
Combining automatic table classification and relationship extraction in extracting anticancer drug-side effect pairs from full-text articles. PMID:25445920
A chemo-centric view of human health and disease. PMID:25435099
Systematic prediction of drug combinations based on clinical side-effects. PMID:25418113
ADReCS: an ontology database for aiding standardization and hierarchical classification of adverse drug reaction terms. PMID:25361966
Mining adverse drug reactions from online healthcare forums using hidden Markov model. PMID:25341686
Assessing the role of a medication-indication resource in the treatment relation extraction from clinical text. PMID:25336593
An Ensemble Approach for Drug Side Effect Prediction. PMID:25327524
Organ system heterogeneity DB: a database for the visualization of phenotypes at the organ system level. PMID:25313158
Improving postapproval drug safety surveillance: getting better information sooner. PMID:25292435
Adverse drug reaction prediction using scores produced by large-scale drug-protein target docking on high-performance computing machines. PMID:25191698
A systematic investigation of computation models for predicting Adverse Drug Reactions (ADRs). PMID:25180585
Text mining for adverse drug events: the promise, challenges, and state of the art. PMID:25151493
Concordance and predictive value of two adverse drug event data sets. PMID:25149292
Lean Big Data integration in systems biology and systems pharmacology. PMID:25109570
A phenome-guided drug repositioning through a latent variable model. PMID:25103881
Systematic analysis of gene properties influencing organ system phenotypes in mammalian perturbations. PMID:25061072
Identifying plausible adverse drug reactions using knowledge extracted from the literature. PMID:25046831
Automatic construction of a large-scale and accurate drug-side-effect association knowledge base from biomedical literature. PMID:24928448
Targeting molecular networks for drug research. PMID:24926314
Integrated systems pharmacology analysis of clinical drug-induced peripheral neuropathy. PMID:24827872
Machine learning-based prediction of drug-drug interactions by integrating drug phenotypic, therapeutic, chemical, and genomic properties. PMID:24644270
Automated detection of off-label drug use. PMID:24586689
Integrating systems biology sources illuminates drug action. PMID:24577151
Inferring protein domains associated with drug side effects based on drug-target interaction network. PMID:24565527
A pipeline to extract drug-adverse event pairs from multiple data sources. PMID:24559132
Exploring the relationship between drug side-effects and therapeutic indications. PMID:24551427
Validation and enhancement of a computable medication indication resource (MEDI) using a large practice-based dataset. PMID:24551419
Construction of drug network based on side effects and its application for drug repositioning. PMID:24505324
Identifying tinnitus-related genes based on a side-effect network analysis. PMID:24477090
Lessons learned from developing a drug evidence base to support pharmacovigilance. PMID:24454585
Large-scale combining signals from both biomedical literature and the FDA Adverse Event Reporting System (FAERS) to improve post-marketing drug safety signal detection. PMID:24428898
Determining molecular predictors of adverse drug reactions with causality analysis based on structure learning. PMID:24334612
Learning signals of adverse drug-drug interactions from the unstructured text of electronic health records. PMID:24303305
Drug-target interaction prediction by integrating chemical, genomic, functional and pharmacological data. PMID:24297542
STITCH 4: integration of protein-chemical interactions with user data. PMID:24293645
A CTD-Pfizer collaboration: manual curation of 88,000 scientific articles text mined for drug-disease and drug-phenotype interactions. PMID:24288140
Predicting drug-target interactions using drug-drug interactions. PMID:24278248
Drug repositioning by kernel-based integration of molecular structure, molecular activity, and phenotype data. PMID:24244318
Toward better drug repositioning: prioritizing and integrating existing methods into efficient pipelines. PMID:24239728
Using aggregated, de-identified electronic health record data for multivariate pharmacosurveillance: a case study of azathioprine. PMID:24177317
Mouse model phenotypes provide information about human drug targets. PMID:24158600
Mining clinical text for signals of adverse drug-drug interactions. PMID:24158091
DGIdb: mining the druggable genome. PMID:24122041
Predicting drugs side effects based on chemical-chemical interactions and protein-chemical interactions. PMID:24078917
Target inhibition networks: predicting selective combinations of druggable targets to block cancer survival pathways. PMID:24068907
Network-based approaches in drug discovery and early development. PMID:24025802
Searching for synergies: matrix algebraic approaches for efficient pair screening. PMID:23935877
Target essentiality and centrality characterize drug side effects. PMID:23874169
Comparison of ultra-fast 2D and 3D ligand and target descriptors for side effect prediction and network analysis in polypharmacology. PMID:23826885
Compensating for literature annotation bias when predicting novel drug-disease relationships through Medical Subject Heading Over-representation Profile (MeSHOP) similarity. PMID:23819887
Integrative relational machine-learning for understanding drug side-effect profiles. PMID:23802887
Postmarket drug surveillance without trial costs: discovery of adverse drug reactions through large-scale analysis of web search queries. PMID:23778053
Network2Canvas: network visualization on a canvas with enrichment analysis. PMID:23749960
Predicting the Drug Safety for Traditional Chinese Medicine through a Comparative Analysis of Withdrawn Drugs Using Pharmacological Network. PMID:23737823
Toward creation of a cancer drug toxicity knowledge base: automatically extracting cancer drug-side effect relationships from the literature. PMID:23686935
GeneSetDB: A comprehensive meta-database, statistical and visualisation framework for gene set analysis. PMID:23650583
Systematic identification of proteins that elicit drug side effects. PMID:23632385
Characterization of drug-induced transcriptional modules: towards drug repositioning and functional understanding. PMID:23632384
Protein sets define disease states and predict in vivo effects of drug treatment. PMID:23579186
Development and evaluation of an ensemble resource linking medications to their indications. PMID:23576672
Pharmacovigilance using clinical notes. PMID:23571773
A semi-supervised approach to extract pharmacogenomics-specific drug-gene pairs from biomedical literature for personalized medicine. PMID:23570835
Systematic prediction of pharmacodynamic drug-drug interactions through protein-protein-interaction network. PMID:23555229
Network pharmacology strategies toward multi-target anticancer therapies: from computational models to experimental design principles. PMID:23530504
Applications of the InChI in cheminformatics with the CDK and Bioclipse. PMID:23497723
Informatics confronts drug-drug interactions. PMID:23414686
Structure and dynamics of molecular networks: a novel paradigm of drug discovery: a comprehensive review. PMID:23384594
Dynamic enhancement of drug product labels to support drug safety, efficacy, and effectiveness. PMID:23351881
Profiling structured product labeling with NDF-RT and RxNorm. PMID:23256517
Extraction of potential adverse drug events from medical case reports. PMID:23256479
Structure-function studies with G protein-coupled receptors as a paradigm for improving drug discovery and development of therapeutics. PMID:23213015
Text-mining solutions for biomedical research: enabling integrative biology. PMID:23150036
Characterizing the network of drugs and their affected metabolic subpathways. PMID:23112813
Investigating drug repositioning opportunities in FDA drug labels through topic modeling. PMID:23046522
Drug target prediction using adverse event report systems: a pharmacogenomic approach. PMID:22962489
Relating drug-protein interaction network with drug side effects. PMID:22962476
Getting personalized cancer genome analysis into the clinic: the challenges in bioinformatics. PMID:22839973
Mining the pharmacogenomics literature--a survey of the state of the art. PMID:22833496
INDI: a computational framework for inferring drug interactions and their associated recommendations. PMID:22806140
Large-scale prediction and testing of drug activity on side-effect targets. PMID:22722194
Large-scale prediction of adverse drug reactions using chemical, biological, and phenotypic properties of drugs. PMID:22718037
Translational bioinformatics: linking the molecular world to the clinical world. PMID:22549287
Data-driven prediction of drug effects and interactions. PMID:22422992
Predicting adverse side effects of drugs. PMID:22369493
A Database of Gene-Environment Interactions Pertaining to Blood Lipid Traits, Cardiovascular Disease and Type 2 Diabetes. PMID:22328972
Large-scale elucidation of drug response pathways in humans. PMID:22300318
Associating Drugs, Targets and Clinical Outcomes into an Integrated Network Affords a New Platform for Computer-Aided Drug Repurposing. PMID:22287994
Recycling side-effects into clinical markers for drug repositioning. PMID:22283977
Semantically enabling pharmacogenomic data for the realization of personalized medicine. PMID:22256869
Prediction of drug combinations by integrating molecular and pharmacological data. PMID:22219721
Predicting adverse drug events from personal health messages. PMID:22195073
Translating clinical findings into knowledge in drug safety evaluation--drug induced liver injury prediction system (DILIps). PMID:22194678
STITCH 3: zooming in on protein-chemical interactions. PMID:22075997
Computational toxicology using the OpenTox application programming interface and Bioclipse. PMID:22075173
SuperTarget goes quantitative: update on drug-target interactions. PMID:22067455
Chemical structural novelty: on-targets and off-targets. PMID:21916467
Network neighbors of drug targets contribute to drug side-effect similarity. PMID:21765950
2010 translational bioinformatics year in review. PMID:21672905
PREDICT: a method for inferring novel drug indications with application to personalized medicine. PMID:21654673
Predicting drug side-effect profiles: a chemical fragment-based approach. PMID:21586169
Linked open drug data for pharmaceutical research and development. PMID:21575203
Building the process-drug-side effect network to discover the relationship between biological processes and side effects. PMID:21489221
ADESSA: A Real-Time Decision Support Service for Delivery of Semantically Coded Adverse Drug Event Data. PMID:21346964
PROMISCUOUS: a database for network-based drug-repositioning. PMID:21071407
Recent progress in automatically extracting information from the pharmacogenomic literature. PMID:21047206
Towards a unifying, systems biology understanding of large-scale cellular death and destruction caused by poorly liganded iron: Parkinson's, Huntington's, Alzheimer's, prions, bactericides, chemical toxicology and others as examples. PMID:20967426
ChemProt: a disease chemical biology database. PMID:20935044
Reconstruction and flux-balance analysis of the Plasmodium falciparum metabolic network. PMID:20823846
A structure-based approach for mapping adverse drug reactions to the perturbation of underlying biological pathways. PMID:20808786
Drug discovery in a multidimensional world: systems, patterns, and networks. PMID:20677029
Network-based relating pharmacological and genomic spaces for drug target identification. PMID:20668676
The SIDER database of drugs and side effects PubMed citations: 272.

272 articles citing: The SIDER database of drugs and side effects

Drug-Drug Interactions with Oral Anticoagulants as Potentially Inappropriate Medications: Prevalence and Outcomes in Elderly Patients in Primary Care and Hospital Settings. PMID:35890305
Assessing Drug-Induced Mitochondrial Toxicity in Cardiomyocytes: Implications for Preclinical Cardiac Safety Evaluation. PMID:35890211
The Potential Complementary Role of Using Chinese Herbal Medicine with Western Medicine in Treating COVID-19 Patients: Pharmacology Network Analysis. PMID:35890093
Large-Scale Multi-Omics Studies Provide New Insights into Blood Pressure Regulation. PMID:35886906
DES-Amyloidoses "Amyloidoses through the looking-glass": A knowledgebase developed for exploring and linking information related to human amyloid-related diseases. PMID:35877764
DILI C : An AI-Based Classifier to Search for Drug-Induced Liver Injury Literature. PMID:35846129
Current status and future directions for a neurotoxicity hazard assessment framework that integrates in silico approaches. PMID:35844258
The heterogeneous pharmacological medical biochemical network PharMeBINet. PMID:35821017
COVIDPUBGRAPH: A FAIR Knowledge Graph of COVID-19 Publications. PMID:35803947
SperoPredictor: An Integrated Machine Learning and Molecular Docking-Based Drug Repurposing Framework With Use Case of COVID-19. PMID:35784208
Systematic indication extension for drugs using patient stratification insights generated by combinatorial analytics. PMID:35755863
Network approaches for modeling the effect of drugs and diseases. PMID:35704883
Computational drug repurposing based on electronic health records: a scoping review. PMID:35701544
PhenoDEF: a corpus for annotating sentences with information of phenotype definitions in biomedical literature. PMID:35690873
Innovative in Silico Approaches for Characterization of Genes and Proteins. PMID:35664302
BETA: a comprehensive benchmark for computational drug-target prediction. PMID:35649342
BioChemDDI: Predicting Drug-Drug Interactions by Fusing Biochemical and Structural Information through a Self-Attention Mechanism. PMID:35625486
MoCL: Data-driven Molecular Fingerprint via Knowledge-aware Contrastive Learning from Molecular Graph. PMID:35571558
Artificial intelligence in cancer target identification and drug discovery. PMID:35538061
Benefits of, Barriers to, and Needs for an Artificial Intelligence-Powered Medication Information Voice Chatbot for Older Adults: Interview Study With Geriatrics Experts. PMID:35482367
An Explainable Supervised Machine Learning Model for Predicting Respiratory Toxicity of Chemicals Using Optimal Molecular Descriptors. PMID:35456666
GEOM, energy-annotated molecular conformations for property prediction and molecular generation. PMID:35449137
Comprehensive network medicine-based drug repositioning via integration of therapeutic efficacy and side effects. PMID:35443763
Combining biomedical knowledge graphs and text to improve predictions for drug-target interactions and drug-indications. PMID:35402106
Chemogenomic Approaches for Revealing Drug Target Interactions in Drug Discovery. PMID:35283667
A reference set of clinically relevant adverse drug-drug interactions. PMID:35246559
Enhancer promoter interactome and Mendelian randomization identify network of druggable vascular genes in coronary artery disease. PMID:35246263
DrugShot: querying biomedical search terms to retrieve prioritized lists of small molecules. PMID:35183110
Tamsulosin and risk of priapism: A causality assessment using Austin Bradford Hill Criteria. PMID:35170870
A Review of Approaches for Predicting Drug-Drug Interactions Based on Machine Learning. PMID:35153767
Advancing drug safety science by integrating molecular knowledge with post-marketing adverse event reports. PMID:35143713
DDIT: An Online Predictor for Multiple Clinical Phenotypic Drug-Disease Associations. PMID:35126114
In Silico Prediction and Insights Into the Structural Basis of Drug Induced Nephrotoxicity. PMID:35082675
Detection of polypharmacy side effects by integrating multiple data sources and convolutional neural networks. PMID:35072838
Social Media Analytics for Pharmacovigilance of Antiepileptic Drugs. PMID:35027943
Integrating gene expression and clinical data to identify drug repurposing candidates for hyperlipidemia and hypertension. PMID:35013250
HLA-SPREAD: a natural language processing based resource for curating HLA association from PubMed abstracts. PMID:34991484
A Deep-Learning Proteomic-Scale Approach for Drug Design. PMID:34959678
Data Centric Molecular Analysis and Evaluation of Hepatocellular Carcinoma Therapeutics Using Machine Intelligence-Based Tools. PMID:34910274
Predicting the side effects of drugs using matrix factorization on spontaneous reporting database. PMID:34907245
Drug Repositioning For Allosteric Modulation of VIP and PACAP Receptors. PMID:34867774
Application of the Pluripotent Stem Cells and Genomics in Cardiovascular Research-What We Have Learnt and Not Learnt until Now. PMID:34831333
Natural products for infectious microbes and diseases: an overview of sources, compounds, and chemical diversities. PMID:34705221
Adverse Drug Event Prediction Using Noisy Literature-Derived Knowledge Graphs: Algorithm Development and Validation. PMID:34694230
Mining drug-target and drug-adverse drug reaction databases to identify target-adverse drug reaction relationships. PMID:34679164
Quantifying the Severity of Adverse Drug Reactions Using Social Media: Network Analysis. PMID:34673524
Unravelling the collateral damage of antibiotics on gut bacteria. PMID:34646011
A survey on computational methods in discovering protein inhibitors of SARS-CoV-2. PMID:34623382
The Complex Structure of the Pharmacological Drug-Disease Network. PMID:34573762
Clinical connectivity map for drug repurposing: using laboratory results to bridge drugs and diseases. PMID:34560862
An updated, computable MEDication-Indication resource for biomedical research. PMID:34556781
ASGARD: A Single-cell Guided pipeline to Aid Repurposing of Drugs. PMID:34545335
Accelerating antibiotic discovery through artificial intelligence. PMID:34504303
Machine learning methods, databases and tools for drug combination prediction. PMID:34477201
Drug Discovery of Spinal Muscular Atrophy (SMA) from the Computational Perspective: A Comprehensive Review. PMID:34445667
Biomolecule and Bioentity Interaction Databases in Systems Biology: A Comprehensive Review. PMID:34439912
Development of an adverse drug event network to predict drug toxicity. PMID:34345836
DTI-Voodoo: machine learning over interaction networks and ontology-based background knowledge predicts drug-target interactions. PMID:34320178
A neural network-based method for polypharmacy side effects prediction. PMID:34303360
Integrative resource for network-based investigation of COVID-19 combinatorial drug repositioning and mechanism of action. PMID:34278363
DES-Tcell is a knowledgebase for exploring immunology-related literature. PMID:34253812
In Vivo Activity of Repurposed Amodiaquine as a Host-Targeting Therapy for the Treatment of Anthrax. PMID:34218660
Toward a Coronavirus Knowledge Graph. PMID:34209818
In silico prediction of chemical-induced hematotoxicity with machine learning and deep learning methods. PMID:34196933
Side effect prediction based on drug-induced gene expression profiles and random forest with iterative feature selection. PMID:34155353
ChemBioSim: Enhancing Conformal Prediction of In Vivo Toxicity by Use of Predicted Bioactivities. PMID:34153183
Novel deep learning-based transcriptome data analysis for drug-drug interaction prediction with an application in diabetes. PMID:34116627
A multiple network-based bioinformatics pipeline for the study of molecular mechanisms in oncological diseases for personalized medicine. PMID:34050359
A merged molecular representation learning for molecular properties prediction with a web-based service. PMID:34040026
Drug Repurposing: Claiming the Full Benefit from Drug Development. PMID:33961142
Uncovering genetic mechanisms of hypertension through multi-omic analysis of the kidney. PMID:33958779
Leveraging digital media data for pharmacovigilance. PMID:33936417
Finding Causal Mechanistic Drug-Drug Interactions from Observational Data. PMID:33936409
Drugmonizome and Drugmonizome-ML: integration and abstraction of small molecule attributes for drug enrichment analysis and machine learning. PMID:33787872
Diclofenac and the Risk of Rhabdomyolysis: Analysis of Publications and the WHO Global Pharmacovigilance Database. PMID:33786776
Towards a mechanistic understanding of reciprocal drug-microbiome interactions. PMID:33734582
SEED: Symptom Extraction from English Social Media Posts using Deep Learning and Transfer Learning. PMID:33594374
InContext: curation of medical context for drug indications. PMID:33579375
Fast Identification of Adverse Drug Reactions (ADRs) of Digestive and Nervous Systems of Organic Drugs by In Silico Models. PMID:33578679
Current and prospective computational approaches and challenges for developing COVID-19 vaccines. PMID:33561453
In silico drug repositioning based on the integration of chemical, genomic and pharmacological spaces. PMID:33557749
Prediction of adverse drug reactions based on knowledge graph embedding. PMID:33541342
Large-Scale Modeling of Multispecies Acute Toxicity End Points Using Consensus of Multitask Deep Learning Methods. PMID:33533614
Artificial intelligence in drug discovery: what is realistic, what are illusions? Part 2: a discussion of chemical and biological data. PMID:33508423
Prediction and mechanistic analysis of drug-induced liver injury (DILI) based on chemical structure. PMID:33461600
Artificial Intelligence in Drug Discovery: A Comprehensive Review of Data-driven and Machine Learning Approaches. PMID:33437151
Drug repurposing for opioid use disorders: integration of computational prediction, clinical corroboration, and mechanism of action analyses. PMID:33432189
A review of computational drug repositioning: strategies, approaches, opportunities, challenges, and directions. PMID:33431024
Building attention and edge message passing neural networks for bioactivity and physical-chemical property prediction. PMID:33430988
Learning important features from multi-view data to predict drug side effects. PMID:33430979
The side effect profile of Clozapine in real world data of three large mental health hospitals. PMID:33290433
PROMISCUOUS 2.0: a resource for drug-repositioning. PMID:33196798
Semi-supervised Hierarchical Drug Embedding in Hyperbolic Space. PMID:33140969
Optimized Combination of HDACI and TKI Efficiently Inhibits Metabolic Activity in Renal Cell Carcinoma and Overcomes Sunitinib Resistance. PMID:33126775
PIMD: An Integrative Approach for Drug Repositioning Using Multiple Characterization Fusion. PMID:33075523
The support of genetic evidence for cardiovascular risk induced by antineoplastic drugs. PMID:33055159
Toward Preparing a Knowledge Base to Explore Potential Drugs and Biomedical Entities Related to COVID-19: Automated Computational Approach. PMID:33055059
Named Entity Recognition and Relation Detection for Biomedical Information Extraction. PMID:32984300
The 2019 National Natural language processing (NLP) Clinical Challenges (n2c2)/Open Health NLP (OHNLP) shared task on clinical concept normalization for clinical records. PMID:32968800
NEDD: a network embedding based method for predicting drug-disease associations. PMID:32938396
Predicting the frequencies of drug side effects. PMID:32917868
Adverse drug event detection using reason assignments in FDA drug labels. PMID:32890727
Bromocriptine as a Novel Pharmacological Chaperone for Mucopolysaccharidosis IV A. PMID:32676143
Advancing computer-aided drug discovery (CADD) by big data and data-driven machine learning modeling. PMID:32663517
Combining phenome-driven drug-target interaction prediction with patients' electronic health records-based clinical corroboration toward drug discovery. PMID:32657406
KGHC: a knowledge graph for hepatocellular carcinoma. PMID:32646496
Self-reported COVID-19 symptoms on Twitter: an analysis and a research resource. PMID:32620975
Signature-based approaches for informed drug repurposing: targeting CNS disorders. PMID:32604402
Identifying Herbal Adverse Events From Spontaneous Reporting Systems Using Taxonomic Name Resolution Approach. PMID:32595273
Machine learning guided association of adverse drug reactions with in vitro target-based pharmacology. PMID:32565027
Identification of longevity compounds with minimized probabilities of side effects. PMID:32562114
Mining Social Media Data for Biomedical Signals and Health-Related Behavior. PMID:32550337
Understanding Drug Repurposing From the Perspective of Biomedical Entities and Their Evolution: Bibliographic Research Using Aspirin. PMID:32543442
Discovery of 318 new risk loci for type 2 diabetes and related vascular outcomes among 1.4 million participants in a multi-ancestry meta-analysis. PMID:32541925
The development of a scoring and ranking strategy for a patient-tailored adverse drug reaction prediction in polypharmacy. PMID:32533040
Dual Transcriptomic and Molecular Machine Learning Predicts all Major Clinical Forms of Drug Cardiotoxicity. PMID:32508633
Aggregation and analysis of indication-symptom relationships for drugs approved in the USA. PMID:32495081
Predicting Polypharmacy Side-effects Using Knowledge Graph Embeddings. PMID:32477666
Extending the small-molecule similarity principle to all levels of biology with the Chemical Checker. PMID:32440005
Drug repositioning or target repositioning: A structural perspective of drug-target-indication relationship for available repurposed drugs. PMID:32419905
Revealing new therapeutic opportunities through drug target prediction: a class imbalance-tolerant machine learning approach. PMID:32399556
Combining Social Media and FDA Adverse Event Reporting System to Detect Adverse Drug Reactions. PMID:32385840
PathWalks: identifying pathway communities using a disease-related map of integrated information. PMID:32369599
Towards the routine use of in silico screenings for drug discovery using metabolic modelling. PMID:32369553
A Modified Skip-Gram Algorithm for Extracting Drug-Drug Interactions from AERS Reports. PMID:32351611
Mining Drugs and Indications for Suicide-Related Adverse Events. PMID:32308898
DES-ROD: Exploring Literature to Develop New Links between RNA Oxidation and Human Diseases. PMID:32308806
Prediction of Side Effects Using Comprehensive Similarity Measures. PMID:32190647
Mining and visualizing high-order directional drug interaction effects using the FAERS database. PMID:32183790
Exploration of databases and methods supporting drug repurposing: a comprehensive survey. PMID:32055842
A Novel Approach for Drug-Target Interactions Prediction Based on Multimodal Deep Autoencoder. PMID:32047432
Quantifying Gene Essentiality Based on the Context of Cellular Components. PMID:32038710
Vienna LiverTox Workspace-A Set of Machine Learning Models for Prediction of Interactions Profiles of Small Molecules With Transporters Relevant for Regulatory Agencies. PMID:31998690
Inferring new relations between medical entities using literature curated term co-occurrences. PMID:31984370
CMTTdb: the cancer molecular targeted therapy database. PMID:31930068
Database of adverse events associated with drugs and drug combinations. PMID:31882773
Old drug repositioning and new drug discovery through similarity learning from drug-target joint feature spaces. PMID:31881829
DDI-PULearn: a positive-unlabeled learning method for large-scale prediction of drug-drug interactions. PMID:31870276
Broad-Spectrum Profiling of Drug Safety via Learning Complex Network. PMID:31868917
Drug repurposing to improve treatment of rheumatic autoimmune inflammatory diseases. PMID:31831878
Pathway and network embedding methods for prioritizing psychiatric drugs. PMID:31797637
A Literature-Based Knowledge Graph Embedding Method for Identifying Drug Repurposing Opportunities in Rare Diseases. PMID:31797619
Graph-based information diffusion method for prioritizing functionally related genes in protein-protein interaction networks. PMID:31797617
Discovery of disease- and drug-specific pathways through community structures of a literature network. PMID:31738408
RedMed: Extending drug lexicons for social media applications. PMID:31627020
MetaMed: Linking Microbiota Functions with Medicine Therapeutics. PMID:31594829
Insights from pharmacokinetic models of host-microbiome drug metabolism. PMID:31564204
Drug repurposing for breast cancer therapy: Old weapon for new battle. PMID:31550502
Drug-Drug Interaction Predicting by Neural Network Using Integrated Similarity. PMID:31541145
Molecular Docking: Shifting Paradigms in Drug Discovery. PMID:31487867
Adverse drug events and medication relation extraction in electronic health records with ensemble deep learning methods. PMID:31390003
Artificial Intelligence for Drug Toxicity and Safety. PMID:31383376
Five-Feature Model for Developing the Classifier for Synergistic vs. Antagonistic Drug Combinations Built by XGBoost. PMID:31338106
Assessment of the cardiovascular adverse effects of drug-drug interactions through a combined analysis of spontaneous reports and predicted drug-target interactions. PMID:31323029
In Silico Toxicology Data Resources to Support Read-Across and (Q)SAR. PMID:31244651
Predicting gastrointestinal drug effects using contextualized metabolic models. PMID:31242176
Literature-Based Enrichment Insights into Redox Control of Vascular Biology. PMID:31223421
Improved Classification of Blood-Brain-Barrier Drugs Using Deep Learning. PMID:31217424
The human gut chemical landscape predicts microbe-mediated biotransformation of foods and drugs. PMID:31184303
Computational Identification of Novel Kir6 Channel Inhibitors. PMID:31178728
Predicting and Understanding the Human Microbiome's Impact on Pharmacology. PMID:31171383
PathoPhenoDB, linking human pathogens to their phenotypes in support of infectious disease research. PMID:31160594
Drug repositioning of herbal compounds via a machine-learning approach. PMID:31138103
Leveraging genetic interactions for adverse drug-drug interaction prediction. PMID:31125330
Computational models for the prediction of adverse cardiovascular drug reactions. PMID:31118067
Revealing Drug-Target Interactions with Computational Models and Algorithms. PMID:31052598
PGxO and PGxLOD: a reconciliation of pharmacogenomic knowledge of various provenances, enabling further comparison. PMID:30999867
Immunotherapy-related adverse events (irAEs): extraction from FDA drug labels and comparative analysis. PMID:30976759
On building a diabetes centric knowledge base via mining the web. PMID:30961582
Meta-path Based Prioritization of Functional Drug Actions with Multi-Level Biological Networks. PMID:30940832
Examining Socioeconomic and Computational Aspects of Vaccine Pharmacovigilance. PMID:30911546
Long Noncoding RNA and Protein Interactions: From Experimental Results to Computational Models Based on Network Methods. PMID:30875752
KMR: knowledge-oriented medicine representation learning for drug-drug interaction and similarity computation. PMID:30874969
Lyme Disease Patient Trajectories Learned from Electronic Medical Data for Stratification of Disease Risk and Therapeutic Response. PMID:30872757
Study of serious adverse drug reactions using FDA-approved drug labeling and MedDRA. PMID:30871458
Leveraging Big Data to Transform Drug Discovery. PMID:30848458
Drug repurposing for antimicrobial discovery. PMID:30833727
A Network Pharmacology Approach for the Identification of Common Mechanisms of Drug-Induced Peripheral Neuropathy. PMID:30762308
Detecting Potential Adverse Drug Reactions Using a Deep Neural Network Model. PMID:30724742
Inverse similarity and reliable negative samples for drug side-effect prediction. PMID:30717666
Drug-induced diabetes type 2: In silico study involving class B GPCRs. PMID:30650080
Predicting adverse drug reactions of combined medication from heterogeneous pharmacologic databases. PMID:30598065
Trans-ethnic association study of blood pressure determinants in over 750,000 individuals. PMID:30578418
iDEP: an integrated web application for differential expression and pathway analysis of RNA-Seq data. PMID:30567491
Deep Convolutional Neural Networks for the Prediction of Molecular Properties: Challenges and Opportunities Connected to the Data. PMID:30517077
In Silico Profiling of Clinical Phenotypes for Human Targets Using Adverse Event Data. PMID:30477159
Machine learning model combining features from algorithms with different analytical methodologies to detect laboratory-event-related adverse drug reaction signals. PMID:30462745
A Drug-Side Effect Context-Sensitive Network approach for drug target prediction. PMID:30428013
SymMap: an integrative database of traditional Chinese medicine enhanced by symptom mapping. PMID:30380087
Network-Based Methods for Prediction of Drug-Target Interactions. PMID:30356768
Expression-based drug screening of neural progenitor cells from individuals with schizophrenia. PMID:30356048
Rationalizing Secondary Pharmacology Screening Using Human Genetic and Pharmacological Evidence. PMID:30346593
Network, Transcriptomic and Genomic Features Differentiate Genes Relevant for Drug Response. PMID:30319692
Drug Repositioning to Accelerate Drug Development Using Social Media Data: Computational Study on Parkinson Disease. PMID:30309833
Pharmacological risk factors associated with hospital readmission rates in a psychiatric cohort identified using prescriptome data mining. PMID:30255805
Mining FDA resources to compute population-specific frequencies of adverse drug reactions. PMID:30197820
Drug Hypersensitivity. PMID:30135011
Detecting Pharmacovigilance Signals Combining Electronic Medical Records With Spontaneous Reports: A Case Study of Conventional Disease-Modifying Antirheumatic Drugs for Rheumatoid Arthritis. PMID:30131701
Recent applications of deep learning and machine intelligence on in silico drug discovery: methods, tools and databases. PMID:30084866
Chemical-induced disease extraction via recurrent piecewise convolutional neural networks. PMID:30066652
Learning predictive models of drug side-effect relationships from distributed representations of literature-derived semantic predications. PMID:30010902
OpenPVSignal: Advancing Information Search, Sharing and Reuse on Pharmacovigilance Signals via FAIR Principles and Semantic Web Technologies. PMID:29997499
A systematic assessment of the availability and clinical drug information coverage of machine-readable clinical drug data sources for building knowledge translation products. PMID:29982512
Gene expression-based drug repurposing to target aging. PMID:29959820
Modeling polypharmacy side effects with graph convolutional networks. PMID:29949996
DeCoST: A New Approach in Drug Repurposing From Control System Theory. PMID:29922160
Tissue-Specific Analysis of Pharmacological Pathways. PMID:29920991
Drug-Induced Rhabdomyolysis Atlas (DIRA) for idiosyncratic adverse drug reaction management. PMID:29902520
CATCH-KB: Establishing a Pharmacogenomics Variant Repository for Chemotherapy-Induced Cardiotoxicity. PMID:29888066
Exploring Landscape of Drug-Target-Pathway-Side Effect Associations. PMID:29888057
Changing Trends in Computational Drug Repositioning. PMID:29874824
Reverse Screening Methods to Search for the Protein Targets of Chemopreventive Compounds. PMID:29868550
Detection of Adverse Drug Reactions using Medical Named Entities on Twitter. PMID:29854190
Predicting potential drug-drug interactions on topological and semantic similarity features using statistical learning. PMID:29738537
A Data-Driven Method of Discovering Misspellings of Medication Names on Twitter. PMID:29677938
MoleculeNet: a benchmark for molecular machine learning. PMID:29629118
Comparing the performance of meta-classifiers-a case study on selected imbalanced data sets relevant for prediction of liver toxicity. PMID:29626291
Extensive impact of non-antibiotic drugs on human gut bacteria. PMID:29555994
A hierarchical anatomical classification schema for prediction of phenotypic side effects. PMID:29494708
A global network of biomedical relationships derived from text. PMID:29490008
Recon3D enables a three-dimensional view of gene variation in human metabolism. PMID:29457794
Global view of a drug-sensitivity gene network. PMID:29423044
Computational Assessment of Pharmacokinetics and Biological Effects of Some Anabolic and Androgen Steroids. PMID:29404794
Integrated Modules Analysis to Explore the Molecular Mechanisms of Phlegm-Stasis Cementation Syndrome with Ischemic Heart Disease. PMID:29403392
A dataset of 200 structured product labels annotated for adverse drug reactions. PMID:29381145
Construction and analysis of gene-gene dynamics influence networks based on a Boolean model. PMID:29322926
Putative functional genes in idiopathic dilated cardiomyopathy. PMID:29311597
An automatic approach for constructing a knowledge base of symptoms in Chinese. PMID:29297414
Mining Adverse Events of Dietary Supplements from Product Labels by Topic Modeling. PMID:29295169
Translational Biomedical Informatics and Pharmacometrics Approaches in the Drug Interactions Research. PMID:29193890
Knowledge graph prediction of unknown adverse drug reactions and validation in electronic health records. PMID:29180758
SuperDRUG2: a one stop resource for approved/marketed drugs. PMID:29140469
ADEPt, a semantically-enriched pipeline for extracting adverse drug events from free-text electronic health records. PMID:29121053
Predicting combinative drug pairs towards realistic screening via integrating heterogeneous features. PMID:29072137
Making Sense of Big Textual Data for Health Care: Findings from the Section on Clinical Natural Language Processing. PMID:29063569
Formalizing drug indications on the road to therapeutic intent. PMID:29016968
Human Induced Pluripotent Stem Cell (hiPSC)-Derived Cells to Assess Drug Cardiotoxicity: Opportunities and Problems. PMID:28992430
Systematic integration of biomedical knowledge prioritizes drugs for repurposing. PMID:28936969
Structural and Functional View of Polypharmacology. PMID:28860623
Discovering associations between adverse drug events using pattern structures and ontologies. PMID:28830518
Discovery of novel therapeutic properties of drugs from transcriptional responses based on multi-label classification. PMID:28769090
Machine learning workflow to enhance predictions of Adverse Drug Reactions (ADRs) through drug-gene interactions: application to drugs for cutaneous diseases. PMID:28623363
Predicting anatomic therapeutic chemical classification codes using tiered learning. PMID:28617230
TCM-Mesh: The database and analytical system for network pharmacology analysis for TCM preparations. PMID:28588237
Large-Scale Prediction of Drug-Target Interaction: a Data-Centric Review. PMID:28577120
Low Data Drug Discovery with One-Shot Learning. PMID:28470045
Large-scale detection of drug off-targets: hypotheses for drug repurposing and understanding side-effects. PMID:28449705
Learning from biomedical linked data to suggest valid pharmacogenes. PMID:28427468
DES-ncRNA: A knowledgebase for exploring information about human micro and long noncoding RNAs based on literature-mining. PMID:28387604
Drug repurposing from the perspective of pharmaceutical companies. PMID:28369768
Network-based analysis of transcriptional profiles from chemical perturbations experiments. PMID:28361664
The druggable genome and support for target identification and validation in drug development. PMID:28356508
CATTLE (CAncer treatment treasury with linked evidence): An integrated knowledge base for personalized oncology research and practice. PMID:28296354
Using Drug Similarities for Discovery of Possible Adverse Reactions. PMID:28269889
Drug voyager: a computational platform for exploring unintended drug action. PMID:28241745
Predicting Drug-Induced Cholestasis with the Help of Hepatic Transporters-An in Silico Modeling Approach. PMID:28166633
Computational polypharmacology: a new paradigm for drug discovery. PMID:28067061
Predict drug permeability to blood-brain-barrier from clinical phenotypes: drug side effects and drug indications. PMID:27993785
DrugCentral: online drug compendium. PMID:27789690
Using Big Data to Discover Diagnostics and Therapeutics for Gastrointestinal and Liver Diseases. PMID:27773806
Leveraging graph topology and semantic context for pharmacovigilance through twitter-streams. PMID:27766937
In search for geroprotectors: in silico screening and in vitro validation of signalome-level mimetics of young healthy state. PMID:27677171
Identification of gefitinib off-targets using a structure-based systems biology approach; their validation with reverse docking and retrospective data mining. PMID:27653775
A Network-Based Data Integration Approach to Support Drug Repurposing and Multi-Target Therapies in Triple Negative Breast Cancer. PMID:27632168
Big Data Mining and Adverse Event Pattern Analysis in Clinical Drug Trials. PMID:27631620
DRUG-DRUG INTERACTION PROFILES OF MEDICATION REGIMENS EXTRACTED FROM A DE-IDENTIFIED ELECTRONIC MEDICAL RECORDS SYSTEM. PMID:27570646
OpenVigil FDA - Inspection of U.S. American Adverse Drug Events Pharmacovigilance Data and Novel Clinical Applications. PMID:27326858
Overlap in drug-disease associations between clinical practice guidelines and drug structured product label indications. PMID:27277160
The role of drug profiles as similarity metrics: applications to repurposing, adverse effects detection and drug-drug interactions. PMID:27273288
CART-a chemical annotation retrieval toolkit. PMID:27256313
A Querying Method over RDF-ized Health Level Seven v2.5 Messages Using Life Science Knowledge Resources. PMID:27050304
The 2016 database issue of Nucleic Acids Research and an updated molecular biology database collection. PMID:26740669
Systematic identification of proteins that elicit drug side effects PubMed citations: 49.

49 articles citing: Systematic identification of proteins that elicit drug side effects

Identification of New Toxicity Mechanisms in Drug-Induced Liver Injury through Systems Pharmacology. PMID:35886075
Advancing drug safety science by integrating molecular knowledge with post-marketing adverse event reports. PMID:35143713
Mining drug-target and drug-adverse drug reaction databases to identify target-adverse drug reaction relationships. PMID:34679164
Learning important features from multi-view data to predict drug side effects. PMID:33430979
e-MutPath: computational modeling reveals the functional landscape of genetic mutations rewiring interactome networks. PMID:33211847
Extending the small-molecule similarity principle to all levels of biology with the Chemical Checker. PMID:32440005
Biological representation of chemicals using latent target interaction profile. PMID:31861982
Sequence-Derived Markers of Drug Targets and Potentially Druggable Human Proteins. PMID:31803227
Massive computational acceleration by using neural networks to emulate mechanism-based biological models. PMID:31554788
Promiscuous Ligands from Experimentally Determined Structures, Binding Conformations, and Protein Family-Dependent Interaction Hotspots. PMID:31459430
Optimal control nodes in disease-perturbed networks as targets for combination therapy. PMID:31097707
Network-based characterization of drug-protein interaction signatures with a space-efficient approach. PMID:30953486
Examining Socioeconomic and Computational Aspects of Vaccine Pharmacovigilance. PMID:30911546
In Silico Profiling of Clinical Phenotypes for Human Targets Using Adverse Event Data. PMID:30477159
Machine Learning for Integrating Data in Biology and Medicine: Principles, Practice, and Opportunities. PMID:30467459
Target-Adverse Event Profiles to Augment Pharmacovigilance: A Pilot Study With Six New Molecular Entities. PMID:30354029
Construction and analysis of gene-gene dynamics influence networks based on a Boolean model. PMID:29322926
A computational method for the identification of candidate drugs for non-small cell lung cancer. PMID:28820893
Interrogating Patient-level Genomics and Mouse Phenomics towards Understanding Cytokines in Colorectal Cancer Metastasis. PMID:28815134
Paralog-divergent Features May Help Reduce Off-target Effects of Drugs: Hints from Glucagon Subfamily Analysis. PMID:28642113
Systematic Analyses and Prediction of Human Drug Side Effect Associated Proteins from the Perspective of Protein Evolution. PMID:28391292
The anatomy of phenotype ontologies: principles, properties and applications. PMID:28387809
Drug voyager: a computational platform for exploring unintended drug action. PMID:28241745
Large-scale identification of adverse drug reaction-related proteins through a random walk model. PMID:27805066
Leveraging graph topology and semantic context for pharmacovigilance through twitter-streams. PMID:27766937
A Novel Drug-Mouse Phenotypic Similarity Method Detects Molecular Determinants of Drug Effects. PMID:27673331
A Network-Based Data Integration Approach to Support Drug Repurposing and Multi-Target Therapies in Triple Negative Breast Cancer. PMID:27632168
Leveraging 3D chemical similarity, target and phenotypic data in the identification of drug-protein and drug-adverse effect associations. PMID:27375776
Network-based in silico drug efficacy screening. PMID:26831545
Systems biology approaches for identifying adverse drug reactions and elucidating their underlying biological mechanisms. PMID:26559926
The SIDER database of drugs and side effects. PMID:26481350
Integrating Multiple Evidence Sources to Predict Adverse Drug Reactions Based on a Systems Pharmacology Model. PMID:26451329
Relating Essential Proteins to Drug Side-Effects Using Canonical Component Analysis: A Structure-Based Approach. PMID:26121262
Publisher’s Note:Abstraction for data integration:Fusing mammalian molecular, cellular and phenotype big datasets for better knowledge extraction. PMID:26101093
Deciphering Signaling Pathway Networks to Understand the Molecular Mechanisms of Metformin Action. PMID:26083494
Comprehensive prediction of drug-protein interactions and side effects for the human proteome. PMID:26057345
Pharmacogenomic and clinical data link non-pharmacokinetic metabolic dysregulation to drug side effect pathogenesis. PMID:26055627
Analysis of the human diseasome using phenotype similarity between common, genetic, and infectious diseases. PMID:26051359
Ranking adverse drug reactions with crowdsourcing. PMID:25800813
3D pharmacophoric similarity improves multi adverse drug event identification in pharmacovigilance. PMID:25744369
Modules, networks and systems medicine for understanding disease and aiding diagnosis. PMID:25473422
Elucidating the genotype-phenotype relationships and network perturbations of human shared and specific disease genes from an evolutionary perspective. PMID:25287147
Adverse drug reaction prediction using scores produced by large-scale drug-protein target docking on high-performance computing machines. PMID:25191698
Systematic analysis of gene properties influencing organ system phenotypes in mammalian perturbations. PMID:25061072
Identifying plausible adverse drug reactions using knowledge extracted from the literature. PMID:25046831
Inferring protein domains associated with drug side effects based on drug-target interaction network. PMID:24565527
STITCH 4: integration of protein-chemical interactions with user data. PMID:24293645
Advanced systems biology methods in drug discovery and translational biomedicine. PMID:24171171
Mouse model phenotypes provide information about human drug targets. PMID:24158600
http://dx.doi.org/10.1093/nar/gkv1075

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adverse reaction
metasource: Fairsharing.org
version: FAIRsharing.org: SIDER; Side Effect Resource; DOI: https://doi.org/10.25504/FAIRsharing.zzaykv; Last edited: July 1, 2019, 12:57 p.m.; Last accessed: Jan 03 2022 7:09 p.m.

drug
metasource: Fairsharing.org
version: FAIRsharing.org: SIDER; Side Effect Resource; DOI: https://doi.org/10.25504/FAIRsharing.zzaykv; Last edited: July 1, 2019, 12:57 p.m.; Last accessed: Jan 03 2022 7:09 p.m.

target
metasource: Fairsharing.org
version: FAIRsharing.org: SIDER; Side Effect Resource; DOI: https://doi.org/10.25504/FAIRsharing.zzaykv; Last edited: July 1, 2019, 12:57 p.m.; Last accessed: Jan 03 2022 7:09 p.m.

other molecular biology databases
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

drugs and drug design
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

medicine
metasource: bio.tools
version: extracted_at: 2022-11-04T11:26:40.491505

adverse reaction drug target molecular biology drug medicine

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SuperTarget

DaiCee

Adverse Drug Reaction Markup Language

DART - Drug Adverse Reaction Targets

ADReCS

DrugBank

T-ARDIS

DrugCentral

Drug2Gene

TTD, Therapeutic Target Database

MetaADEDB

PROMISCUOUS

SuperPain

Ontology of Drug Neuropathy Adverse Events

Canada Vigilance Adverse Reaction Online Database

StreptomeDB

Pharos

SuperNatural

VIOLIN

Ontology of Adverse Events