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A multi-modal data harmonisation approach for discovery of COVID-19 drug targets

https://doi.org/10.1093/bib/bbab185
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Outgoing claims: the papers this work cites, builds on, or argues with.

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SARS-CoV-2 Cell Entry Depends on ACE2 and TMPRSS2 and Is Blocked by a Clinically Proven Protease Inhibitor
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The Architecture of SARS-CoV-2 Transcriptome
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Large-Scale Multi-omic Analysis of COVID-19 Severity
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Growth Factor Receptor Signaling Inhibition Prevents SARS-CoV-2 Replication
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Divergent reprogramming routes lead to alternative stem-cell states
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Proteome adaptation in cell reprogramming proceeds via distinct transcriptional networks
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Similarity network fusion for aggregating data types on a genomic scale
inferredcites →https://doi.org/10.1038/nprot.2016.051openalex-snapshot
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Tackling the widespread and critical impact of batch effects in high-throughput data
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Proteomics of SARS-CoV-2-infected host cells reveals therapy targets
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Identification of some novel oxazine substituted 9-anilinoacridines as SARS-CoV-2 inhibitors for COVID-19 by molecular docking, free energy calculation and molecular dynamics studies
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admetSAR 2.0: web-service for prediction and optimization of chemical ADMET properties
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QUINOLINIC ACID AND KYNURENINE PATHWAY METABOLISM IN INFLAMMATORY AND NON-INFLAMMATORY NEUROLOGICAL DISEASE
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PatchDock and SymmDock: servers for rigid and symmetric docking
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SwissDock, a protein-small molecule docking web service based on EADock DSS
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Discovery of multi-dimensional modules by integrative analysis of cancer genomic data
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MTiOpenScreen: a web server for structure-based virtual screening
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SWISS-MODEL: homology modelling of protein structures and complexes
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DrugCentral 2018: an update
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Receptor Tyrosine Kinase Inhibitors Block Multiple Steps of Influenza A Virus Replication
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Exogenous ACE2 Expression Allows Refractory Cell Lines To Support Severe Acute Respiratory Syndrome Coronavirus Replication
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Topoisomerase II Inhibitors Induce DNA Damage-Dependent Interferon Responses Circumventing Ebola Virus Immune Evasion
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Metabolomics to Predict Antiviral Drug Efficacy in COVID-19
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Characterisation of the transcriptome and proteome of SARS-CoV-2 reveals a cell passage induced in-frame deletion of the furin-like cleavage site from the spike glycoprotein
inferredcites →https://doi.org/10.1186/s40360-020-00444-zopenalex-snapshot
A protein interaction map identifies existing drugs targeting SARS-CoV-2
inferredcites →https://doi.org/10.1214/12-aoas597openalex-snapshot
Joint and individual variation explained (JIVE) for integrated analysis of multiple data types
inferredcites →https://doi.org/10.1371/journal.pcbi.1005752openalex-snapshot
mixOmics: An R package for ‘omics feature selection and multiple data integration
inferredcites →https://doi.org/10.15252/embj.2020105896openalex-snapshot
Blood molecular markers associated with COVID‐19 immunopathology and multi‐organ damage
inferredcites →https://doi.org/10.15252/msb.20178124openalex-snapshot
Multi‐Omics Factor Analysis—a framework for unsupervised integration of multi‐omics data sets
inferredcites →https://doi.org/10.15252/msb.20178129openalex-snapshot
Proteome‐wide analysis of phospho‐regulated PDZ domain interactions
inferredcites →https://doi.org/10.2202/1544-6115.1390openalex-snapshot
A Sparse PLS for Variable Selection when Integrating Omics Data
inferredcites →https://doi.org/10.25080/majora-92bf1922-00aopenalex-snapshot
Data Structures for Statistical Computing in Python
inferredcites →https://doi.org/10.32614/r.manualsopenalex-snapshot
R: A Language and Environment for Statistical Computing
inferredcites →https://doi.org/10.5281/zenodo.3509134openalex-snapshot
pandas-dev/pandas: Pandas
inferredcites →https://doi.org/10.5281/zenodo.4562009openalex-snapshot
Multi-omics data harmonisation for the discovery of COVID-19 drug targets
inferredcites →https://doi.org/10.5772/3089openalex-snapshot
Bioinformatics

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

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Inhibition of MERS-CoV papain-like protease by sunitinib: In vitro and in silico investigations
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Deep Learning‐Based Multiomics Data Integration Methods for Biomedical Application
inferred← citeshttps://doi.org/10.1007/978-981-96-7067-3_3openalex-snapshot
Disease Dynamics: Insights from Microbiome and Multi-Omics Analysis
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BBLN: A bilateral-branch learning network for unknown protein–protein interaction prediction
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Data harmonisation for information fusion in digital healthcare: A state-of-the-art systematic review, meta-analysis and future research directions
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Target identification and assessment in the era of AI
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Understanding the regulatory grammar of sepsis-causing Staphylococcus aureus bacteria using contexualised DNA language models
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Multiomics integration-based molecular characterizations of COVID-19
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Integrating population-level and cell-based signatures for drug repositioning
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Navigating the Multiverse: a Hitchhiker’s guide to selecting harmonization methods for multimodal biomedical data
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Multiomics analyses reveal the central role of the nucleolus and its machinery during heat stress acclimation in Pinus radiata
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Multi-omics for COVID-19: driving development of therapeutics and vaccines
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Multiomics analyses reveal the central role of nucleolus and nucleoid machinery during heat stress acclimation in Pinus radiata
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genomicBERT : A Light-weight Foundation Model for Genome Analysis using Unigram Tokenization and Specialized DNA Vocabulary
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multiomics: A user-friendly multi-omics data harmonisation R pipeline
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multiomics: A user-friendly multi-omics data harmonisation R pipeline
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A novel logical model of COVID-19 intracellular infection to support therapies development
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Navigating the Multiverse: A Hitchhiker's Guide to Selecting Harmonisation Methods for Multimodal Biomedical Data
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