Citation Impact
Citing Papers
A systematic comparison and evaluation of biclustering methods for gene expression data
2006
Assessment of network perturbation amplitudes by applying high-throughput data to causal biological networks
2012
WGCNA: an R package for weighted correlation network analysis
2008 Standout
In silico prediction of protein-protein interactions in human macrophages
2014 Standout
Metascape provides a biologist-oriented resource for the analysis of systems-level datasets
2019 Standout
Network‐based prediction of protein function
2007
Predicting prognosis using molecular profiling in estrogen receptor-positive breast cancer treated with tamoxifen
2008
Extraction of relations between genes and diseases from text and large-scale data analysis: implications for translational research
2015
Reconstruction of metabolic networks from genome data and analysis of their global structure for various organisms
2003
Circulating Tumor Cell Clusters Are Oligoclonal Precursors of Breast Cancer Metastasis
2014 Standout
An Expanded View of Complex Traits: From Polygenic to Omnigenic
2017 Standout
DisGeNET: a comprehensive platform integrating information on human disease-associated genes and variants
2016 Standout
STRING v9.1: protein-protein interaction networks, with increased coverage and integration
2012 Standout
Causal reasoning on biological networks: interpreting transcriptional changes
2012
The GeneMANIA prediction server: biological network integration for gene prioritization and predicting gene function
2010 Standout
The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of pathway/genome databases
2015 Standout
Network biology: understanding the cell's functional organization
2004 Standout
Functional cartography of complex metabolic networks
2005 StandoutNature
APPRIS: annotation of principal and alternative splice isoforms
2012
An artificial molecular pump
2015 StandoutNobel
STRING v10: protein–protein interaction networks, integrated over the tree of life
2014 Standout
Gene set enrichment analysis: performance evaluation and usage guidelines
2011
agriGO v2.0: a GO analysis toolkit for the agricultural community, 2017 update
2017 Standout
A Mitochondrial Protein Compendium Elucidates Complex I Disease Biology
2008 Standout
miRTarBase update 2014: an information resource for experimentally validated miRNA-target interactions
2013
Human mitochondrial complex I assembly is mediated by NDUFAF1
2005
SCENIC: single-cell regulatory network inference and clustering
2017 Standout
GSVA: gene set variation analysis for microarray and RNA-Seq data
2013 Standout
KOBAS 2.0: a web server for annotation and identification of enriched pathways and diseases
2011 Standout
Genome-Scale CRISPR-Mediated Control of Gene Repression and Activation
2014 Standout
BioGRID: a general repository for interaction datasets
2005 Standout
The STRING database in 2017: quality-controlled protein–protein association networks, made broadly accessible
2016 Standout
The bone marrow niche for haematopoietic stem cells
2014 StandoutNature
Assembly of mitochondrial complex I and defects in disease
2008
Mitochondria: In Sickness and in Health
2012 Standout
High-performance medicine: the convergence of human and artificial intelligence
2018 Standout
Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists
2008 Standout
miRNA–target chimeras reveal miRNA 3′-end pairing as a major determinant of Argonaute target specificity
2015 StandoutNobel
Human diseases through the lens of network biology
2012
Systematic evaluation of spliced alignment programs for RNA-seq data
2013
Enrichr: a comprehensive gene set enrichment analysis web server 2016 update
2016 Standout
A similarity-based method for genome-wide prediction ofdisease-relevant human genes
2002
Membrane Fusion
2003 StandoutNobel
A molecular chaperone for mitochondrial complex I assembly is mutated in a progressive encephalopathy
2005
miRTarBase: a database curates experimentally validated microRNA–target interactions
2010
HISAT: a fast spliced aligner with low memory requirements
2015 Standout
Mitochondrial disorders caused by mutations in respiratory chain assembly factors
2011
A guide to deep learning in healthcare
2018 Standout
Bone progenitor dysfunction induces myelodysplasia and secondary leukaemia
2010 Nature
Exploring the pathway structure of metabolism: decomposition into subnetworks and application to Mycoplasma pneumoniae
2002
The Database of Interacting Proteins: 2004 update
2003 Standout
The STRING database in 2011: functional interaction networks of proteins, globally integrated and scored
2010 Standout
Leveraging models of cell regulation and GWAS data in integrative network-based association studies
2012
Scansite 2.0: proteome-wide prediction of cell signaling interactions using short sequence motifs
2003 Standout
Regulatory T Cell-Specific Epigenomic Region Variants Are a Key Determinant of Susceptibility to Common Autoimmune Diseases
2020 StandoutNobel
Tumour evolution inferred by single-cell sequencing
2011 StandoutNature
DIP: The Database of Interacting Proteins: 2001 update
2001
STRING 8--a global view on proteins and their functional interactions in 630 organisms
2008 Standout
Automated modelling of signal transduction networks
2002
ToppGene Suite for gene list enrichment analysis and candidate gene prioritization
2009 Standout
Next-Generation Machine Learning for Biological Networks
2018
starBase v2.0: decoding miRNA-ceRNA, miRNA-ncRNA and protein–RNA interaction networks from large-scale CLIP-Seq data
2013 Standout
Towards revealing the functions of all genes in plants
2013
Modeling and Simulation of Genetic Regulatory Systems: A Literature Review
2002 Standout
Evaluation of linguistic features useful in extraction of interactions from PubMed; Application to annotating known, high-throughput and predicted interactions in I2D
2009
MEGO: Gene Functional Module Expression Based on Gene Ontology
2005
Immuno-Navigator, a batch-corrected coexpression database, reveals cell type-specific gene networks in the immune system
2016 StandoutNobel
Complex networks: Structure and dynamics
2006 Standout
Mitochondrial Reactive Oxygen Species (ROS) and ROS-Induced ROS Release
2014 Standout
ProTox-II: a webserver for the prediction of toxicity of chemicals
2018 Standout
Functional association networks as priors for gene regulatory network inference
2014
Mitochondrial complex I: Structure, function and pathology
2006
The R package Rsubread is easier, faster, cheaper and better for alignment and quantification of RNA sequencing reads
2019 Standout
Acquisition of chess knowledge in AlphaZero
2022 StandoutNobel
Energy Converting NADH: Quinone Oxidoreductase (Complex I)
2006
The STRING database in 2023: protein–protein association networks and functional enrichment analyses for any sequenced genome of interest
2022 Standout
STRING v11: protein–protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets
2018 Standout
Advances in natural language processing
2015 Science
Causal analysis approaches in Ingenuity Pathway Analysis
2013 Standout
Tox21Challenge to Build Predictive Models of Nuclear Receptor and Stress Response Pathways as Mediated by Exposure to Environmental Chemicals and Drugs
2016
A Theory of Usable Information Under Computational Constraints
2020
The DisGeNET knowledge platform for disease genomics: 2019 update
2019 Standout
Lethal mitochondrial cardiomyopathy in a hypomorphic Med30 mouse mutant is ameliorated by ketogenic diet
2011 StandoutNobel
Multi-omics enrichment analysis using the GeneTrail2 web service
2016
Computational prediction of human metabolic pathways from the complete human genome
2004
The STRING database in 2021: customizable protein–protein networks, and functional characterization of user-uploaded gene/measurement sets
2020 Standout
CLUSTERING BIOLOGICAL ANNOTATIONS AND GENE EXPRESSION DATA TO IDENTIFY PUTATIVELY CO-REGULATED BIOLOGICAL PROCESSES
2006
Works of Robert Küffner being referenced
Rigorous assessment of gene set enrichment tests
2012
miRSel: Automated extraction of associations between microRNAs and genes from the biomedical literature
2010
Microarray analyses of transdifferentiated mesenchymal stem cells
2007
Wisdom of crowds for robust gene network inference
2012
Involvement of two novel chaperones in the assembly of mitochondrial NADH:ubiquinone oxidoreductase (complex I) 1 1Edited by A. R. Fersht
1998
Pathway analysis in metabolic databases via differential metabolic display (DMD)
2000
RelEx—Relation extraction using dependency parse trees
2006
Normalization and Gene p-Value Estimation: Issues in Microarray Data Processing
2008
Analysis of gene expression data with pathway scores.
2000
ProSAS: a database for analyzing alternative splicing in the context of protein structures
2007
Reliable gene signatures for microarray classification: assessment of stability and performance
2006
From sets to graphs: towards a realistic enrichment analysis of transcriptomic systems
2011