Citation Impact
Citing Papers
Nature of the protein universe
2009 StandoutNobel
Protein interaction networks revealed by proteome coevolution
2019 StandoutScienceNobel
A simple algorithm to infer gene duplication and speciation events on a gene tree
2001
Resolution of ray-finned fish phylogeny and timing of diversification
2012 Standout
Two Rounds of Whole Genome Duplication in the Ancestral Vertebrate
2005
Protein subcellular localization prediction based on compartment-specific features and structure conservation
2007
The COG database: an updated version includes eukaryotes
2003 Standout
iGTP: A software package for large-scale gene tree parsimony analysis
2010
Breast cancer prognosis by combinatorial analysis of gene expression data
2006
OrthoFinder: phylogenetic orthology inference for comparative genomics
2019 Standout
A robust meta‐classification strategy for cancer detection from MS data
2005
Cardiologist-level arrhythmia detection and classification in ambulatory electrocardiograms using a deep neural network
2018 Standout
STRING v9.1: protein-protein interaction networks, with increased coverage and integration
2012 Standout
Sequence Variations within Protein Families are Linearly Related to Structural Variations
2002 StandoutNobel
CAMP: a useful resource for research on antimicrobial peptides
2009
Prediction of protein subcellular localization
2006
The Protein Data Bank
2000 Standout
Lateral gene transfer and the nature of bacterial innovation
2000 StandoutNature
A Novel Method for Sampling Alpha-helical Protein Backbones
2001 StandoutNobel
Normal mode analysis of macromolecular motions in a database framework: Developing mode concentration as a useful classifying statistic
2002
MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets
2016 Standout
An efficient algorithm for large-scale detection of protein families
2002 Standout
Patterns of protein-fold usage in eight microbial genomes: A comprehensive structural census
1998
Factors affecting the ability of energy functions to discriminate correct from incorrect folds
1997 StandoutNobel
Duplicate Genes and the Root of Angiosperms, with an Example Using Phytochrome Sequences
1998
Artificial neural networks for computer-based molecular design
1998
Computational methods for Gene Orthology inference
2011
The Human Transcription Factors
2018 Standout
MUSCLE: multiple sequence alignment with high accuracy and high throughput
2004 Standout
CPC: assess the protein-coding potential of transcripts using sequence features and support vector machine
2007 Standout
Pattern and Timing of Gene Duplication in Animal Genomes
2001
Jungles: a new solution to the host/parasite phylogeny reconciliation problem
1998
eggNOG 4.5: a hierarchical orthology framework with improved functional annotations for eukaryotic, prokaryotic and viral sequences
2015 Standout
Phytochromes and light signal perception by plants—an emerging synthesis
2000 StandoutNature
PANTHER: A Library of Protein Families and Subfamilies Indexed by Function
2003 Standout
Locating proteins in the cell using TargetP, SignalP and related tools
2007 Standout
Domains, motifs and clusters in the protein universe
2003
Ranking predicted protein structures with support vector regression
2007 StandoutNobel
Hidden Markov models
1996
Intrinsically unstructured proteins: re-assessing the protein structure-function paradigm
1999 Standout
Assessment of predictions submitted for the CASP7 domain prediction category
2007 StandoutNobel
Designing antimicrobial peptides: form follows function
2011 Standout
Global Optimum Protein Threading with Gapped Alignment and Empirical Pair Score Functions
1996
Hieranoid: Hierarchical Orthology Inference
2013
Sequence-based prediction of protein domains
2004
progressiveMauve: Multiple Genome Alignment with Gene Gain, Loss and Rearrangement
2010 Standout
Archaeal genomics
1999
Optimized Torsion-Angle Normal Modes Reproduce Conformational Changes More Accurately Than Cartesian Modes
2011 StandoutNobel
Prediction of potential drug targets based on simple sequence properties
2007
Identification of Protein Domains by Shotgun Proteolysis
2006 StandoutNobel
Application of Phylogenetic Networks in Evolutionary Studies
2005 Standout
Algorithms for computing parsimonious evolutionary scenarios for genome evolution, the last universal common ancestor and dominance of horizontal gene transfer in the evolution of prokaryotes
2003
HMMSTR: a hidden Markov model for local sequence-structure correlations in proteins 1 1Edited by J. Thornton
2000 StandoutNobel
Applications of machine learning in drug discovery and development
2019 Standout
Genome-scale coestimation of species and gene trees
2012
Population statistics of protein structures: lessons from structural classifications
1997
ALDH1 Is a Marker of Normal and Malignant Human Mammary Stem Cells and a Predictor of Poor Clinical Outcome
2007 Standout
How representative are the known structures of the proteins in a complete genome? A comprehensive structural census
1998
Processing and classification of protein mass spectra
2006
The PROSITE database, its status in 1997
1997 Standout
SCOP: a Structural Classification of Proteins database
1997 StandoutNobel
Protein topology recognition from secondary structure sequences: application of the hidden markov models to the alpha class proteins
1997
Profile hidden Markov models.
1998 Standout
Support vector machine classification and validation of cancer tissue samples using microarray expression data
2000 Standout
Structure Comparison and Structure Patterns
2000
A Hybrid Micro–Macroevolutionary Approach to Gene Tree Reconstruction
2006
NOTUNG: A Program for Dating Gene Duplications and Optimizing Gene Family Trees
2000
Growth of novel protein structural data
2007 StandoutNobel
PANTHER version 14: more genomes, a new PANTHER GO-slim and improvements in enrichment analysis tools
2018 Standout
Learning from Imbalanced Data
2009 Standout
PSORTb 3.0: improved protein subcellular localization prediction with refined localization subcategories and predictive capabilities for all prokaryotes
2010 Standout
ProFET: Feature engineering captures high-level protein functions
2015
Computational intelligence for heart disease diagnosis: A medical knowledge driven approach
2012
Normal Modes of Prion Proteins: From Native to Infectious Particle
2011 StandoutNobel
Using the Fisher kernel method to detect remote protein homologies.
1999
Occurrence, Classification, and Biological Function of Hydrogenases: An Overview
2007 Standout
Learned protein embeddings for machine learning
2018 StandoutNobel
Drug Discovery: A Historical Perspective
2000 StandoutScience
Inhibition Mechanism of the Acetylcholine Receptor by α-Neurotoxins as Revealed by Normal-Mode Dynamics
2008 StandoutNobel
Evolution by gene duplication: an update
2003 Standout
The infinite sites model of genome evolution
2008
Orthologs, Paralogs, and Evolutionary Genomics
2005
Multi-class protein fold classification using a new ensemble machine learning approach.
2003
Protein topology and stability define the space of allowed sequences
2002 StandoutNobel
A structural census of the current population of protein sequences
1997 StandoutNobel
Global Analysis of Protein Activities Using Proteome Chips
2001 StandoutScience
A review of feature selection techniques in bioinformatics
2007 Standout
Works of Ilya Muchnik being referenced
Modeling protein cores with Markov random fields
1994
Ortholog Clustering on a Multipartite Graph
2007
Assignment of Folds for Proteins of Unknown Function in Three Microbial Genomes
1998
A Biologically Consistent Model for Comparing Molecular Phylogenies
1995
Reconstruction of Ancient Molecular Phylogeny
1996
Logical analysis of Chinese labor productivity patterns
1999
Protein structural domain parsing by consensus reasoning over multiple knowledge sources and methods.
2001
Prediction of protein folding class using global description of amino acid sequence.
1995
Recognition of a protein fold in the context of the SCOP classification
1999
An implementation of logical analysis of data
2000
Recognition of a protein fold in the context of the SCOP classification
1999
Protein folding class predictor for SCOP: approach based on global descriptors.
1997