Standout Papers
Citation Impact
Citing Papers
Protein interaction networks revealed by proteome coevolution
2019 StandoutScienceNobel
Formation of the First Peptide Bond: The Structure of EF-P Bound to the 70 S Ribosome
2009 StandoutScienceNobel
STAR: ultrafast universal RNA-seq aligner
2012 Standout
Protein structure determination using metagenome sequence data
2017 StandoutScienceNobel
Hierarchical design of pseudosymmetric protein nanocages
2024 StandoutNatureNobel
CRY, a Drosophila Clock and Light-Regulated Cryptochrome, Is a Major Contributor to Circadian Rhythm Resetting and Photosensitivity
1998 StandoutNobel
CYCLE Is a Second bHLH-PAS Clock Protein Essential for Circadian Rhythmicity and Transcription of Drosophila period and timeless
1998 StandoutNobel
PAS: a multifunctional domain family comes to light
1997
Crystal structure of E. coli lipoprotein diacylglyceryl transferase
2016
Prodigal: prokaryotic gene recognition and translation initiation site identification
2010 Standout
From molecular to modular cell biology
1999 StandoutNatureNobel
Characterization of the pufferfish (Fugu) genome as a compact model vertebrate genome
1993 StandoutNatureNobel
The Ribosomal Exit Tunnel Functions as a Discriminating Gate
2002
Reconstruction of Amino Acid Biosynthesis Pathways from the Complete Genome Sequence
1998
A Polymeric Protein Anchors the Chromosomal Origin/ParB Complex at a Bacterial Cell Pole
2008 StandoutNobel
The Protein Data Bank
2000 Standout
Cytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks
2003 Standout
A Common Core RNP Structure Shared between the Small Nucleoar Box C/D RNPs and the Spliceosomal U4 snRNP
2000 StandoutNobel
PairWise and SearchWise: Finding the Optimal Alignment in a Simultaneous Comparison of a Protein Profile against All DNA Translation Frames
1996
Identification of small RNA pathway genes using patterns of phylogenetic conservation and divergence
2012 StandoutNatureNobel
Structure of the Type VI Secretion System Contractile Sheath
2015 StandoutNobel
Crystal Structure and Functional Analysis of the HERG Potassium Channel N Terminus
1998 StandoutNobel
Target selection for structural genomics.
2000
New CRISPR–Cas systems from uncultivated microbes
2016 StandoutNatureNobel
TICO: a tool for improving predictions of prokaryotic translation initiation sites
2005
Function, mechanism and regulation of bacterial ribonucleases
1999
Genetic identification of exported proteins in Streptococcus pneumoniae
1993
CRISPR RNA maturation by trans-encoded small RNA and host factor RNase III
2011 StandoutNatureNobel
GeneMark.hmm: new solutions for gene finding
1998
Cryo-EM structure of the protein-conducting ERAD channel Hrd1 in complex with Hrd3
2017 StandoutNatureNobel
HIF-1, O2, and the 3 PHDs
2001 StandoutNobel
The SWISS-PROT protein sequence data bank
1992
Identification of genes expressed in C. elegans touch receptor neurons
2002 StandoutNatureNobel
The coming of age of de novo protein design
2016 StandoutNatureNobel
The Role of the Genome Project in Determining Gene Function: Insights from Model Organisms
1996
The National Center for Biotechnology Information's Protein Clusters Database
2008
The Caenorhabditis elegans Behavioral Gene unc‐24 Encodes a Novel Bipartite Protein Similar to Both Erythrocyte Band 7.2 (Stomatin) and Nonspecific Lipid Transfer Protein
1996 StandoutNobel
Structure of the E. coli protein-conducting channel bound to a translating ribosome
2005 StandoutNatureNobel
Paracrine Induction of HIF by Glutamate in Breast Cancer: EglN1 Senses Cysteine
2016 StandoutNobel
Large-Scale Taxonomic Profiling of Eukaryotic Model Organisms: A Comparison of Orthologous Proteins Encoded by the Human, Fly, Nematode, and Yeast Genomes
1998
progressiveMauve: Multiple Genome Alignment with Gene Gain, Loss and Rearrangement
2010 Standout
Bacterial redox sensors
2004
Regulatory RNAs in Bacteria
2009
Improved protein structure prediction using potentials from deep learning
2020 StandoutNatureNobel
RF3 Induces Ribosomal Conformational Changes Responsible for Dissociation of Class I Release Factors
2007 StandoutNobel
KEGG: Kyoto Encyclopedia of Genes and Genomes
1999 Standout
Emergence of vancomycin tolerance in Streptococcus pneumoniae
1999 StandoutNatureNobel
The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools
1997 Standout
CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
1994 Standout
Molecular chaperones in cellular protein folding
1996 StandoutNature
MED: a new non-supervised gene prediction algorithm for bacterial and archaeal genomes
2007
Circuit Simulation of Genetic Networks
1995 Science
Aquaporins in Saccharomyces
1998 StandoutNobel
GS-Finder: a program to find bacterial gene start sites with a self-training method
2003
RefSeq microbial genomes database: new representation and annotation strategy
2013
NCBI prokaryotic genome annotation pipeline
2016 Standout
Perspectives on Oxygen Sensing
1999 StandoutNobel
How representative are the known structures of the proteins in a complete genome? A comprehensive structural census
1998
De Novo Designed Proteins from a Library of Artificial Sequences Function in Escherichia Coli and Enable Cell Growth
2011
Crystal structure of a fibrillarin homologue from Methanococcus jannaschii, a hyperthermophile, at 1.6 A resolution
2000
Cryo-EM structure of a type IV secretion system
2022 StandoutNatureNobel
A Comparative Analysis of ABC Transporters in Complete Microbial Genomes
1998
Small RNAs are modified with N-glycans and displayed on the surface of living cells
2021 StandoutNobel
ProTISA: a comprehensive resource for translation initiation site annotation in prokaryotic genomes
2007
Identifying bacterial genes and endosymbiont DNA with Glimmer
2007 Standout
CRITICA: coding region identification tool invoking comparative analysis
1999
Prediction of translation initiation site for microbial genomes with TriTISA
2008
Regulation of the Escherichia coli water channel gene aqpZ
1998 StandoutNobel
Analysis of the Escherichia coli Genome: DNA Sequence of the Region from 84.5 to 86.5 Minutes
1992 Science
Structural Insight into Nascent Polypeptide Chain–Mediated Translational Stalling
2009 StandoutScienceNobel
The Aer protein and the serine chemoreceptor Tsr independently sense intracellular energy levels and transduce oxygen, redox, and energy signals for Escherichia coli behavior
1997
Molecular analysis of the glpFKX regions of Escherichia coli and Shigella flexneri
1992
McsB Is a Protein Arginine Kinase That Phosphorylates and Inhibits the Heat-Shock Regulator CtsR
2009 StandoutScienceNobel
Evolutionary Conservation of Reactions in Translation
2002
Quality Control by DNA Repair
1999 StandoutScienceNobel
A genetic locus of enterocyte effacement conserved among diverse enterobacterial pathogens.
1995 Standout
cag , a pathogenicity island of Helicobacter pylori, encodes type I-specific and disease-associated virulence factors
1996 Standout
3, N 4 -ethenocytosine, a highly mutagenic adduct, is a primary substrate for Escherichia coli double-stranded uracil-DNA glycosylase and human mismatch-specific thymine-DNA glycosylase
1998
A map of the protein space--an automatic hierarchical classification of all protein sequences.
1998
Robust and accurate prediction of residue–residue interactions across protein interfaces using evolutionary information
2014 StandoutNobel
PAS Domains: Internal Sensors of Oxygen, Redox Potential, and Light
1999
A novel two‐component regulatory system in Bacillus subtilis for the survival of severe secretion stress
2001
The aquaporin-Z water channel gene of Escherichia coli: Structure, organization and phylogeny
1997
Arabidopsis NPH1: A Protein Kinase with a Putative Redox-Sensing Domain
1997 Science
A ribosome-associated peptidyl-prolyl cis/trans isomerase identified as the trigger factor.
1995
The Structure of the Potassium Channel: Molecular Basis of K + Conduction and Selectivity
1998 StandoutScienceNobel
The Taxonomy of Developmental Control in Caenorhabditis elegans
1998 StandoutScienceNobel
Assigning protein functions by comparative genome analysis: Protein phylogenetic profiles
1999
PAS domain S-boxes in archaea, bacteria and sensors for oxygen and redox
1997
Using comparative genome analysis to identify problems in annotated microbial genomes
2010
Protein Structure Prediction and Structural Genomics
2001 StandoutScienceNobel
The Complete Genome Sequence of Escherichia coli K-12
1997 StandoutScience
A structural census of the current population of protein sequences
1997 StandoutNobel
A Genomic Perspective on Protein Families
1997 StandoutScience
Localization and characterization of the gene encoding release factor RF3 in Escherichia coli.
1994
Next‐Generation Sequencing‐Based RiboMethSeq Protocol for Analysis of tRNA 2′‐O‐Methylation
2017
Solving the Problem: Genome Annotation Standards before the Data Deluge
2011
Works of Kenneth E. Rudd being referenced
Repression of small toxic protein synthesis by the Sib and OhsC small RNAs
2008
A new family of peptidyl-prolyl isomerases
1995
Integration host factor binds to a unique class of complex repetitive extragenic DNA sequences in Escherichia coli
1993
Sequencing and analysis of bacterial genomes
1996
EcoGene: a genome sequence database for Escherichia coli K-12
2000
Significant Dispersed Recurrent DNA Sequences in the Escherichia coli Genome
1993
Alignment of Escherichia coli K12 DNA sequences to a genomic restriction map
1990
Metabolism and evolution of Haemophilus influenzae deduced from a whole-genome comparison with Escherichia coli
1996
The vacB Gene Required for Virulence inShigella flexneri and Escherichia coli Encodes the Exoribonuclease RNase R
1998
SpoU protein ofEscherichia colibelongs to a new family of putative rRNA methylases
1993
Detection of new genes in a bacterial genome using Markov models for three gene classes
1995
EcoGene 3.0
2012
Mapping sequencedE.coligenes by computer: software, strategies and examples
1991
[18] Protein sequence comparison at genome scale
1996
Intrinsic and extrinsic approaches for detecting genes in a bacterial genome
1994
The nlpA lipoprotein gene is located near the selC tRNA gene on the Escherichia coli chromosome
1992
The aquaporin‐Z water channel gene of Escherichia coli: Structure, organization and phylogeny
1997 StandoutNobel
deaD, a new Escherichia coli gene encoding a presumed ATP-dependent RNA helicase, can suppress a mutation in rpsB, the gene encoding ribosomal protein S2
1991
EcoGene-RefSeq: EcoGene tools applied to the RefSeq prokaryotic genomes
2013
The second aconitase (AcnB) of Escherichia coli
1996
Revised Translation Start Site for secM Defines an Atypical Signal Peptide That Regulates Escherichia coli secA Expression
2000
The Escherichia coli hflA locus encodes a putative GTP-binding protein and two membrane proteins, one of which contains a protease-like domain.
1993
Physical mapping of repetitive extragenic palindromic sequences in Escherichia coli and phylogenetic distribution among Escherichia coli strains and other enteric bacteria
1992
The umpA gene of Escherichia coli encodes phosphatidylglycerol:prolipoprotein diacylglyceryl transferase (lgt) and regulates thymidylate synthase levels through translational coupling
1995
rpoE, the gene encoding the second heat-shock sigma factor, sigma E, in Escherichia coli.
1995
A signal transducer for aerotaxis in Escherichia coli
1997
Sequence similarity analysis of Escherichia coli proteins: functional and evolutionary implications.
1995