Published in Nat Rev Microbiol on August 12, 2011
Refactoring the nitrogen fixation gene cluster from Klebsiella oxytoca. Proc Natl Acad Sci U S A (2012) 2.30
Single-cell RNA-seq: advances and future challenges. Nucleic Acids Res (2014) 2.06
The Pseudomonas aeruginosa transcriptome in planktonic cultures and static biofilms using RNA sequencing. PLoS One (2012) 1.65
Predicting antimicrobial susceptibilities for Escherichia coli and Klebsiella pneumoniae isolates using whole genomic sequence data. J Antimicrob Chemother (2013) 1.61
Comprehensive analysis of the Corynebacterium glutamicum transcriptome using an improved RNAseq technique. BMC Genomics (2013) 1.07
Positive allosteric feedback regulation of the stringent response enzyme RelA by its product. EMBO Rep (2012) 0.99
Multilevel comparative analysis of the contributions of genome reduction and heat shock to the Escherichia coli transcriptome. BMC Genomics (2013) 0.98
Diverse control of metabolism and other cellular processes in Streptomyces coelicolor by the PhoP transcription factor: genome-wide identification of in vivo targets. Nucleic Acids Res (2012) 0.96
Dissecting the energy metabolism in Mycoplasma pneumoniae through genome-scale metabolic modeling. Mol Syst Biol (2013) 0.95
MyMpn: a database for the systems biology model organism Mycoplasma pneumoniae. Nucleic Acids Res (2014) 0.93
EDGE-pro: Estimated Degree of Gene Expression in Prokaryotic Genomes. Evol Bioinform Online (2013) 0.93
Surface proteome analysis and characterization of surface cell antigen (Sca) or autotransporter family of Rickettsia typhi. PLoS Pathog (2012) 0.92
Bacterial translational regulations: high diversity between all mRNAs and major role in gene expression. BMC Genomics (2012) 0.92
Genome-wide identification of transcriptional start sites in the plant pathogen Pseudomonas syringae pv. tomato str. DC3000. PLoS One (2011) 0.92
Comparative "-omics" in Mycoplasma pneumoniae Clinical Isolates Reveals Key Virulence Factors. PLoS One (2015) 0.92
Integrative "omics"-approach discovers dynamic and regulatory features of bacterial stress responses. PLoS Genet (2013) 0.91
Steps towards the synthetic biology of polyketide biosynthesis. FEMS Microbiol Lett (2014) 0.91
Unravelling the transcriptome profile of the Swine respiratory tract mycoplasmas. PLoS One (2014) 0.88
RNA-Seq of Bacillus licheniformis: active regulatory RNA features expressed within a productive fermentation. BMC Genomics (2013) 0.87
Ultra deep sequencing of Listeria monocytogenes sRNA transcriptome revealed new antisense RNAs. PLoS One (2014) 0.86
Transcriptome mapping of pAR060302, a blaCMY-2-positive broad-host-range IncA/C plasmid. Appl Environ Microbiol (2012) 0.86
HrpA, an RNA helicase involved in RNA processing, is required for mouse infectivity and tick transmission of the Lyme disease spirochete. PLoS Pathog (2013) 0.86
A genome-wide survey of highly expressed non-coding RNAs and biological validation of selected candidates in Agrobacterium tumefaciens. PLoS One (2013) 0.85
Comparative genomics and transcriptomics of trait-gene association. BMC Genomics (2012) 0.85
Virulence and Fitness Determinants of Uropathogenic Escherichia coli. Microbiol Spectr (2015) 0.85
Marine Bacterial and Archaeal Ion-Pumping Rhodopsins: Genetic Diversity, Physiology, and Ecology. Microbiol Mol Biol Rev (2016) 0.84
Contribution of transcriptomics to systems-level understanding of methanogenic Archaea. Archaea (2013) 0.83
Integrative modelling of pH-dependent enzyme activity and transcriptomic regulation of the acetone-butanol-ethanol fermentation of Clostridium acetobutylicum in continuous culture. Microb Biotechnol (2013) 0.81
Omics strategies for revealing Yersinia pestis virulence. Front Cell Infect Microbiol (2012) 0.80
Overlapping genes: a window on gene evolvability. BMC Genomics (2014) 0.80
Pr is a member of a restricted class of σ70-dependent promoters that lack a recognizable -10 element. Nucleic Acids Res (2012) 0.79
Construction and verification of the transcriptional regulatory response network of Streptococcus mutans upon treatment with the biofilm inhibitor carolacton. BMC Genomics (2014) 0.78
Genome-wide transcription start site profiling in biofilm-grown Burkholderia cenocepacia J2315. BMC Genomics (2015) 0.78
Distinguishing between productive and abortive promoters using a random forest classifier in Mycoplasma pneumoniae. Nucleic Acids Res (2015) 0.77
An empirical strategy to detect bacterial transcript structure from directional RNA-seq transcriptome data. BMC Genomics (2015) 0.77
Experimental approaches to identify small RNAs and their diverse roles in bacteria - what we have learnt in one decade of MicA research. Microbiologyopen (2015) 0.77
Insights into the Mechanisms of Basal Coordination of Transcription Using a Genome-Reduced Bacterium. Cell Syst (2016) 0.77
Loss of Conserved Noncoding RNAs in Genomes of Bacterial Endosymbionts. Genome Biol Evol (2016) 0.76
Transcriptome Sequencing Reveals Wide Expression Reprogramming of Basal and Unknown Genes in Leptospira biflexa Biofilms. mSphere (2016) 0.76
Genome-wide transcriptional responses of Alteromonas naphthalenivorans SN2 to contaminated seawater and marine tidal flat sediment. Sci Rep (2016) 0.76
Changes in protein abundance are observed in bacterial isolates from a natural host. Front Cell Infect Microbiol (2015) 0.76
Current challenges in bacterial transcriptomics. Genomics Inform (2013) 0.76
A comprehensive benchmark of RNA-RNA interaction prediction tools for all domains of life. Bioinformatics (2017) 0.75
Comparative Transcriptomic Approaches Exploring Contamination Stress Tolerance in Salix sp. Reveal the Importance for a Metaorganismal de Novo Assembly Approach for Nonmodel Plants. Plant Physiol (2016) 0.75
Genome-wide mRNA processing in methanogenic archaea reveals post-transcriptional regulation of ribosomal protein synthesis. Nucleic Acids Res (2017) 0.75
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol (2009) 235.12
Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics (2009) 190.94
Mapping short DNA sequencing reads and calling variants using mapping quality scores. Genome Res (2008) 157.44
Quantitative monitoring of gene expression patterns with a complementary DNA microarray. Science (1995) 88.48
SOAP: short oligonucleotide alignment program. Bioinformatics (2008) 68.13
Genetic regulatory mechanisms in the synthesis of proteins. J Mol Biol (1961) 65.10
RNA-Seq: a revolutionary tool for transcriptomics. Nat Rev Genet (2009) 58.77
SOAP2: an improved ultrafast tool for short read alignment. Bioinformatics (2009) 39.47
Real-time DNA sequencing from single polymerase molecules. Science (2008) 29.53
Capturing chromosome conformation. Science (2002) 23.93
Determinant of cistron specificity in bacterial ribosomes. Nature (1975) 19.71
Dynamic repertoire of a eukaryotic transcriptome surveyed at single-nucleotide resolution. Nature (2008) 18.84
Chromosome Conformation Capture Carbon Copy (5C): a massively parallel solution for mapping interactions between genomic elements. Genome Res (2006) 13.32
mRNA-Seq whole-transcriptome analysis of a single cell. Nat Methods (2009) 11.71
Quantifying E. coli proteome and transcriptome with single-molecule sensitivity in single cells. Science (2010) 11.37
Looping and interaction between hypersensitive sites in the active beta-globin locus. Mol Cell (2002) 11.35
Visualization of single RNA transcripts in situ. Science (1998) 10.51
Attenuation in the control of expression of bacterial operons. Nature (1981) 9.90
Direct detection of DNA methylation during single-molecule, real-time sequencing. Nat Methods (2010) 9.75
Regulatory RNAs in bacteria. Cell (2009) 9.57
Bidirectional promoters generate pervasive transcription in yeast. Nature (2009) 9.29
Thiamine derivatives bind messenger RNAs directly to regulate bacterial gene expression. Nature (2002) 8.14
Continuous base identification for single-molecule nanopore DNA sequencing. Nat Nanotechnol (2009) 8.09
The primary transcriptome of the major human pathogen Helicobacter pylori. Nature (2010) 7.70
A three-dimensional model of the yeast genome. Nature (2010) 7.01
Global analysis of mRNA decay and abundance in Escherichia coli at single-gene resolution using two-color fluorescent DNA microarrays. Proc Natl Acad Sci U S A (2002) 6.93
Probing transcription factor dynamics at the single-molecule level in a living cell. Science (2007) 6.85
Microbial community gene expression in ocean surface waters. Proc Natl Acad Sci U S A (2008) 6.50
Preferential associations between co-regulated genes reveal a transcriptional interactome in erythroid cells. Nat Genet (2009) 6.39
RNA expression analysis using a 30 base pair resolution Escherichia coli genome array. Nat Biotechnol (2000) 6.36
An excitable gene regulatory circuit induces transient cellular differentiation. Nature (2006) 6.03
Nascent transcript sequencing visualizes transcription at nucleotide resolution. Nature (2011) 5.95
An abundance of bidirectional promoters in the human genome. Genome Res (2004) 5.90
The Listeria transcriptional landscape from saprophytism to virulence. Nature (2009) 5.88
Genome-wide measurement of RNA secondary structure in yeast. Nature (2010) 5.74
Antisense artifacts in transcriptome microarray experiments are resolved by actinomycin D. Nucleic Acids Res (2007) 5.54
The repertoire of DNA-binding transcriptional regulators in Escherichia coli K-12. Nucleic Acids Res (2000) 5.27
Deep sequencing analysis of small noncoding RNA and mRNA targets of the global post-transcriptional regulator, Hfq. PLoS Genet (2008) 5.23
Controlling mRNA stability and translation with small, noncoding RNAs. Curr Opin Microbiol (2004) 5.11
Transcriptome complexity in a genome-reduced bacterium. Science (2009) 4.64
Quorum sensing in staphylococci. Annu Rev Genet (2008) 4.58
Dark matter in the genome: evidence of widespread transcription detected by microarray tiling experiments. Trends Genet (2005) 4.56
Sense from sequence reads: methods for alignment and assembly. Nat Methods (2009) 4.44
Prominent use of distal 5' transcription start sites and discovery of a large number of additional exons in ENCODE regions. Genome Res (2007) 4.33
Micros for microbes: non-coding regulatory RNAs in bacteria. Trends Genet (2005) 4.21
A survey of small RNA-encoding genes in Escherichia coli. Nucleic Acids Res (2003) 4.10
Proteome organization in a genome-reduced bacterium. Science (2009) 3.97
Cooperation between translating ribosomes and RNA polymerase in transcription elongation. Science (2010) 3.87
Initiation of protein synthesis in bacteria. Microbiol Mol Biol Rev (2005) 3.78
RNomics in Escherichia coli detects new sRNA species and indicates parallel transcriptional output in bacteria. Nucleic Acids Res (2003) 3.78
Bacterial small RNA regulators: versatile roles and rapidly evolving variations. Cold Spring Harb Perspect Biol (2011) 3.75
Structure and complexity of a bacterial transcriptome. J Bacteriol (2009) 3.55
Microbiome profiling by illumina sequencing of combinatorial sequence-tagged PCR products. PLoS One (2010) 3.51
Spatial organization of the flow of genetic information in bacteria. Nature (2010) 3.43
Evolvability and hierarchy in rewired bacterial gene networks. Nature (2008) 3.43
Bacterial nucleoid-associated proteins, nucleoid structure and gene expression. Nat Rev Microbiol (2010) 3.42
A single-base resolution map of an archaeal transcriptome. Genome Res (2009) 3.42
Topological domain structure of the Escherichia coli chromosome. Genes Dev (2004) 3.30
The bacterial enzyme RppH triggers messenger RNA degradation by 5' pyrophosphate removal. Nature (2008) 3.29
Prokaryotic transcriptomics: a new view on regulation, physiology and pathogenicity. Nat Rev Genet (2009) 3.24
The sigma70 family of sigma factors. Genome Biol (2003) 3.19
Mapping the Burkholderia cenocepacia niche response via high-throughput sequencing. Proc Natl Acad Sci U S A (2009) 3.16
Eubacterial sigma-factors. FEMS Microbiol Rev (1998) 3.13
Involvement of a novel transcriptional activator and small RNA in post-transcriptional regulation of the glucose phosphoenolpyruvate phosphotransferase system. Mol Microbiol (2004) 3.07
Advances in bacterial promoter recognition and its control by factors that do not bind DNA. Nat Rev Microbiol (2008) 3.05
Widespread antisense transcription in Escherichia coli. MBio (2010) 2.96
Regulatory mechanisms employed by cis-encoded antisense RNAs. Curr Opin Microbiol (2007) 2.93
A strand-specific RNA-Seq analysis of the transcriptome of the typhoid bacillus Salmonella typhi. PLoS Genet (2009) 2.87
Intervening sequence in the thymidylate synthase gene of bacteriophage T4. Proc Natl Acad Sci U S A (1984) 2.71
FragSeq: transcriptome-wide RNA structure probing using high-throughput sequencing. Nat Methods (2010) 2.71
Transcription termination control of the S box system: direct measurement of S-adenosylmethionine by the leader RNA. Proc Natl Acad Sci U S A (2003) 2.68
Epigenetic gene regulation in the bacterial world. Microbiol Mol Biol Rev (2006) 2.66
DNA looping. Microbiol Rev (1992) 2.63
DBTBS: database of transcriptional regulation in Bacillus subtilis and its contribution to comparative genomics. Nucleic Acids Res (2004) 2.61
Genomic transcriptional response to loss of chromosomal supercoiling in Escherichia coli. Genome Biol (2004) 2.60
Genome-wide detection and analysis of hippocampus core promoters using DeepCAGE. Genome Res (2008) 2.60
High-throughput identification of transcription start sites, conserved promoter motifs and predicted regulons. Nat Biotechnol (2007) 2.57
RNA dynamics in live Escherichia coli cells. Proc Natl Acad Sci U S A (2004) 2.57
Prediction of transcriptional terminators in Bacillus subtilis and related species. PLoS Comput Biol (2005) 2.54
Small RNAs controlling iron metabolism. Curr Opin Microbiol (2007) 2.54
Ribozymes, riboswitches and beyond: regulation of gene expression without proteins. Nat Rev Genet (2007) 2.52
A dual function for a bacterial small RNA: SgrS performs base pairing-dependent regulation and encodes a functional polypeptide. Proc Natl Acad Sci U S A (2007) 2.45
RNA editing: transfer of genetic information from gRNA to precursor mRNA in vitro. Science (1994) 2.43
Issues in the analysis of oligonucleotide tiling microarrays for transcript mapping. Trends Genet (2005) 2.36
Translation-independent localization of mRNA in E. coli. Science (2011) 2.34
Regulation of pap pilin phase variation by a mechanism involving differential dam methylation states. EMBO J (1990) 2.33
Regulation of transcription: from lambda to eukaryotes. Trends Biochem Sci (2005) 2.29
Protein occupancy landscape of a bacterial genome. Mol Cell (2009) 2.24
Systematic analysis of head-to-head gene organization: evolutionary conservation and potential biological relevance. PLoS Comput Biol (2006) 2.11
The S(MK) box is a new SAM-binding RNA for translational regulation of SAM synthetase. Nat Struct Mol Biol (2006) 2.08
The transcriptionally active regions in the genome of Bacillus subtilis. Mol Microbiol (2009) 2.02
RNA quality control: degradation of defective transfer RNA. EMBO J (2002) 2.00
A pentatricopeptide repeat protein facilitates the trans-splicing of the maize chloroplast rps12 pre-mRNA. Plant Cell (2006) 1.97
Synthesis-mediated release of a small RNA inhibitor of RNA polymerase. Science (2006) 1.95
Overlapping binding sites for the virulence gene regulators AphA, AphB and cAMP-CRP at the Vibrio cholerae tcpPH promoter. Mol Microbiol (2001) 1.94
Translation initiation with 70S ribosomes: an alternative pathway for leaderless mRNAs. Nucleic Acids Res (2004) 1.79
Evidence for an autonomous 5' target recognition domain in an Hfq-associated small RNA. Proc Natl Acad Sci U S A (2010) 1.69
Emerging features of mRNA decay in bacteria. RNA (2000) 1.68
A genetic selection for supercoiling mutants of Escherichia coli reveals proteins implicated in chromosome structure. Mol Microbiol (2005) 1.67
Protein localization and cell fate in bacteria. Science (1997) 1.67
Predicting changes in the stability of proteins and protein complexes: a study of more than 1000 mutations. J Mol Biol (2002) 9.74
Structure-based redesign of the dimerization interface reduces the toxicity of zinc-finger nucleases. Nat Biotechnol (2007) 8.88
Prediction of sequence-dependent and mutational effects on the aggregation of peptides and proteins. Nat Biotechnol (2004) 7.02
The FoldX web server: an online force field. Nucleic Acids Res (2005) 6.30
Transcriptome complexity in a genome-reduced bacterium. Science (2009) 4.64
Correlation of mRNA and protein in complex biological samples. FEBS Lett (2009) 4.38
Proteome organization in a genome-reduced bacterium. Science (2009) 3.97
Impact of genome reduction on bacterial metabolism and its regulation. Science (2009) 3.45
Evolvability and hierarchy in rewired bacterial gene networks. Nature (2008) 3.43
Systematic discovery of new recognition peptides mediating protein interaction networks. PLoS Biol (2005) 3.28
Structure-based assembly of protein complexes in yeast. Science (2004) 2.89
Exploring the sequence determinants of amyloid structure using position-specific scoring matrices. Nat Methods (2010) 2.74
From in vivo to in silico biology and back. Nature (2006) 2.74
Sequence determinants of amyloid fibril formation. Proc Natl Acad Sci U S A (2003) 2.71
SNPeffect: a database mapping molecular phenotypic effects of human non-synonymous coding SNPs. Nucleic Acids Res (2005) 2.69
Noise in transcription negative feedback loops: simulation and experimental analysis. Mol Syst Biol (2006) 2.69
De novo designed peptide-based amyloid fibrils. Proc Natl Acad Sci U S A (2002) 2.59
Control of Drosophila gastrulation by apical localization of adherens junctions and RhoGEF2. Science (2007) 2.51
How protein stability and new functions trade off. PLoS Comput Biol (2008) 2.41
Molecular basis of xeroderma pigmentosum group C DNA recognition by engineered meganucleases. Nature (2008) 2.37
Prediction of water and metal binding sites and their affinities by using the Fold-X force field. Proc Natl Acad Sci U S A (2005) 2.31
Quantification of mRNA and protein and integration with protein turnover in a bacterium. Mol Syst Biol (2011) 2.31
The stability effects of protein mutations appear to be universally distributed. J Mol Biol (2007) 2.25
Protein aggregation and amyloidosis: confusion of the kinds? Curr Opin Struct Biol (2006) 2.10
A comparative study of the relationship between protein structure and beta-aggregation in globular and intrinsically disordered proteins. J Mol Biol (2004) 2.05
Engineering of large numbers of highly specific homing endonucleases that induce recombination on novel DNA targets. J Mol Biol (2005) 2.04
Analysis and description of HOLTIN service provision for AECG monitoring in complex indoor environments. Sensors (Basel) (2013) 2.02
Protein folding: defining a "standard" set of experimental conditions and a preliminary kinetic data set of two-state proteins. Protein Sci (2005) 1.91
How evolutionary pressure against protein aggregation shaped chaperone specificity. J Mol Biol (2005) 1.91
Computer-aided design of a PDZ domain to recognize new target sequences. Nat Struct Biol (2002) 1.89
Short amino acid stretches can mediate amyloid formation in globular proteins: the Src homology 3 (SH3) case. Proc Natl Acad Sci U S A (2004) 1.83
Recognizing and defining true Ras binding domains I: biochemical analysis. J Mol Biol (2005) 1.76
Computer design of obligate heterodimer meganucleases allows efficient cutting of custom DNA sequences. Nucleic Acids Res (2008) 1.74
Analysis of the human E2 ubiquitin conjugating enzyme protein interaction network. Genome Res (2009) 1.68
Specificity and evolvability in eukaryotic protein interaction networks. PLoS Comput Biol (2006) 1.64
Strand-specific deep sequencing of the transcriptome. Genome Res (2010) 1.58
A graphical interface for the FoldX forcefield. Bioinformatics (2011) 1.50
Engineering gene networks to emulate Drosophila embryonic pattern formation. PLoS Biol (2005) 1.48
Designed tumor necrosis factor-related apoptosis-inducing ligand variants initiating apoptosis exclusively via the DR5 receptor. Proc Natl Acad Sci U S A (2006) 1.45
Cross-talk between phosphorylation and lysine acetylation in a genome-reduced bacterium. Mol Syst Biol (2012) 1.44
A detailed thermodynamic analysis of ras/effector complex interfaces. J Mol Biol (2004) 1.42
The amyloid stretch hypothesis: recruiting proteins toward the dark side. Proc Natl Acad Sci U S A (2005) 1.41
Energy estimation in protein design. Curr Opin Struct Biol (2002) 1.39
PepX: a structural database of non-redundant protein-peptide complexes. Nucleic Acids Res (2009) 1.35
Towards cellular systems in 4D. Cell (2005) 1.33
Recognizing and defining true Ras binding domains II: in silico prediction based on homology modelling and energy calculations. J Mol Biol (2005) 1.33
Comprehensive methylome characterization of Mycoplasma genitalium and Mycoplasma pneumoniae at single-base resolution. PLoS Genet (2013) 1.32
Analyzing protein interaction networks using structural information. Annu Rev Biochem (2008) 1.32
Design of a wearable device for ECG continuous monitoring using wireless technology. Conf Proc IEEE Eng Med Biol Soc (2004) 1.28
Calculation of mutational free energy changes in transition states for protein folding. Biophys J (2003) 1.27
Space as the final frontier in stochastic simulations of biological systems. FEBS Lett (2005) 1.25
Predicted effects of missense mutations on native-state stability account for phenotypic outcome in phenylketonuria, a paradigm of misfolding diseases. Am J Hum Genet (2007) 1.24
Engineering signal transduction pathways. Cell (2010) 1.21
Computational design of peptide ligands. Trends Biotechnol (2011) 1.19
Molecular basis of engineered meganuclease targeting of the endogenous human RAG1 locus. Nucleic Acids Res (2010) 1.19
Unspecific hydrophobic stabilization of folding transition states. Proc Natl Acad Sci U S A (2002) 1.16
Using protein design algorithms to understand the molecular basis of disease caused by protein-DNA interactions: the Pax6 example. Nucleic Acids Res (2010) 1.16
Using a structural and logics systems approach to infer bHLH-DNA binding specificity determinants. Nucleic Acids Res (2011) 1.15
Computer modelling in combination with in vitro studies reveals similar binding affinities of Drosophila Crumbs for the PDZ domains of Stardust and DmPar-6. Eur J Cell Biol (2006) 1.15
Comparative genomics and disorder prediction identify biologically relevant SH3 protein interactions. PLoS Comput Biol (2005) 1.15
Advancing cell biology through proteomics in space and time (PROSPECTS). Mol Cell Proteomics (2012) 1.15
The multiple-specificity landscape of modular peptide recognition domains. Mol Syst Biol (2011) 1.14
Personalized respiratory medicine: exploring the horizon, addressing the issues. Summary of a BRN-AJRCCM workshop held in Barcelona on June 12, 2014. Am J Respir Crit Care Med (2015) 1.12
Cell type-specific importance of ras-c-raf complex association rate constants for MAPK signaling. Sci Signal (2009) 1.12
Structures in systems biology. Curr Opin Struct Biol (2007) 1.11
Analysis of disease-linked rhodopsin mutations based on structure, function, and protein stability calculations. J Mol Biol (2010) 1.10
Human epidermal stem cell function is regulated by circadian oscillations. Cell Stem Cell (2013) 1.09
The ubiquitin domain superfold: structure-based sequence alignments and characterization of binding epitopes. J Mol Biol (2005) 1.08
Localized transfection on arrays of magnetic beads coated with PCR products. Nat Methods (2005) 1.06
Conformational strain in the hydrophobic core and its implications for protein folding and design. Nat Struct Biol (2002) 1.06
Quantifying information transfer by protein domains: analysis of the Fyn SH2 domain structure. BMC Struct Biol (2008) 1.05
Transcription start site associated RNAs in bacteria. Mol Syst Biol (2012) 1.04
Strategies for protein synthetic biology. Nucleic Acids Res (2010) 1.04
Sequence dependence of amyloid fibril formation: insights from molecular dynamics simulations. J Mol Biol (2005) 1.04
Reconstruction of protein backbones from the BriX collection of canonical protein fragments. PLoS Comput Biol (2008) 1.04
Protein-peptide interactions adopt the same structural motifs as monomeric protein folds. Structure (2009) 1.04
Genome-wide prediction of SH2 domain targets using structural information and the FoldX algorithm. PLoS Comput Biol (2008) 1.02
Crystal structure of I-DmoI in complex with its target DNA provides new insights into meganuclease engineering. Proc Natl Acad Sci U S A (2008) 1.01
High frequency of germline succinate dehydrogenase mutations in sporadic cervical paragangliomas in northern Spain: mitochondrial succinate dehydrogenase structure-function relationships and clinical-pathological correlations. J Clin Endocrinol Metab (2007) 1.01
DR4-selective tumor necrosis factor-related apoptosis-inducing ligand (TRAIL) variants obtained by structure-based design. J Biol Chem (2008) 1.01
Insights into the origin of the tendency of the PI3-SH3 domain to form amyloid fibrils. J Mol Biol (2002) 1.00
A trigger enzyme in Mycoplasma pneumoniae: impact of the glycerophosphodiesterase GlpQ on virulence and gene expression. PLoS Pathog (2011) 0.99
BriX: a database of protein building blocks for structural analysis, modeling and design. Nucleic Acids Res (2010) 0.98
The tryptophan switch: changing ligand-binding specificity from type I to type II in SH3 domains. J Mol Biol (2004) 0.96
Structural and functional protein network analyses predict novel signaling functions for rhodopsin. Mol Syst Biol (2011) 0.95
Dissecting the energy metabolism in Mycoplasma pneumoniae through genome-scale metabolic modeling. Mol Syst Biol (2013) 0.95
Amyloid toxicity is independent of polypeptide sequence, length and chirality. J Mol Biol (2007) 0.95
Synthetic biology: challenges ahead. Bioinformatics (2006) 0.95
Combinatorial approaches: a new tool to search for highly structured beta-hairpin peptides. Proc Natl Acad Sci U S A (2002) 0.95
Building blocks for protein interaction devices. Nucleic Acids Res (2010) 0.94
A genome-wide Ras-effector interaction network. J Mol Biol (2007) 0.94
Integration of protein abundance and structure data reveals competition in the ErbB signaling network. Sci Signal (2013) 0.94
A thermodynamic and kinetic analysis of the folding pathway of an SH3 domain entropically stabilised by a redesigned hydrophobic core. J Mol Biol (2003) 0.94
In situ overlap and sequence synthesis during DNA assembly. ACS Synth Biol (2013) 0.93