Integration of multi-omics data of a genome-reduced bacterium: Prevalence of post-transcriptional regulation and its correlation with protein abundances

Defining a minimal cell: essentiality of small ORFs and ncRNAs in a genome-reduced bacterium

(2015) M. Lluch-Senar et al.   Molecular Systems Biology

Changes in the Acetylome and Succinylome of Bacillus subtilis in Response to Carbon Source

(2015) Saori Kosono et al.   PLoS One

MyMpn: a database for the systems biology model organism Mycoplasma pneumoniae

(2014) Judith A. H. Wodke et al.   NUCLEIC ACIDS RESEARCH

Comprehensive Profiling of Protein Lysine Acetylation in Escherichia coli

(2013) Kai Zhang et al.   JOURNAL OF PROTEOME RESEARCH

Comprehensive Methylome Characterization of Mycoplasma genitalium and Mycoplasma pneumoniae at Single-Base Resolution

(2013) Maria Lluch-Senar et al.   PLoS Genetics

Second Messenger Regulation of Biofilm Formation: Breakthroughs in Understanding c-di-GMP Effector Systems

(2012) Chelsea D. Boyd et al.   Annual Review of Cell and Developmental Biology

A Whole-Cell Computational Model Predicts Phenotype from Genotype

(2012) Jonathan R. Karr et al.   CELL

A Comprehensive Proteome of Mycoplasma genitalium

(2012) Noemí Párraga-Niño et al.   JOURNAL OF PROTEOME RESEARCH

Transcription start site associated RNAs in bacteria

(2012) Eva Yus et al.   Molecular Systems Biology

Cross-talk between phosphorylation and lysine acetylation in a genome-reduced bacterium

(2012) Vera van Noort et al.   Molecular Systems Biology

RNA cytosine methylation by Dnmt2 and NSun2 promotes tRNA stability and protein synthesis

(2012) Francesca Tuorto et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

EvolView, an online tool for visualizing, annotating and managing phylogenetic trees

(2012) Huangkai Zhang et al.   NUCLEIC ACIDS RESEARCH

Comparative Analysis of Regulatory Elements between Escherichia coli and Klebsiella pneumoniae by Genome-Wide Transcription Start Site Profiling

(2012) Donghyuk Kim et al.   PLoS Genetics

Transcriptional Coupling of Neighboring Genes and Gene Expression Noise: Evidence that Gene Orientation and Noncoding Transcripts Are Modulators of Noise

(2011) Guang-Zhong Wang et al.   Genome Biology and Evolution

Genome-wide detection of novel regulatory RNAs in E. coli

(2011) R. Raghavan et al.   GENOME RESEARCH

Deep proteome and transcriptome mapping of a human cancer cell line

(2011) N. Nagaraj et al.   Molecular Systems Biology

Quantification of mRNA and protein and integration with protein turnover in a bacterium

(2011) T. Maier et al.   Molecular Systems Biology

The quantitative proteome of a human cell line

(2011) M. Beck et al.   Molecular Systems Biology

Central dogma at the single-molecule level in living cells

(2011) Gene-Wei Li et al.   NATURE

The myriad roles of cyclic AMP in microbial pathogens: from signal to sword

(2011) Kathleen A. McDonough et al.   NATURE REVIEWS MICROBIOLOGY

GenBank

(2011) D. A. Benson et al.   NUCLEIC ACIDS RESEARCH

eggNOG v3.0: orthologous groups covering 1133 organisms at 41 different taxonomic ranges

(2011) S. Powell et al.   NUCLEIC ACIDS RESEARCH

The Pfam protein families database

(2011) M. Punta et al.   NUCLEIC ACIDS RESEARCH

Strand-specific deep sequencing of the transcriptome

(2010) A. P. Vivancos et al.   GENOME RESEARCH

Acetylation of Metabolic Enzymes Coordinates Carbon Source Utilization and Metabolic Flux

(2010) Q. Wang et al.   SCIENCE

Quantifying E. coli Proteome and Transcriptome with Single-Molecule Sensitivity in Single Cells

(2010) Y. Taniguchi et al.   SCIENCE

Second messenger-mediated spatiotemporal control of protein degradation regulates bacterial cell cycle progression

(2009) A. Duerig et al.   GENES & DEVELOPMENT

Bidirectional promoters generate pervasive transcription in yeast

(2009) Zhenyu Xu et al.   NATURE

Regulatory roles of natural antisense transcripts

(2009) Mohammad Ali Faghihi et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Proteome Organization in a Genome-Reduced Bacterium

(2009) S. Kuhner et al.   SCIENCE

Impact of Genome Reduction on Bacterial Metabolism and Its Regulation

(2009) E. Yus et al.   SCIENCE

Transcriptome Complexity in a Genome-Reduced Bacterium

(2009) M. Guell et al.   SCIENCE

A Genome-Scale Metabolic Reconstruction of Mycoplasma genitalium, iPS189

(2009) Patrick F. Suthers et al.   PLoS Computational Biology

Origin of an Alternative Genetic Code in the Extremely Small and GC–Rich Genome of a Bacterial Symbiont

(2009) John P. McCutcheon et al.   PLoS Genetics

The gene mpn310 (hmw2) from Mycoplasma pneumoniae encodes two proteins, HMW2 and HMW2-s, which differ in size but use the same reading frame

(2008) Atcha Boonmee et al.   FEMS MICROBIOLOGY LETTERS