Nitrogen cost minimization is promoted by structural changes in the transcriptome of N-deprived Prochlorococcus cells

The Phyre2 web portal for protein modeling, prediction and analysis

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De novo assembly of bacterial transcriptomes from RNA-seq data

(2015) Brian Tjaden   GENOME BIOLOGY

TSSAR: TSS annotation regime for dRNA-seq data

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Comparative transcriptomics of two environmentally relevant cyanobacteria reveals unexpected transcriptome diversity

(2014) Karsten Voigt et al.   ISME Journal

Implications of streamlining theory for microbial ecology

(2014) Stephen J Giovannoni et al.   ISME Journal

Global Transcriptional Start Site Mapping Using Differential RNA Sequencing Reveals Novel Antisense RNAs in Escherichia coli

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Protein Languages Differ Depending on Microorganism Lifestyle

(2014) Joseph J. Grzymski et al.   PLoS One

Conservation of Transcription Start Sites within Genes across a Bacterial Genus

(2014) W. Shao et al.   mBio

A multi-split mapping algorithm for circular RNA, splicing, trans-splicing and fusion detection

(2014) Steve Hoffmann et al.   GENOME BIOLOGY

Processes and patterns of oceanic nutrient limitation

(2013) C. M. Moore et al.   Nature Geoscience

Computational analysis of bacterial RNA-Seq data

(2013) Ryan McClure et al.   NUCLEIC ACIDS RESEARCH

Present and future global distributions of the marine Cyanobacteria Prochlorococcus and Synechococcus

(2013) P. Flombaum et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Less is more: improving proteostasis by translation slow down

(2013) Michael Y. Sherman et al.   TRENDS IN BIOCHEMICAL SCIENCES

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The anti-Shine–Dalgarno sequence drives translational pausing and codon choice in bacteria

(2012) Gene-Wei Li et al.   NATURE

The significance of nitrogen cost minimization in proteomes of marine microorganisms

(2011) Joseph J Grzymski et al.   ISME Journal

Transcriptome response of high- and low-light-adapted Prochlorococcus strains to changing iron availability

(2011) Anne W Thompson et al.   ISME Journal

Regulation of nitrate assimilation in cyanobacteria

(2011) Yoshitake Ohashi et al.   JOURNAL OF EXPERIMENTAL BOTANY

Integrative genomics viewer

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An experimentally anchored map of transcriptional start sites in the model cyanobacteriumSynechocystissp. PCC6803

(2011) Jan Mitschke et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Temporal dynamics of Prochlorococcus ecotypes in the Atlantic and Pacific oceans

(2010) Rex R Malmstrom et al.   ISME Journal

Contrasting mechanisms of proteomic nitrogen thrift in Prochlorococcus

(2010) JAMES D. J. GILBERT et al.   MOLECULAR ECOLOGY

The primary transcriptome of the major human pathogen Helicobacter pylori

(2010) Cynthia M. Sharma et al.   NATURE

Short RNA half-lives in the slow-growing marine cyanobacterium Prochlorococcus

(2010) Claudia Steglich et al.   GENOME BIOLOGY

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Fast Mapping of Short Sequences with Mismatches, Insertions and Deletions Using Index Structures

(2009) Steve Hoffmann et al.   PLoS Computational Biology

Transport functions dominate the SAR11 metaproteome at low-nutrient extremes in the Sargasso Sea

(2008) Sarah M Sowell et al.   ISME Journal

The Challenge of Regulation in a Minimal Photoautotroph: Non-Coding RNAs in Prochlorococcus

(2008) Claudia Steglich et al.   PLoS Genetics