Evolutionary genomics of the cold-adapted diatom Fragilariopsis cylindrus

Phased diploid genome assembly with single-molecule real-time sequencing

(2016) Chen-Shan Chin et al.   NATURE METHODS

hybridcheck: software for the rapid detection, visualization and dating of recombinant regions in genome sequence data

(2015) Ben J. Ward et al.   Molecular Ecology Resources

Assembly and diploid architecture of an individual human genome via single-molecule technologies

(2015) Matthew Pendleton et al.   NATURE METHODS

HTSeq--a Python framework to work with high-throughput sequencing data

(2014) S. Anders et al.   BIOINFORMATICS

Surface-water iron supplies in the Southern Ocean sustained by deep winter mixing

(2014) Alessandro Tagliabue et al.   Nature Geoscience

Gross and net production during the spring bloom along the Western Antarctic Peninsula

(2014) Johanna A. L. Goldman et al.   NEW PHYTOLOGIST

Activities at the Universal Protein Resource (UniProt)

(2013)   NUCLEIC ACIDS RESEARCH

Role of sea ice in global biogeochemical cycles: emerging views and challenges

(2013) Martin Vancoppenolle et al.   QUATERNARY SCIENCE REVIEWS

The impact of temperature on marine phytoplankton resource allocation and metabolism

(2013) A. Toseland et al.   Nature Climate Change

Iron-light interactions differ in Southern Ocean phytoplankton

(2012) Robert F. Strzepek et al.   LIMNOLOGY AND OCEANOGRAPHY

Deep carbon export from a Southern Ocean iron-fertilized diatom bloom

(2012) Victor Smetacek et al.   NATURE

Differential expression analysis of multifactor RNA-Seq experiments with respect to biological variation

(2012) Davis J. McCarthy et al.   NUCLEIC ACIDS RESEARCH

Possible Role of Horizontal Gene Transfer in the Colonization of Sea Ice by Algae

(2012) James A. Raymond et al.   PLoS One

Comparative metatranscriptomics identifies molecular bases for the physiological responses of phytoplankton to varying iron availability

(2012) A. Marchetti et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The model marine diatom Thalassiosira pseudonana likely descended from a freshwater ancestor in the genus Cyclotella

(2011) Andrew J Alverson et al.   BMC EVOLUTIONARY BIOLOGY

MEGA5: Molecular Evolutionary Genetics Analysis Using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods

(2011) K. Tamura et al.   MOLECULAR BIOLOGY AND EVOLUTION

REVIGO Summarizes and Visualizes Long Lists of Gene Ontology Terms

(2011) Fran Supek et al.   PLoS One

Iron Limitation of a Springtime Bacterial and Phytoplankton Community in the Ross Sea: Implications for Vitamin B12 Nutrition

(2011) Erin M. Bertrand et al.   Frontiers in Microbiology

Fast and SNP-tolerant detection of complex variants and splicing in short reads

(2010) T. D. Wu et al.   BIOINFORMATICS

The RCSB Protein Data Bank: redesigned web site and web services

(2010) P. W. Rose et al.   NUCLEIC ACIDS RESEARCH

progressiveMauve: Multiple Genome Alignment with Gene Gain, Loss and Rearrangement

(2010) Aaron E. Darling et al.   PLoS One

History of biological metal utilization inferred through phylogenomic analysis of protein structures

(2010) C. L. Dupont et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Gene ontology analysis for RNA-seq: accounting for selection bias

(2010) Matthew D Young et al.   GENOME BIOLOGY

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

DnaSP v5: a software for comprehensive analysis of DNA polymorphism data

(2009) P. Librado et al.   BIOINFORMATICS

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

Phymm and PhymmBL: metagenomic phylogenetic classification with interpolated Markov models

(2009) Arthur Brady et al.   NATURE METHODS

The Phaeodactylum genome reveals the evolutionary history of diatom genomes

(2008) Chris Bowler et al.   NATURE