Revision of the Capsaspora genome using read mating information adjusts the view on premetazoan genome

Gene family innovation, conservation and loss on the animal stem lineage

(2018) Daniel J Richter et al.   eLife

The origin of Metazoa: a unicellular perspective

(2017) Arnau Sebé-Pedrós et al.   NATURE REVIEWS GENETICS

Dynamics of genomic innovation in the unicellular ancestry of animals

(2017) Xavier Grau-Bové et al.   eLife

SOAPnuke: a MapReduce acceleration-supported software for integrated quality control and preprocessing of high-throughput sequencing data

(2017) Yuxin Chen et al.   GigaScience

Phylogenomics Reveals Convergent Evolution of Lifestyles in Close Relatives of Animals and Fungi

(2015) Guifré Torruella et al.   CURRENT BIOLOGY

Complex transcriptional regulation and independent evolution of fungal-like traits in a relative of animals

(2015) Alex de Mendoza et al.   eLife

Earliest Holozoan Expansion of Phosphotyrosine Signaling

(2013) Hiroshi Suga et al.   MOLECULAR BIOLOGY AND EVOLUTION

Transcription factor evolution in eukaryotes and the assembly of the regulatory toolkit in multicellular lineages

(2013) A. de Mendoza et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Capsaspora genome reveals a complex unicellular prehistory of animals

(2013) Hiroshi Suga et al.   Nature Communications

REAPR: a universal tool for genome assembly evaluation

(2013) Martin Hunt et al.   GENOME BIOLOGY

Premetazoan genome evolution and the regulation of cell differentiation in the choanoflagellate Salpingoeca rosetta

(2013) Stephen R Fairclough et al.   GENOME BIOLOGY

Using Tablet for visual exploration of second-generation sequencing data

(2012) I. Milne et al.   BRIEFINGS IN BIOINFORMATICS

The oyster genome reveals stress adaptation and complexity of shell formation

(2012) Guofan Zhang et al.   NATURE

Genomic Survey of Premetazoans Shows Deep Conservation of Cytoplasmic Tyrosine Kinases and Multiple Radiations of Receptor Tyrosine Kinases

(2012) H. Suga et al.   Science Signaling

Premetazoan Origin of the Hippo Signaling Pathway

(2012) Arnau Sebé-Pedrós et al.   Cell Reports

Toward almost closed genomes with GapFiller

(2012) Marten Boetzer et al.   GENOME BIOLOGY

Murasaki: A Fast, Parallelizable Algorithm to Find Anchors from Multiple Genomes

(2010) Kris Popendorf et al.   PLoS One

Ancient origin of the integrin-mediated adhesion and signaling machinery

(2010) A. Sebe-Pedros et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Ancient divergence of animal protein tyrosine kinase genes demonstrated by a gene family tree including choanoflagellate genes

(2008) Hiroshi Suga et al.   FEBS LETTERS

The genome of the choanoflagellate Monosiga brevicollis and the origin of metazoans

(2008) Nicole King et al.   NATURE

The protist, Monosiga brevicollis, has a tyrosine kinase signaling network more elaborate and diverse than found in any known metazoan

(2008) G. Manning et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA