Comparative transcriptomic analysis of dermal wound healing reveals de novo skeletal muscle regeneration in Acomys cahirinus

Perfect chronic skeletal muscle regeneration in adult spiny mice, Acomys cahirinus

(2018) Malcolm Maden et al.   Scientific Reports

Macrophages are necessary for epimorphic regeneration in African spiny mice

(2017) Jennifer Simkin et al.   eLife

De novo transcriptome assembly for the spiny mouse (Acomys cahirinus)

(2017) Jared Mamrot et al.   Scientific Reports

petal: Co-expression network modelling in R

(2016) Juli Petereit et al.   BMC Systems Biology

UniProt: the universal protein knowledgebase

(2016)   NUCLEIC ACIDS RESEARCH

Cellular events during scar-free skin regeneration in the spiny mouse,Acomys

(2016) Jason O. Brant et al.   WOUND REPAIR AND REGENERATION

Comparative analysis of ear-hole closure identifies epimorphic regeneration as a discrete trait in mammals

(2016) Thomas R. Gawriluk et al.   Nature Communications

Biomimetic scaffolds for regeneration of volumetric muscle loss in skeletal muscle injuries

(2015) Jonathan M. Grasman et al.   Acta Biomaterialia

BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs

(2015) Felipe A. Simão et al.   BIOINFORMATICS

Fitting Heavy Tailed Distributions: ThepoweRlawPackage

(2015) Colin S. Gillespie   Journal of Statistical Software

limma powers differential expression analyses for RNA-sequencing and microarray studies

(2015) Matthew E. Ritchie et al.   NUCLEIC ACIDS RESEARCH

A Comparative Analysis of Gene Expression Profiles during Skin Regeneration in Mus and Acomys

(2015) Jason Orr Brant et al.   PLoS One

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

voom: precision weights unlock linear model analysis tools for RNA-seq read counts

(2014) Charity W Law et al.   GENOME BIOLOGY

Causal analysis approaches in Ingenuity Pathway Analysis

(2013) Andreas Krämer et al.   BIOINFORMATICS

De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis

(2013) Brian J Haas et al.   Nature Protocols

RefSeq: an update on mammalian reference sequences

(2013) Kim D. Pruitt et al.   NUCLEIC ACIDS RESEARCH

Collagen VI regulates satellite cell self-renewal and muscle regeneration

(2013) Anna Urciuolo et al.   Nature Communications

IL-10 Triggers Changes in Macrophage Phenotype That Promote Muscle Growth and Regeneration

(2012) B. Deng et al.   JOURNAL OF IMMUNOLOGY

Skin shedding and tissue regeneration in African spiny mice (Acomys)

(2012) Ashley W. Seifert et al.   NATURE

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

The Evolutionary Landscape of Alternative Splicing in Vertebrate Species

(2012) N. L. Barbosa-Morais et al.   SCIENCE

Genome-wide RNA-seq analysis of human and mouse platelet transcriptomes

(2011) J. W. Rowley et al.   BLOOD

RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome

(2011) Bo Li et al.   BMC BIOINFORMATICS

Regeneration of skeletal muscle

(2011) Neill J. Turner et al.   CELL AND TISSUE RESEARCH

The evolution of gene expression levels in mammalian organs

(2011) David Brawand et al.   NATURE

Full-length transcriptome assembly from RNA-Seq data without a reference genome

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

SignalP 4.0: discriminating signal peptides from transmembrane regions

(2011) Thomas Nordahl Petersen et al.   NATURE METHODS

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

HMMER web server: interactive sequence similarity searching

(2011) R. D. Finn et al.   NUCLEIC ACIDS RESEARCH

Regeneration of Mammalian Skeletal Muscle: Basic Mechanisms and Clinical Implications

(2010) Stefano Ciciliot et al.   CURRENT PHARMACEUTICAL DESIGN

A comparison of RNA-Seq and high-density exon array for detecting differential gene expression between closely related species

(2010) Song Liu et al.   NUCLEIC ACIDS RESEARCH

A scaling normalization method for differential expression analysis of RNA-seq data

(2010) Mark D Robinson et al.   GENOME BIOLOGY

Wnt7a Activates the Planar Cell Polarity Pathway to Drive the Symmetric Expansion of Satellite Stem Cells

(2009) Fabien Le Grand et al.   Cell Stem Cell

Scale-Free Networks: A Decade and Beyond

(2009) Albert-László Barabási   SCIENCE

High-Quality Binary Protein Interaction Map of the Yeast Interactome Network

(2008) H. Yu et al.   SCIENCE

Increased Expression of Wnt2 and SFRP4 in Tsk Mouse Skin: Role of Wnt Signaling in Altered Dermal Fibrillin Deposition and Systemic Sclerosis

(2007) Julie Bayle et al.   JOURNAL OF INVESTIGATIVE DERMATOLOGY