The statistical geometry of transcriptome divergence in cell-type evolution and cancer

A promoter-level mammalian expression atlas

(2014)   NATURE

A model based criterion for gene expression calls using RNA-seq data

(2013) Günter P. Wagner et al.   THEORY IN BIOSCIENCES

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

(2013) Daehwan Kim et al.   GENOME BIOLOGY

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

Ensembl 2013

(2012) Paul Flicek et al.   NUCLEIC ACIDS RESEARCH

Measurement of mRNA abundance using RNA-seq data: RPKM measure is inconsistent among samples

(2012) Günter P. Wagner et al.   THEORY IN BIOSCIENCES

RNA sequencing reveals two major classes of gene expression levels in metazoan cells

(2011) D. Hebenstreit et al.   Molecular Systems Biology

phangorn: phylogenetic analysis in R

(2010) Klaus Peter Schliep   BIOINFORMATICS

Overview of the immune response

(2010) David D. Chaplin   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

The evolution of cell types in animals: emerging principles from molecular studies

(2008) Detlev Arendt   NATURE REVIEWS GENETICS