The transcriptome of Leishmania major in the axenic promastigote stage: transcript annotation and relative expression levels by RNA-seq

Glucosylated Hydroxymethyluracil, DNA Base J, Prevents Transcriptional Readthrough in Leishmania

(2012) Henri G.A.M. van Luenen et al.   CELL

Chromosome and gene copy number variation allow major structural change between species and strains of Leishmania

(2011) M. B. Rogers et al.   GENOME RESEARCH

Developmental regulation of gene expression in the absence of transcriptional control: The case of kinetoplastids

(2011) Susanne Kramer   MOLECULAR AND BIOCHEMICAL PARASITOLOGY

Integrative genomics viewer

(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

Next-generation transcriptome assembly

(2011) Jeffrey A. Martin et al.   NATURE REVIEWS GENETICS

Gene expression in Trypanosoma brucei: lessons from high-throughput RNA sequencing

(2011) T. Nicolai Siegel et al.   TRENDS IN PARASITOLOGY

Comparison and calibration of transcriptome data from RNA-Seq and tiling arrays

(2010) Ashish Agarwal et al.   BMC GENOMICS

FISH analysis reveals aneuploidy and continual generation of chromosomal mosaicism in Leishmania major

(2010) Yvon Sterkers et al.   CELLULAR MICROBIOLOGY

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Genome-wide analysis of mRNA abundance in two life-cycle stages of Trypanosoma brucei and identification of splicing and polyadenylation sites

(2010) Tim Nicolai Siegel et al.   NUCLEIC ACIDS RESEARCH

The Transcriptome of the Human Pathogen Trypanosoma brucei at Single-Nucleotide Resolution

(2010) Nikolay G. Kolev et al.   PLoS Pathogens

Spliced Leader Trapping Reveals Widespread Alternative Splicing Patterns in the Highly Dynamic Transcriptome of Trypanosoma brucei

(2010) Daniel Nilsson et al.   PLoS Pathogens

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

Histone acetylations mark origins of polycistronic transcription in Leishmania major

(2009) Sean Thomas et al.   BMC GENOMICS

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

Simultaneous gene expression profiling in human macrophages infected with Leishmania major parasites using SAGE

(2008) Fatma Z Guerfali et al.   BMC GENOMICS

RNA-seq: An assessment of technical reproducibility and comparison with gene expression arrays

(2008) J. C. Marioni et al.   GENOME RESEARCH

Mapping and quantifying mammalian transcriptomes by RNA-Seq

(2008) Ali Mortazavi et al.   NATURE METHODS