An Open-Source Toolkit To Expand Bioinformatics Training in Infectious Diseases

Dual RNA-seq identifies human mucosal immunity protein Mucin-13 as a hallmark of Plasmodium exoerythrocytic infection

(2019) Gregory M. LaMonte et al.   Nature Communications

Transcriptional analysis shows a robust host response to Toxoplasma gondii during early and late chronic infection in both male and female mice

(2019) Andrew L. Garfoot et al.   INFECTION AND IMMUNITY

Digital expression explorer 2: a repository of uniformly processed RNA sequencing data

(2019) Mark Ziemann et al.   GigaScience

Variable gene expression and parasite load predict treatment outcome in cutaneous leishmaniasis

(2019) Camila Farias Amorim et al.   Science Translational Medicine

Massive mining of publicly available RNA-seq data from human and mouse

(2018) Alexander Lachmann et al.   Nature Communications

Salmon provides fast and bias-aware quantification of transcript expression

(2017) Rob Patro et al.   NATURE METHODS

Near-optimal probabilistic RNA-seq quantification

(2016) Nicolas L Bray et al.   NATURE BIOTECHNOLOGY

Whipworm genome and dual-species transcriptome analyses provide molecular insights into an intimate host-parasite interaction

(2014) Bernardo J Foth et al.   NATURE GENETICS

Dual RNA-seq of Parasite and Host Reveals Gene Expression Dynamics during Filarial Worm–Mosquito Interactions

(2014) Young-Jun Choi et al.   PLoS Neglected Tropical Diseases

Nanocourses: A Short Course Format as an Educational Tool in a Biological Sciences Graduate Curriculum

(2008) Anna M. Bentley et al.   CBE-Life Sciences Education

RNA-Seq: a revolutionary tool for transcriptomics

(2008) Zhong Wang et al.   NATURE REVIEWS GENETICS