Transcriptomics of salinity tolerance capacity in Arctic charr (Salvelinus alpinus): a comparison of gene expression profiles between divergent QTL genotypes

EBSeq: an empirical Bayes hierarchical model for inference in RNA-seq experiments

(2013) Ning Leng et al.   BIOINFORMATICS

Transcriptome analysis of rice root heterosis by RNA-Seq

(2013) Rongrong Zhai et al.   BMC GENOMICS

Oases: robust de novo RNA-seq assembly across the dynamic range of expression levels

(2012) Marcel H. Schulz et al.   BIOINFORMATICS

Cutoffs and k-mers: implications from a transcriptome study in allopolyploid plants

(2012) Nicole Gruenheit et al.   BMC GENOMICS

Resolving candidate genes of mouse skeletal muscle QTL via RNA-Seq and expression network analyses

(2012) Arimantas Lionikas et al.   BMC GENOMICS

Genomic arrangement of salinity tolerance QTLs in salmonids: A comparative analysis of Atlantic salmon (Salmo salar) with Arctic charr (Salvelinus alpinus) and rainbow trout (Oncorhynchus mykiss)

(2012) Joseph D Norman et al.   BMC GENOMICS

The genomic basis of adaptive evolution in threespine sticklebacks

(2012) Felicity C. Jones et al.   NATURE

RobiNA: a user-friendly, integrated software solution for RNA-Seq-based transcriptomics

(2012) M. Lohse et al.   NUCLEIC ACIDS RESEARCH

Interleukin-1 in the pathogenesis and treatment of inflammatory diseases

(2011) C. A. Dinarello   BLOOD

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

(2011) Bo Li et al.   BMC BIOINFORMATICS

The genetic basis of salinity tolerance traits in Arctic charr (Salvelinus alpinus)

(2011) Joseph D Norman et al.   BMC GENETICS

Detection of QTL with effects on osmoregulation capacities in the rainbow trout (Oncorhynchus mykiss)

(2011) Yvan Le Bras et al.   BMC GENETICS

Genome evolution in the fish family salmonidae: generation of a brook charr genetic map and comparisons among charrs (Arctic charr and brook charr) with rainbow trout

(2011) Evan R Timusk et al.   BMC GENETICS

De Novo Assembly of Chickpea Transcriptome Using Short Reads for Gene Discovery and Marker Identification

(2011) R. Garg et al.   DNA RESEARCH

Natural Selection on Gene Order in the Genome Reorganization Process After Whole-Genome Duplication of Yeast

(2011) R. P. Sugino et al.   MOLECULAR BIOLOGY AND EVOLUTION

Transcriptomics of environmental acclimatization and survival in wild adult Pacific sockeye salmon (Oncorhynchus nerka) during spawning migration

(2011) TYLER G. EVANS et al.   MOLECULAR ECOLOGY

NCBI Reference Sequences (RefSeq): current status, new features and genome annotation policy

(2011) K. D. Pruitt et al.   NUCLEIC ACIDS RESEARCH

Ensembl 2012

(2011) P. Flicek et al.   NUCLEIC ACIDS RESEARCH

Broad Epigenetic Signature of Maternal Care in the Brain of Adult Rats

(2011) Patrick O. McGowan et al.   PLoS One

Expression Profiling without Genome Sequence Information in a Non-Model Species, Pandalid Shrimp (Pandalus latirostris), by Next-Generation Sequencing

(2011) Ryouka Kawahara-Miki et al.   PLoS One

Rnnotator: an automated de novo transcriptome assembly pipeline from stranded RNA-Seq reads

(2010) Jeffrey Martin et al.   BMC GENOMICS

Combining QTL mapping and transcriptome profiling of bulked RILs for identification of functional polymorphism for salt tolerance genes in rice (Oryza sativa L.)

(2010) Awadhesh Pandit et al.   MOLECULAR GENETICS AND GENOMICS

Coordinated Expression Domains in Mammalian Genomes

(2010) Yong H. Woo et al.   PLoS One

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

Positive correlation between gene coexpression and positional clustering in the zebrafish genome

(2009) Yen Kaow Ng et al.   BMC GENOMICS

Differential Gene Expression During Smoltification of Atlantic Salmon (Salmo salar L.): a First Large-Scale Microarray Study

(2009) Paul J. Seear et al.   MARINE BIOTECHNOLOGY

Benchmarking Next-Generation Transcriptome Sequencing for Functional and Evolutionary Genomics

(2009) J. G. Gibbons et al.   MOLECULAR BIOLOGY AND EVOLUTION

Branchial expression patterns of claudin isoforms in Atlantic salmon during seawater acclimation and smoltification

(2008) C. K. Tipsmark et al.   AMERICAN JOURNAL OF PHYSIOLOGY-REGULATORY INTEGRATIVE AND COMPARATIVE PHYSIOLOGY

Interpopulation differences in expression of candidate genes for salinity tolerance in winter migrating anadromous brown trout (Salmo trutta L.)

(2008) Peter F Larsen et al.   BMC GENETICS

Distribution of ancestral proto-Actinopterygian chromosome arms within the genomes of 4R-derivative salmonid fishes (Rainbow trout and Atlantic salmon)

(2008) Roy G Danzmann et al.   BMC GENOMICS

The Phenomics and Expression Quantitative Trait Locus Mapping of Brain Transcriptomes Regulating Adaptive Divergence in Lake Whitefish Species Pairs (Coregonus sp.)

(2008) A. R. Whiteley et al.   GENETICS

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

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

Velvet: Algorithms for de novo short read assembly using de Bruijn graphs

(2008) D. R. Zerbino et al.   GENOME RESEARCH

A microarray-based transcriptomic time-course of hyper- and hypo-osmotic stress signaling events in the euryhaline fish Gillichthys mirabilis: osmosensors to effectors

(2008) T. G. Evans et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

Transcriptional responses of the black-chinned tilapia Sarotherodon melanotheron to salinity extremes

(2008) Mbaye Tine et al.   Marine Genomics

RNA-Seq: a revolutionary tool for transcriptomics

(2008) Zhong Wang et al.   NATURE REVIEWS GENETICS

A Role for Gene Duplication and Natural Variation of Gene Expression in the Evolution of Metabolism

(2008) Daniel J. Kliebenstein   PLoS One

Revealing the architecture of gene regulation: the promise of eQTL studies

(2008) Yoav Gilad et al.   TRENDS IN GENETICS