Revisiting avian ‘missing’ genes from de novo assembled transcripts

Illumina Library Preparation for Sequencing the GC-Rich Fraction of Heterogeneous Genomic DNA

(2018) Marie-Ka Tilak et al.   Genome Biology and Evolution

Avian Genomes Revisited: Hidden Genes Uncovered and the Rates versus Traits Paradox in Birds

(2017) Fidel Botero-Castro et al.   MOLECULAR BIOLOGY AND EVOLUTION

Salmon provides fast and bias-aware quantification of transcript expression

(2017) Rob Patro et al.   NATURE METHODS

A dual transcript-discovery approach to improve the delimitation of gene features from RNA-seq data in the chicken model

(2017) Mickael Orgeur et al.   Biology Open

Identification of the Long-Sought Leptin in Chicken and Duck: Expression Pattern of the Highly GC-Rich AvianleptinFits an Autocrine/Paracrine Rather Than Endocrine Function

(2016) Eyal Seroussi et al.   ENDOCRINOLOGY

Quantification of GC-biased gene conversion in the human genome

(2015) Sylvain Glémin et al.   GENOME RESEARCH

Integrating De Novo Transcriptome Assembly and Cloning to Obtain Chicken Ovocleidin-17 Full-Length cDNA

(2014) Quan Zhang et al.   PLoS One

Comparative genomics reveals insights into avian genome evolution and adaptation

(2014) G. Zhang et al.   SCIENCE

Assessing De Novo transcriptome assembly metrics for consistency and utility

(2013) Shawn T O’Neil et al.   BMC GENOMICS

CD-HIT: accelerated for clustering the next-generation sequencing data

(2012) Limin Fu et al.   BIOINFORMATICS

Evidence for Widespread GC-biased Gene Conversion in Eukaryotes

(2012) Eugénie Pessia et al.   Genome Biology and Evolution

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

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

Contrasting GC-content dynamics across 33 mammalian genomes: Relationship with life-history traits and chromosome sizes

(2010) J. Romiguier et al.   GENOME RESEARCH

KaKs_Calculator 2.0: A Toolkit Incorporating Gamma-Series Methods and Sliding Window Strategies

(2010) Dapeng Wang et al.   GENOMICS PROTEOMICS & BIOINFORMATICS

Similarly Strong Purifying Selection Acts on Human Disease Genes of All Evolutionary Ages

(2009) James J. Cai et al.   Genome Biology and Evolution

Adaptive history of single copy genes highly expressed in the term human placenta

(2008) Zhuocheng Hou et al.   GENOMICS

Mapping and quantifying mammalian transcriptomes by RNA-Seq

(2008) Ali Mortazavi et al.   NATURE METHODS