Analysis of transcripts and splice isoforms in red clover (Trifolium pratense L.) by single-molecule long-read sequencing

A comparative transcriptional landscape of maize and sorghum obtained by single-molecule sequencing

(2018) Bo Wang et al.   GENOME RESEARCH

Single-molecule, full-length transcript sequencing provides insight into the extreme metabolism of the ruby-throated hummingbird Archilochus colubris

(2018) Rachael E Workman et al.   GigaScience

Detecting alternatively spliced transcript isoforms from single-molecule long-read sequences without a reference genome

(2017) Xiaoxian Liu et al.   Molecular Ecology Resources

Global identification of alternative splicing via comparative analysis of SMRT- and Illumina-based RNA-seq in strawberry

(2017) Yongping Li et al.   PLANT JOURNAL

Comprehensive profiling of rhizome-associated alternative splicing and alternative polyadenylation in moso bamboo (Phyllostachys edulis )

(2017) Taotao Wang et al.   PLANT JOURNAL

Proteogenomic analysis reveals alternative splicing and translation as part of the abscisic acid response in Arabidopsis seedlings

(2017) Fu-Yuan Zhu et al.   PLANT JOURNAL

A transcriptome atlas of rabbit revealed by PacBio single-molecule long-read sequencing

(2017) Shi-Yi Chen et al.   Scientific Reports

iTAK: A Program for Genome-wide Prediction and Classification of Plant Transcription Factors, Transcriptional Regulators, and Protein Kinases

(2016) Yi Zheng et al.   Molecular Plant

PlantTFDB 4.0: toward a central hub for transcription factors and regulatory interactions in plants

(2016) Jinpu Jin et al.   NUCLEIC ACIDS RESEARCH

PacBio full-length transcriptome profiling of insect mitochondrial gene expression

(2016) Shan Gao et al.   RNA Biology

A survey of the sorghum transcriptome using single-molecule long reads

(2016) Salah E. Abdel-Ghany et al.   Nature Communications

Unveiling the complexity of the maize transcriptome by single-molecule long-read sequencing

(2016) Bo Wang et al.   Nature Communications

De novo Transcriptome Assembly and Dynamic Spatial Gene Expression Analysis in Red Clover

(2016) Manohar Chakrabarti et al.   Plant Genome

Single-molecule real-time transcript sequencing facilitates common wheat genome annotation and grain transcriptome research

(2015) Lingli Dong et al.   BMC GENOMICS

The Pfam protein families database: towards a more sustainable future

(2015) Robert D. Finn et al.   NUCLEIC ACIDS RESEARCH

Leveraging transcript quantification for fast computation of alternative splicing profiles

(2015) Gael P. Alamancos et al.   RNA

Genome assembly and annotation for red clover (Trifolium pratense ; Fabaceae)

(2014) Jan Ištvánek et al.   AMERICAN JOURNAL OF BOTANY

proovread : large-scale high-accuracy PacBio correction through iterative short read consensus

(2014) Thomas Hackl et al.   BIOINFORMATICS

De novo assembly of red clover transcriptome based on RNA-Seq data provides insight into drought response, gene discovery and marker identification

(2014) Steven A Yates et al.   BMC GENOMICS

A single-molecule long-read survey of the human transcriptome

(2013) Donald Sharon et al.   NATURE BIOTECHNOLOGY

Utilizing sequence intrinsic composition to classify protein-coding and long non-coding transcripts

(2013) Liang Sun et al.   NUCLEIC ACIDS RESEARCH

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

(2012) Cole Trapnell et al.   Nature Protocols

KOBAS 2.0: a web server for annotation and identification of enriched pathways and diseases

(2011) Chen Xie et al.   NUCLEIC ACIDS RESEARCH