Analysis of transcripts and splice isoforms in Medicago sativa L. by single-molecule long-read sequencing

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

Hybrid sequencing and map finding (HySeMaFi): optional strategies for extensively deciphering gene splicing and expression in organisms without reference genome

(2017) Guogui Ning et al.   Scientific Reports

Transcriptome Profiling Using Single-Molecule Direct RNA Sequencing Approach for In-depth Understanding of Genes in Secondary Metabolism Pathways of Camellia sinensis

(2017) Qingshan Xu et al.   Frontiers in Plant Science

Characterization of the Dynamic Transcriptome of a Herpesvirus with Long-read Single Molecule Real-Time Sequencing

(2017) Dóra Tombácz et al.   Scientific Reports

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

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

Long read and single molecule DNA sequencing simplifies genome assembly and TAL effector gene analysis of Xanthomonas translucens

(2016) Zhao Peng et al.   BMC GENOMICS

Complete telomere-to-telomerede novoassembly of thePlasmodium falciparumgenome through long-read (>11 kb), single molecule, real-time sequencing

(2016) Shruthi Sridhar Vembar et al.   DNA RESEARCH

Deep-sequencing transcriptome analysis of field-grown Medicago sativa L. crown buds acclimated to freezing stress

(2016) Lili Song et al.   FUNCTIONAL & INTEGRATIVE GENOMICS

Genetic Engineering of Alfalfa (Medicago sativa L.)

(2016) Dan Wang et al.   PROTEIN AND PEPTIDE LETTERS

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

Transcriptome responses in alfalfa associated with tolerance to intensive animal grazing

(2016) Junjie Wang et al.   Scientific Reports

Transcriptome analysis of Glomus mosseae/Medicago sativa mycorrhiza on atrazine stress

(2016) Fuqiang Song et al.   Scientific Reports

Distinguishing highly similar gene isoforms with a clustering-based bioinformatics analysis of PacBio single-molecule long reads

(2016) Ma Liang et al.   BioData Mining

eggNOG 4.5: a hierarchical orthology framework with improved functional annotations for eukaryotic, prokaryotic and viral sequences

(2015) Jaime Huerta-Cepas et al.   NUCLEIC ACIDS RESEARCH

Multiplexed highly-accurate DNA sequencing of closely-related HIV-1 variants using continuous long reads from single molecule, real-time sequencing

(2015) Dario A. Dilernia et al.   NUCLEIC ACIDS RESEARCH

Global transcriptome profiling analysis reveals insight into saliva-responsive genes in alfalfa

(2015) Wenxian Liu et al.   PLANT CELL REPORTS

Full-length transcriptome sequences and splice variants obtained by a combination of sequencing platforms applied to different root tissues ofSalvia miltiorrhizaand tanshinone biosynthesis

(2015) Zhichao Xu et al.   PLANT JOURNAL

De Novo Characterization of Fall Dormant and Nondormant Alfalfa (Medicago sativa L.) Leaf Transcriptome and Identification of Candidate Genes Related to Fall Dormancy

(2015) Senhao Zhang et al.   PLoS One

Correction: Transcriptome Analysis of Resistant and Susceptible Alfalfa Cultivars Infected With Root-Knot Nematode Meloidogyne incognita

(2015)   PLoS One

Widespread Polycistronic Transcripts in Fungi Revealed by Single-Molecule mRNA Sequencing

(2015) Sean P. Gordon et al.   PLoS One

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

(2014) Thomas Hackl et al.   BIOINFORMATICS

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

(2013) Donald Sharon et al.   NATURE BIOTECHNOLOGY

Assessment of transcript reconstruction methods for RNA-seq

(2013) Tamara Steijger et al.   NATURE METHODS

CPAT: Coding-Potential Assessment Tool using an alignment-free logistic regression model

(2013) Liguo Wang et al.   NUCLEIC ACIDS RESEARCH

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

(2013) Liang Sun et al.   NUCLEIC ACIDS RESEARCH

Pfam: the protein families database

(2013) Robert D. Finn et al.   NUCLEIC ACIDS RESEARCH

Alterations of Alternative Splicing Patterns of Ser/Arg-Rich (SR) Genes in Response to Hormones and Stresses Treatments in Different Ecotypes of Rice (Oryza sativa)

(2013) Peng ZHANG et al.   Journal of Integrative Agriculture

Transcriptome survey reveals increased complexity of the alternative splicing landscape inArabidopsis

(2012) Yamile Marquez et al.   GENOME RESEARCH

Joint Symposia

(2011)   IN VITRO CELLULAR & DEVELOPMENTAL BIOLOGY-ANIMAL

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

(2011) Chen Xie et al.   NUCLEIC ACIDS RESEARCH

Alternative splicing of a single precursor mRNA generates two subtypes of Gonadotropin-Releasing Hormone receptor orthologues and their variants in the bivalve mollusc Crassostrea gigas

(2008) Franck Rodet et al.   GENE