De novo transcriptome assembly and characterization of nine tissues of Lonicera japonica to identify potential candidate genes involved in chlorogenic acid, luteolosides, and secoiridoid biosynthesis pathways

Omics data input for metabolic modeling

(2016) Amit Rai et al.   CURRENT OPINION IN BIOTECHNOLOGY

Combined de novo and genome guided assembly and annotation of the Pinus patula juvenile shoot transcriptome

(2015) Erik A. Visser et al.   BMC GENOMICS

Transcriptome Analysis Reveals the Mechanism Underlying the Production of a High Quantity of Chlorogenic Acid in Young Leaves of Lonicera macranthoides Hand.-Mazz

(2015) Zexiong Chen et al.   PLoS One

High-Throughput Sequencing and De Novo Assembly of Red and Green Forms of the Perilla frutescens var. crispa Transcriptome

(2015) Atsushi Fukushima et al.   PLoS One

SOAPdenovo-Trans: de novo transcriptome assembly with short RNA-Seq reads

(2014) Y. Xie et al.   BIOINFORMATICS

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Triterpene Glycosides from the Stems and Leaves of Lonicera japonica

(2014) Minpei Kuroda et al.   CHEMICAL & PHARMACEUTICAL BULLETIN

Combining Transcriptome Assemblies from Multiple De Novo Assemblers in the Allo-Tetraploid Plant Nicotiana benthamiana

(2014) Kenlee Nakasugi et al.   PLoS One

Phytochemical genomics — a new trend

(2013) Kazuki Saito   CURRENT OPINION IN PLANT BIOLOGY

Assessment of transcript reconstruction methods for RNA-seq

(2013) Tamara Steijger et al.   NATURE METHODS

Data, information, knowledge and principle: back to metabolism in KEGG

(2013) Minoru Kanehisa et al.   NUCLEIC ACIDS RESEARCH

Phytochemical Genomics on the Way

(2013) T. Muranaka et al.   PLANT AND CELL PHYSIOLOGY

Transcriptome Analysis of Buds and Leaves Using 454 Pyrosequencing to Discover Genes Associated with the Biosynthesis of Active Ingredients in Lonicera japonica Thunb.

(2013) Liu He et al.   PLoS One

Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species

(2013) Keith R Bradnam et al.   GigaScience

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

(2012) Limin Fu et al.   BIOINFORMATICS

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

(2012) Nicole Gruenheit et al.   BMC GENOMICS

Optimizing de novo common wheat transcriptome assembly using short-read RNA-Seq data

(2012) Jialei Duan et al.   BMC GENOMICS

Genetic variation and metabolic pathway intricacy govern the active compound content and quality of the Chinese medicinal plantLonicera japonicathunb

(2012) Yuan Yuan et al.   BMC GENOMICS

Anti-Inflammatory Iridoids of Botanical Origin

(2012) A. Viljoen et al.   CURRENT MEDICINAL CHEMISTRY

Exploiting genes and functional diversity of chlorogenic acid and luteolin biosyntheses in Lonicera japonica and their substitutes

(2012) Yuan Yuan et al.   GENE

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

(2011) Bo Li et al.   BMC BIOINFORMATICS

Lonicera japonica Thunb.: Ethnopharmacology, phytochemistry and pharmacology of an important traditional Chinese medicine

(2011) Xiaofei Shang et al.   JOURNAL OF ETHNOPHARMACOLOGY

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

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

Comparing de novo assemblers for 454 transcriptome data

(2010) Sujai Kumar et al.   BMC GENOMICS

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

Naturally Occurring Iridoids, Secoiridoids and Their Bioactivity. An Updated Review, Part 3

(2009) Biswanath Dinda et al.   CHEMICAL & PHARMACEUTICAL BULLETIN

Phenolic constituents from the flower buds of Lonicera japonica and their 5-lipoxygenase inhibitory activities

(2009) Eun Ju Lee et al.   FOOD CHEMISTRY

Effect of Lonicerae Flos extracts on reflux esophagitis with antioxidant activity

(2009) Sae-Kwang Ku et al.   WORLD JOURNAL OF GASTROENTEROLOGY

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

Development and mapping of Simple Sequence Repeat markers for pearl millet from data mining of Expressed Sequence Tags

(2008) S Senthilvel et al.   BMC PLANT BIOLOGY

Two new triterpenoid saponins from the flowers and buds of Lonicera japonica

(2008) Li-Mei Lin et al.   JOURNAL OF ASIAN NATURAL PRODUCTS RESEARCH

Simple sequence repeat marker development and genetic mapping in quinoa (Chenopodium quinoa Willd.)

(2008) D. E. Jarvis et al.   JOURNAL OF GENETICS

Anti-angiogenic, antinociceptive and anti-inflammatory activities ofLonicera japonicaextract

(2008) Hye-Jung Yoo et al.   JOURNAL OF PHARMACY AND PHARMACOLOGY

Rapid and simple method for screening of natural antioxidants from Chinese herb Flos Lonicerae Japonicae by DPPH-HPLC-DAD-TOF/MS

(2008) Dan Tang et al.   JOURNAL OF SEPARATION SCIENCE

Biological and Pharmacological Activities of Iridoids: Recent Developments

(2008) Rosa Tundis et al.   MINI-REVIEWS IN MEDICINAL CHEMISTRY

Chlorogenic acid reduces the plasma glucose peak in the oral glucose tolerance test: effects on hepatic glucose release and glycaemia

(2007) Bruna Kempfer Bassoli et al.   CELL BIOCHEMISTRY AND FUNCTION