Panax ginseng genome examination for ginsenoside biosynthesis

Approaches to establish Q-markers for the quality standards of traditional Chinese medicines

(2017) Wenzhi Yang et al.   Acta Pharmaceutica Sinica B

OrthoDB v9.1: cataloging evolutionary and functional annotations for animal, fungal, plant, archaeal, bacterial and viral orthologs

(2016) Evgeny M. Zdobnov et al.   NUCLEIC ACIDS RESEARCH

Comparative optical genome analysis of two pangolin species: Manis pentadactyla and Manis javanica

(2016) Huang Zhihai et al.   GigaScience

Draft genome of the living fossil Ginkgo biloba

(2016) Rui Guan et al.   GigaScience

BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs

(2015) Felipe A. Simão et al.   BIOINFORMATICS

Biosynthesis and biotechnological production of ginsenosides

(2015) Yu-Jin Kim et al.   BIOTECHNOLOGY ADVANCES

Five major shifts of diversification through the long evolutionary history of Magnoliidae (angiosperms)

(2015) Julien Massoni et al.   BMC EVOLUTIONARY BIOLOGY

Production of bioactive ginsenosides Rh2 and Rg3 by metabolically engineered yeasts

(2015) Pingping Wang et al.   METABOLIC ENGINEERING

Resolution of Brassicaceae Phylogeny Using Nuclear Genes Uncovers Nested Radiations and Supports Convergent Morphological Evolution

(2015) Chien-Hsun Huang et al.   MOLECULAR BIOLOGY AND EVOLUTION

Characterization of Panax ginseng UDP-Glycosyltransferases Catalyzing Protopanaxatriol and Biosyntheses of Bioactive Ginsenosides F1 and Rh1 in Metabolically Engineered Yeasts

(2015) Wei Wei et al.   Molecular Plant

Erratum: Corrigendum: The genome sequence of the orchid Phalaenopsis equestris

(2015) Jing Cai et al.   NATURE GENETICS

Early evolution of the angiosperm clade Asteraceae in the Cretaceous of Antarctica

(2015) Viviana D. Barreda et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Spatial and Temporal Transcriptomic Landscapes of Ginseng, Panax ginseng C. A. Meyer

(2015) Kangyu Wang et al.   Scientific Reports

Triterpene Biosynthesis in Plants

(2014) Ramesha Thimmappa et al.   Annual Review of Plant Biology

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

Skewer: a fast and accurate adapter trimmer for next-generation sequencing paired-end reads

(2014) Hongshan Jiang et al.   BMC BIOINFORMATICS

From algae to angiosperms–inferring the phylogeny of green plants (Viridiplantae) from 360 plastid genomes

(2014) Brad R Ruhfel et al.   BMC EVOLUTIONARY BIOLOGY

Production of bioactive ginsenoside compound K in metabolically engineered yeast

(2014) Xing Yan et al.   CELL RESEARCH

Tissue-Specific Distribution of Ginsenosides in Different Aged Ginseng and Antioxidant Activity of Ginseng Leaf

(2014) Ying-Chun Zhang et al.   MOLECULES

Two Ginseng UDP-Glycosyltransferases Synthesize Ginsenoside Rg3 and Rd

(2014) Suk-Chae Jung et al.   PLANT AND CELL PHYSIOLOGY

Major repeat components covering one-third of the ginseng (Panax ginsengC.A. Meyer) genome and evidence for allotetraploidy

(2014) Hong-Il Choi et al.   PLANT JOURNAL

Functional Analysis of 3-Hydroxy-3-Methylglutaryl Coenzyme A Reductase Encoding Genes in Triterpene Saponin-Producing Ginseng

(2014) Y.-J. Kim et al.   PLANT PHYSIOLOGY

Informed and automated k-mer size selection for genome assembly

(2013) R. Chikhi et al.   BIOINFORMATICS

Transcriptome analysis reveals ginsenosides biosynthetic genes, microRNAs and simple sequence repeats in Panax ginseng C. A. Meyer

(2013) Chunfang Li et al.   BMC GENOMICS

The Involvement of  -Amyrin 28-Oxidase (CYP716A52v2) in Oleanane-Type Ginsenoside Biosynthesis in Panax ginseng

(2013) J.-Y. Han et al.   PLANT AND CELL PHYSIOLOGY

MAKER-P: A Tool Kit for the Rapid Creation, Management, and Quality Control of Plant Genome Annotations

(2013) M. S. Campbell et al.   PLANT PHYSIOLOGY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Cytochrome P450 CYP716A53v2 Catalyzes the Formation of Protopanaxatriol from Protopanaxadiol During Ginsenoside Biosynthesis in Panax Ginseng

(2012) Jung-Yeon Han et al.   PLANT AND CELL PHYSIOLOGY

Mass Spectrometry Imaging with Single-Cell Resolution: Spatial Distribution of Lipids in Cotton Seeds

(2012) J. Mach   PLANT CELL

UDP-Glycosyltransferases from the UGT73C Subfamily in Barbarea vulgaris Catalyze Sapogenin 3-O-Glucosylation in Saponin-Mediated Insect Resistance

(2012) J. M. Augustin et al.   PLANT PHYSIOLOGY

SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler

(2012) Ruibang Luo et al.   GigaScience

The saponins – polar isoprenoids with important and diverse biological activities

(2011) Anne Osbourn et al.   NATURAL PRODUCT REPORTS

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

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

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

(2011) Chen Xie et al.   NUCLEIC ACIDS RESEARCH

The Cyt P450 Enzyme CYP716A47 Catalyzes the Formation of Protopanaxadiol from Dammarenediol-II During Ginsenoside Biosynthesis in Panax ginseng

(2011) Jung-Yeon Han et al.   PLANT AND CELL PHYSIOLOGY

Mass Spectrometric Imaging of Ginsenosides Localization in Panax ginseng Root

(2010) Shu Taira et al.   AMERICAN JOURNAL OF CHINESE MEDICINE

Scaffolding pre-assembled contigs using SSPACE

(2010) Marten Boetzer et al.   BIOINFORMATICS

Identification and characterization of glycosyltransferases involved in the biosynthesis of soyasaponin I inGlycine max

(2010) Masaaki Shibuya et al.   FEBS LETTERS

Ligand docking and binding site analysis with PyMOL and Autodock/Vina

(2010) Daniel Seeliger et al.   JOURNAL OF COMPUTER-AIDED MOLECULAR DESIGN

Expression and Functional Characterization of Three Squalene Synthase Genes Associated with Saponin Biosynthesis in Panax ginseng

(2010) Tae-Dong Kim et al.   PLANT AND CELL PHYSIOLOGY

Pharmacology of ginsenosides: a literature review

(2010) Kar Leung et al.   Chinese Medicine

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

De novo assembly of human genomes with massively parallel short read sequencing

(2009) R. Li et al.   GENOME RESEARCH

The Sorghum bicolor genome and the diversification of grasses

(2009) Andrew H. Paterson et al.   NATURE

Regulation of ginsenoside and phytosterol biosynthesis by RNA interferences of squalene epoxidase gene in Panax ginseng

(2009) Jung-Yeon Han et al.   PHYTOCHEMISTRY

SNAP: a web-based tool for identification and annotation of proxy SNPs using HapMap

(2008) A. D. Johnson et al.   BIOINFORMATICS

WGCNA: an R package for weighted correlation network analysis

(2008) Peter Langfelder et al.   BMC BIOINFORMATICS

Progress in understanding of ginsenoside biosynthesis

(2008) Y. Liang et al.   PLANT BIOLOGY