The chromosome‐scale reference genome of safflower ( Carthamus tinctorius ) provides insights into linoleic acid and flavonoid biosynthesis

Association Study of the 5′UTR Intron of the FAD2-2 Gene With Oleic and Linoleic Acid Content in Olea europaea L.

(2020) Amelia Salimonti et al.   Frontiers in Plant Science

Arabidopsis FHY3 and FAR1 integrate light and strigolactone signaling to regulate branching

(2020) Yurong Xie et al.   Nature Communications

Integrated metabolomics and transcriptome analysis on flavonoid biosynthesis in safflower (Carthamus tinctorius L.) under MeJA treatment

(2020) Jiang Chen et al.   BMC PLANT BIOLOGY

CtACO1 Overexpression Resulted in the Alteration of the Flavonoids Profile of Safflower

(2019) Yanhua Tu et al.   MOLECULES

A global coexpression network of soybean genes gives insight into the evolution of nodulation in non‐legumes and legumes

(2019) Zhihua Wu et al.   NEW PHYTOLOGIST

Minimap2: pairwise alignment for nucleotide sequences

(2018) Heng Li   BIOINFORMATICS

MEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms

(2018) Sudhir Kumar et al.   MOLECULAR BIOLOGY AND EVOLUTION

Trehalose Contributes to Gamma-Linolenic Acid Accumulation in Cunninghamella echinulata Based on de Novo Transcriptomic and Lipidomic Analyses

(2018) Shue Li et al.   Frontiers in Microbiology

Full-length transcriptome sequences and the identification of putative genes for flavonoid biosynthesis in safflower

(2018) Jiang Chen et al.   BMC GENOMICS

Alternative Splicing Plays a Critical Role in Maintaining Mineral Nutrient Homeostasis in Rice (Oryza sativa)

(2018) Chunlan Dong et al.   PLANT CELL

Trehalose 6-phosphate positively regulates fatty acid biosynthesis by stabilizing WRINKLED1

(2018) Zhiyang Zhai et al.   PLANT CELL

Canu: scalable and accurate long-read assembly via adaptivek-mer weighting and repeat separation

(2017) Sergey Koren et al.   GENOME RESEARCH

Fast Genome-Wide Functional Annotation through Orthology Assignment by eggNOG-Mapper

(2017) Jaime Huerta-Cepas et al.   MOLECULAR BIOLOGY AND EVOLUTION

The sunflower genome provides insights into oil metabolism, flowering and Asterid evolution

(2017) Hélène Badouin et al.   NATURE

Reconstructing the genome of the most recent common ancestor of flowering plants

(2017) Florent Murat et al.   NATURE GENETICS

Alternative splicing as a regulator of development and tissue identity

(2017) Francisco E. Baralle et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Overexpression of CtCHS1 Increases Accumulation of Quinochalcone in Safflower

(2017) Dandan Guo et al.   Frontiers in Plant Science

Genome puzzle master (GPM): an integrated pipeline for building and editing pseudomolecules from fragmented sequences

(2016) Jianwei Zhang et al.   BIOINFORMATICS

Soybean Seed Development: Fatty Acid and Phytohormone Metabolism and Their Interactions

(2016) Quoc Thien Nguyen et al.   CURRENT GENOMICS

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

Phased diploid genome assembly with single-molecule real-time sequencing

(2016) Chen-Shan Chin et al.   NATURE METHODS

Transcript-level expression analysis of RNA-seq experiments with HISAT, StringTie and Ballgown

(2016) Mihaela Pertea et al.   Nature Protocols

Evolution of gene duplication in plants

(2016) Nicholas Panchy et al.   PLANT PHYSIOLOGY

Salt and drought stresses in safflower: a review

(2015) M. Iftikhar Hussain et al.   Agronomy for Sustainable Development

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

(2015) Felipe A. Simão et al.   BIOINFORMATICS

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

Multifaceted roles of FHY3 and FAR1 in light signaling and beyond

(2015) Hai Wang et al.   TRENDS IN PLANT SCIENCE

ALLMAPS: robust scaffold ordering based on multiple maps

(2015) Haibao Tang et al.   GENOME BIOLOGY

LoRDEC: accurate and efficient long read error correction

(2014) Leena Salmela et al.   BIOINFORMATICS

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

(2014) Thomas Hackl et al.   BIOINFORMATICS

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

InterProScan 5: genome-scale protein function classification

(2014) P. Jones et al.   BIOINFORMATICS

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

(2014) Alexandros Stamatakis   BIOINFORMATICS

Fast and sensitive protein alignment using DIAMOND

(2014) Benjamin Buchfink et al.   NATURE METHODS

Pilon: An Integrated Tool for Comprehensive Microbial Variant Detection and Genome Assembly Improvement

(2014) Bruce J. Walker et al.   PLoS One

GSK3-like kinases positively modulate abscisic acid signaling through phosphorylating subgroup III SnRK2s inArabidopsis

(2014) Zhenying Cai et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genomic Signatures of Specialized Metabolism in Plants

(2014) L. Chae et al.   SCIENCE

Identification and annotation of small RNA genes using ShortStack

(2013) Saima Shahid et al.   METHODS

Overexpression of stearoyl-ACP desaturase enhances accumulations of oleic acid in the green alga Chlamydomonas reinhardtii

(2013) Kwon Hwangbo et al.   Plant Biotechnology Reports

ShortStack: Comprehensive annotation and quantification of small RNA genes

(2013) M. J. Axtell   RNA

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Cloning of Acyl-ACP Thioesterase FatA fromArachis hypogaeaL. and Its Expression inEscherichia coli

(2012) Gao Chen et al.   JOURNAL OF BIOMEDICINE AND BIOTECHNOLOGY

clusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters

(2012) Guangchuang Yu et al.   OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY

The Phosphatidylcholine Diacylglycerol Cholinephosphotransferase Is Required for Efficient Hydroxy Fatty Acid Accumulation in Transgenic Arabidopsis

(2012) Z. Hu et al.   PLANT PHYSIOLOGY

A novel hybrid gene prediction method employing protein multiple sequence alignments

(2011) Oliver Keller et al.   BIOINFORMATICS

Genetic Variation in Safflower (Carthamus tinctorious L.) for Seed Quality-Related Traits and Inter-Simple Sequence Repeat (ISSR) Markers

(2011) Pooran Golkar et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Ancestral polyploidy in seed plants and angiosperms

(2011) Yuannian Jiao et al.   NATURE

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

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

Expression of a small heat shock protein (CTL-hsyapr) screened by cDNA-AFLP approach is correlated with hydroxysafflor yellow A in safflower (Carthamus tinctorius L.)

(2010) Jie Tang et al.   BIOCHEMICAL SYSTEMATICS AND ECOLOGY

Expression of CT-wpr, screened by cDNA-AFLP approach, associated with hydroxysafflor yellow A in Carthamus tinctorius L.

(2010) Yakui Li et al.   BIOCHEMICAL SYSTEMATICS AND ECOLOGY

MYB transcription factors in Arabidopsis

(2010) Christian Dubos et al.   TRENDS IN PLANT SCIENCE

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

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

Structure and function of enzymes involved in the biosynthesis of phenylpropanoids

(2008) J.-L. Ferrer et al.   PLANT PHYSIOLOGY AND BIOCHEMISTRY