Transcriptome profiling provides preliminary molecular insights into adventitious bud formation in herbaceous peony (Paeonia × ‘Coral Charm’)

Haplotype-resolved genome assembly and allele-specific gene expression in cultivated ginger

(2021) Shi-Ping Cheng et al.   Horticulture Research

Draft genome of the famous ornamental plant Paeonia suffruticosa

(2020) Shuzuo Lv et al.   Ecology and Evolution

Transcription Factors in Plant Stress Responses: Challenges and Potential for Sugarcane Improvement

(2020) Talha Javed et al.   Plants-Basel

Germplasm resources and genetic breeding of Paeonia: a systematic review

(2020) Yong Yang et al.   Horticulture Research

Overexpression of SrDXS1 and SrKAH enhances steviol glycosides content in transgenic Stevia plants

(2019) Junshi Zheng et al.   BMC PLANT BIOLOGY

eggNOG 5.0: a hierarchical, functionally and phylogenetically annotated orthology resource based on 5090 organisms and 2502 viruses

(2018) Jaime Huerta-Cepas et al.   NUCLEIC ACIDS RESEARCH

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

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

BUSCO Applications from Quality Assessments to Gene Prediction and Phylogenomics

(2017) Robert M Waterhouse et al.   MOLECULAR BIOLOGY AND EVOLUTION

Comprehensive Analysis of R2R3-MYB Genes During Adventitious Root Formation in Cuttings of Morus alba

(2016) Xiao Long Du et al.   JOURNAL OF PLANT GROWTH REGULATION

Near-optimal probabilistic RNA-seq quantification

(2016) Nicolas L Bray et al.   NATURE BIOTECHNOLOGY

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

(2015) Felipe A. Simão et al.   BIOINFORMATICS

Arabidopsis thaliana RALF1 opposes brassinosteroid effects on root cell elongation and lateral root formation

(2014) Tábata Bergonci et al.   JOURNAL OF EXPERIMENTAL BOTANY

Branching Out in Roots: Uncovering Form, Function, and Regulation

(2014) J. A. Atkinson et al.   PLANT PHYSIOLOGY

De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis

(2013) Brian J Haas et al.   Nature Protocols

Distribution of indole-3-acetic acid in Petunia hybrida shoot tip cuttings and relationship between auxin transport, carbohydrate metabolism and adventitious root formation

(2013) Amir H. Ahkami et al.   PLANTA

When stress and development go hand in hand: main hormonal controls of adventitious rooting in cuttings

(2013) Cibele T. da Costa et al.   Frontiers in Plant Science

MYB transcription factor genes as regulators for plant responses: an overview

(2013) Supriya Ambawat et al.   PHYSIOLOGY AND MOLECULAR BIOLOGY OF PLANTS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

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

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

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

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

Effects of phenolic compounds on adventitious root formation and oxidative decarboxylation of applied indoleacetic acid in Malus ‘Jork 9’

(2011) Geert-Jan De Klerk et al.   PLANT GROWTH REGULATION

Genetic dissection of the role of ethylene in regulating auxin-dependent lateral and adventitious root formation in tomato

(2009) Sangeeta Negi et al.   PLANT JOURNAL

The Cytokinin Type-B Response Regulator PtRR13 Is a Negative Regulator of Adventitious Root Development in Populus

(2009) G. A. Ramirez-Carvajal et al.   PLANT PHYSIOLOGY

WGCNA: an R package for weighted correlation network analysis

(2008) Peter Langfelder et al.   BMC BIOINFORMATICS