Works cited by this work

117 works

Work: Pangenome-wide characterization of the TCP gene family and its potential role in regulating adventitious shoot regeneration in apple

IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies
Lam-Tung Nguyen, Heiko A. Schmidt, Arndt von Haeseler +1
Article201428 citations
ABI
trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses
Salvador Capella-Gutiérrez, José M. Silla-Martínez, Toni Gabaldón
Article200926 citations
ABI
The Sequence Alignment/Map format and SAMtools
Heng Li, Bob Handsaker, Alec Wysoker +7
Article200922 citations
ABI
MUSCLE: multiple sequence alignment with high accuracy and high throughput
R. C. Edgar
Article200418 citations
ABI
fastp: an ultra-fast all-in-one FASTQ preprocessor
Shifu Chen, Yanqing Zhou, Yaru Chen +1
Article201818 citations
ABI
HISAT: a fast spliced aligner with low memory requirements
Daehwan Kim, Ben Langmead, Steven L. Salzberg
Article20157 citations
ABI
The genome of the domesticated apple (Malus × domestica Borkh.)
Riccardo Velasco, Andrey Zharkikh, Jason P. Affourtit +83
Article20105 citations
ABI
iTAK: A Program for Genome-wide Prediction and Classification of Plant Transcription Factors, Transcriptional Regulators, and Protein Kinases
Yi Zheng, Jiao Chen, Honghe Sun +10
Other20164 citations
ABI
Genomic variation in 3,010 diverse accessions of Asian cultivated rice
Wensheng Wang, Ramil Mauleon, Zhiqiang Hu +68
Article20184 citations
ABI
TCP genes: a family snapshot ten years later
Mar Martín‐Trillo, Pilar Cubas
Review article20093 citations
ABI
ParaAT: A parallel tool for constructing multiple protein-coding DNA alignments
Zhang Zhang, Jingfa Xiao, Jiayan Wu +4
Article20123 citations
ABI
PlantRegMap: charting functional regulatory maps in plants
Feng Tian, De-Chang Yang, Yu-Qi Meng +2
Article20193 citations
ABI
featureCounts: an efficient general purpose program for assigning sequence reads to genomic features
Yang Liao, Gordon K. Smyth, Wei Shi
Article20133 citations
ABI
TBtools-II: A “one for all, all for one” bioinformatics platform for biological big-data mining
Chengjie Chen, Ya Wu, Jiawei Li +8
Article20233 citations
ABI
KaKs_Calculator 2.0: A Toolkit Incorporating Gamma-Series Methods and Sliding Window Strategies
Dapeng Wang, Yubin Zhang, Zhang Zhang +2
Article20102 citations
ABI
Repbase Update, a database of eukaryotic repetitive elements
Jerzy Jurka, Vladimir V. Kapitonov, Adam Pavlı́ček +3
Review article20052 citations
ABI
The conserved domain database in 2023
Jiyao Wang, Farideh Chitsaz, Myra K. Derbyshire +12
Article20222 citations
ABI
clusterProfiler 4.0: A universal enrichment tool for interpreting omics data
Tianzhi Wu, Erqiang Hu, Shuangbin Xu +11
Article20212 citations
ABI
The<i>Arabidopsis thaliana</i>TCP transcription factors: A broadening horizon beyond development
Shutian Li
Review article20152 citations
ABI
OrthoFinder: solving fundamental biases in whole genome comparisons dramatically improves orthogroup inference accuracy
David Emms, Steven Kelly
Article20152 citations
ABI
TCP14 and TCP15 affect internode length and leaf shape in Arabidopsis
Martin Kieffer, Vera Master, Richard Waites +1
Article20112 citations
ABI
Analysis of the role of Arabidopsis class I TCP genes AtTCP7, AtTCP8, AtTCP22, and AtTCP23 in leaf development
José Antonio Aguilar-Martínez, Neelima Sinha
Article20132 citations
ABI
The evolution of apical dominance in maize
John Doebley, Adrian O. Stec, Lauren Hubbard
Article19972 citations
ABI
Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation
Cole Trapnell, Brian A. Williams, Geo Pertea +6
Article20102 citations
ABI
TCP factors: new kids on the signaling block
Michaël Nicolas, Pilar Cubas
Review article20162 citations
ABI