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117 ta ish

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

  1. IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

    Lam-Tung Nguyen, Heiko A. Schmidt, Arndt von Haeseler +1

    MaqolaOchiq kirish201431 iqtibos
    ABI

  2. trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses

    Salvador Capella-Gutiérrez, José M. Silla-Martínez, Toni Gabaldón

    MaqolaOchiq kirish200931 iqtibos
    ABI

  3. fastp: an ultra-fast all-in-one FASTQ preprocessor

    Shifu Chen, Yanqing Zhou, Yaru Chen +1

    MaqolaOchiq kirish201828 iqtibos
    ABI

  4. The Sequence Alignment/Map format and SAMtools

    Heng Li, Bob Handsaker, Alec Wysoker +7

    MaqolaOchiq kirish200925 iqtibos
    ABI

  5. MUSCLE: multiple sequence alignment with high accuracy and high throughput

    R. C. Edgar

    MaqolaOchiq kirish200421 iqtibos
    ABI

  6. HISAT: a fast spliced aligner with low memory requirements

    Daehwan Kim, Ben Langmead, Steven L. Salzberg

    Maqola20157 iqtibos
    ABI

  7. The genome of the domesticated apple (Malus × domestica Borkh.)

    Riccardo Velasco, Andrey Zharkikh, Jason P. Affourtit +83

    Maqola20106 iqtibos
    ABI

  8. Genomic variation in 3,010 diverse accessions of Asian cultivated rice

    Wensheng Wang, Ramil Mauleon, Zhiqiang Hu +68

    Maqola20185 iqtibos
    ABI

  9. 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

    BoshqaOchiq kirish20164 iqtibos
    ABI

  10. TBtools-II: A “one for all, all for one” bioinformatics platform for biological big-data mining

    Chengjie Chen, Ya Wu, Jiawei Li +8

    Maqola20234 iqtibos
    ABI

  11. TCP genes: a family snapshot ten years later

    Mar Martín‐Trillo, Pilar Cubas

    Sharh maqola20093 iqtibos
    ABI

  12. ParaAT: A parallel tool for constructing multiple protein-coding DNA alignments

    Zhang Zhang, Jingfa Xiao, Jiayan Wu +4

    Maqola20123 iqtibos
    ABI

  13. PlantRegMap: charting functional regulatory maps in plants

    Feng Tian, De-Chang Yang, Yu-Qi Meng +2

    MaqolaOchiq kirish20193 iqtibos
    ABI

  14. featureCounts: an efficient general purpose program for assigning sequence reads to genomic features

    Yang Liao, Gordon K. Smyth, Wei Shi

    MaqolaOchiq kirish20133 iqtibos
    ABI

  15. OrthoFinder: solving fundamental biases in whole genome comparisons dramatically improves orthogroup inference accuracy

    David Emms, Steven Kelly

    Maqola20153 iqtibos
    ABI

  16. Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

    Cole Trapnell, Brian A. Williams, Geo Pertea +6

    Maqola20103 iqtibos
    ABI

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

    Dapeng Wang, Yubin Zhang, Zhang Zhang +2

    MaqolaOchiq kirish20102 iqtibos
    ABI

  18. Repbase Update, a database of eukaryotic repetitive elements

    Jerzy Jurka, Vladimir V. Kapitonov, Adam Pavlı́ček +3

    Sharh maqola20052 iqtibos
    ABI

  19. The conserved domain database in 2023

    Jiyao Wang, Farideh Chitsaz, Myra K. Derbyshire +12

    MaqolaOchiq kirish20222 iqtibos
    ABI

  20. clusterProfiler 4.0: A universal enrichment tool for interpreting omics data

    Tianzhi Wu, Erqiang Hu, Shuangbin Xu +11

    MaqolaOchiq kirish20212 iqtibos
    ABI

  21. The<i>Arabidopsis thaliana</i>TCP transcription factors: A broadening horizon beyond development

    Shutian Li

    Sharh maqola20152 iqtibos
    ABI

  22. TCP14 and TCP15 affect internode length and leaf shape in Arabidopsis

    Martin Kieffer, Vera Master, Richard Waites +1

    Maqola20112 iqtibos
    ABI

  23. Analysis of the role of Arabidopsis class I TCP genes AtTCP7, AtTCP8, AtTCP22, and AtTCP23 in leaf development

    José Antonio Aguilar-Martínez, Neelima Sinha

    Maqola20132 iqtibos
    ABI

  24. The evolution of apical dominance in maize

    John Doebley, Adrian O. Stec, Lauren Hubbard

    Maqola19972 iqtibos
    ABI

  25. TCP factors: new kids on the signaling block

    Michaël Nicolas, Pilar Cubas

    Sharh maqola20162 iqtibos
    ABI