TBtools statistics

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Citations per year

Number of citations per year for the bioinformatics software tool TBtools
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Tool usage distribution map

This map represents all the scientific publications referring to TBtools per scientific context
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Popular tool citations

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Protocols

TBtools specifications

Information


Unique identifier OMICS_28210
Name TBtools
Alternative name Toolbox for Biologists
Software type Toolkit/Suite
Interface Command line interface, Graphical user interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages Java
Computer skills Advanced
Version 0.58
Stability Stable
Requirements
JRE
Maintained Yes

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Versioning


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Maintainers


  • person_outline Yehua He
  • person_outline Rui Xia
  • person_outline Chengjie Chen

Publication for Toolbox for Biologists

TBtools citations

 (10)
library_books

Genome Sequencing and Analysis of the Peanut B Genome Progenitor (Arachis ipaensis)

2018
Front Plant Sci
PMCID: 5943715
PMID: 29774047
DOI: 10.3389/fpls.2018.00604

[…] as predicted using the Multiple Expectation Maximization for Motif Elicitation (MEME)/Motif Alignment and Search Tool (MAST) system (http://meme-suite.org/) (Bailey et al., ) and visualized using the TBtools (version 0.4999) (https://github.com/CJ-Chen/TBtools). […]

call_split

The Fusarium graminearum Histone Acetyltransferases Are Important for Morphogenesis, DON Biosynthesis, and Pathogenicity

2018
Front Microbiol
PMCID: 5932188
PMID: 29755419
DOI: 10.3389/fmicb.2018.00654
call_split See protocol

[…] Durbin, ). Identification of differentially expressed genes (DEGs) from RNA-seq data was conducted by using cufflinks (Trapnell et al., ). Detection of genes differentially enriched was analyzed with TBtools (https://github.com/CJ-Chen/TBtools). Primary metabolism-associated genes were download from The Fungal and Oomycete Genomics Resource Database (http://fungidb.org/) with GO term “0044238, pri […]

library_books

Genome Wide Identification and Expression Analysis of the Cation Diffusion Facilitator Gene Family in Turnip Under Diverse Metal Ion Stresses

2018
Front Genet
PMCID: 5893799
PMID: 29670641
DOI: 10.3389/fgene.2018.00103

[…] Pfam tool and the MEME program were used to search for conserved domains and motifs in the BrrMTP protein sequences, respectively (; ); subsequently, the domain and motif diagrams were drawn with the TBtools software. The putative transmembrane regions in proteins were predicted by using the TMHMM Server V. 2.0. The physicochemical parameters of the proteins, including molecular weight (MW), theor […]

library_books

Genome Wide Identification of Cyclic Nucleotide Gated Ion Channel Gene Family in Wheat and Functional Analyses of TaCNGC14 and TaCNGC16

2018
Front Plant Sci
PMCID: 5786745
PMID: 29403523
DOI: 10.3389/fpls.2018.00018

[…] ny number of non-overlapping occurrences of each motif, number of different motifs as 20, range of motif width as 6 to 100. All of the functions of those motifs were analyzed by InterPro and drawn by TBtools software, and the position of the annotated motifs were displayed by the R package “ggplot2”. The structures of TaCNGC genes were exhibited using the Gene Structure Display Server (GSDS). GFF3 […]

library_books

A Genomic Survey of SCPP Family Genes in Fishes Provides Novel Insights into the Evolution of Fish Scales

2017
Int J Mol Sci
PMCID: 5713400
PMID: 29144443
DOI: 10.3390/ijms18112432

[…] By mapping the collected sequences onto their corresponding genomes, the genomic location of SPARCL1 and SCPP genes were determined, which was implemented in TBtools (https://github.com /CJ-Chen/TBtools). Pairwise alignment of SPARCL1, SPP1, SCPP1, ODAM, fa93e10, SCPP5, SCPP6, SCPP7, and SCPP9 between extracted species and zebrafish was also performed in E […]

library_books

Transcriptomic and Hormonal Analyses Reveal that YUC Mediated Auxin Biogenesis Is Involved in Shoot Regeneration from Rhizome in Cymbidium

2017
Front Plant Sci
PMCID: 5664085
PMID: 29163591
DOI: 10.3389/fpls.2017.01866

[…] ified using edgeR software () with a false discovery rate (FDR) threshold of ≤0.001 and an absolute value of log2ratio ≥ 1. Representative subsets were obtained using an Interactive Venn Grapher from TBtools software, and GO and KEGG enrichment analyses of these subsets were performed by TBtools software using the hyper-geometric test (). REVIGO was applied to visualize the GO enrichment results b […]


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TBtools institution(s)
State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Ministry of Agriculture, Guangzhou, China; Key Laboratory of Biology and Germplasm Enhancement of Horticultural Crops in South China, Ministry of Agriculture, Guangzhou, China; College of Horticulture, South China Agricultural University, Guangzhou, China; Oilseed Crops Institute, Hunan Agricultural University, Changsha, China

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