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===Welcome to TnPedia, the TnCentral Wiki=== | ===Welcome to TnPedia, the TnCentral Wiki=== | ||
| − | [[Image:TnCentral.png|thumb|400px|[https://tncentral. | + | [[Image:TnCentral.png|thumb|400px|[https://tncentral.ncc.unesp.br/ TnCentral] is a Web-resource for prokaryotic transposons, their passenger genes, and their host organisms. It provides a variety of Search functions, BLAST functions for TnCentral and other related databases and a summary page with detailed annotation and a descriptive graphic for each transposon. It also makes available stand-alone scripts for identifying different transposons in genomic sequence data.]] |
This Tnpedia has been written in an attempt to assemble a body of information (including many of the historical articles) generally dispersed in the literature as an aid to understanding how knowledge has been built up to our present view of the key role played by transposable elements (TE) in prokaryotes – both in influencing gene expression, in driving genome evolution and in | This Tnpedia has been written in an attempt to assemble a body of information (including many of the historical articles) generally dispersed in the literature as an aid to understanding how knowledge has been built up to our present view of the key role played by transposable elements (TE) in prokaryotes – both in influencing gene expression, in driving genome evolution and in | ||
| − | facilitating horizontal gene transfer (HGT). It is divided into four sections: | + | facilitating horizontal gene transfer (HGT). It is divided into four sections: |
| − | ;[[General Information|General Information | + | <br /> |
| + | |||
| + | ;[[General Information|General Information on Prokaryotic Elements]] :A section providing general information about Transposition and '''T'''ransposable '''E'''lements (TE) with emphasis on prokaryotic elements. It was originally written for ISfinder (https://www-is.biotoul.fr/index.php) with contributions from [https://scholar.google.com/citations?user=WHAtfqcAAAAJ&hl=en P. Siguier] and E. Gourbeyre. It contains historical, mechanistic and genetic information. | ||
<br /> | <br /> | ||
| − | ;[[IS Families|Insertion | + | ;[[IS Families|Insertion Sequence (IS) Families]] <small>[New Content on 07/01/24]</small> :A second section describing each '''I'''nsertion '''S'''equence (IS) family in some detail. This section has been entirely updated compared to that which was included in a previous [https://www-is.biotoul.fr/index.php ISfinder] version. It contains information from a number of reviews and from the primary literature together with analyses undertaken in the framework of [https://www-is.biotoul.fr/index.php ISfinder] and [https://tncentral.proteininformationresource.org/ TnCentral]. [https://scholar.google.com/citations?user=WHAtfqcAAAAJ&hl=en P. Siguier] and E. Gourbeyre provided a large proportion of these analyses. |
<br /> | <br /> | ||
| − | ;[[ | + | ;[[Transposon families]] <small>[New Content on 09/27/24]</small> :A third section presenting detailed descriptions of transposon and transposon families written in the framework of [https://tncentral.proteininformationresource.org/ TnCentral]. |
<br /> | <br /> | ||
| − | ;[[Glossary|Transposition | + | ;[[Glossary|Transposition Glossary]] <small>[In continuous progress]</small> |
| − | :An alphabetical list of | + | :An alphabetical list of commonly used transposition terms with the definitions for those terms. |
: | : | ||
| − | All sections will be updated periodically here but can also be accessed through [https://tncentral.proteininformationresource.org/ TnCentral]. | + | <br /> |
| + | All sections will be updated periodically here, but can also be accessed through [https://tncentral.proteininformationresource.org/ TnCentral]. | ||
| + | <br /> | ||
<b>Acknowledgments</b>: The entries in this Tnpedia have been written by [https://scholar.google.com/citations?user=r8TYgVEAAAAJ&hl=en Michael Chandler] with contributions from [https://scholar.google.com/citations?user=WHAtfqcAAAAJ&hl=en Patricia Siguier] and Edith Gourbeyre. [https://scholar.google.com/citations?user=cFWBDcQAAAAJ&hl=pt-BR&hl=en Alessandro M. Varani] and [https://scholar.google.com.br/citations?user=CeHMhoIAAAAJ&hl=en Danillo O. Alvarenga] coded and designed the website and edited the original material. | <b>Acknowledgments</b>: The entries in this Tnpedia have been written by [https://scholar.google.com/citations?user=r8TYgVEAAAAJ&hl=en Michael Chandler] with contributions from [https://scholar.google.com/citations?user=WHAtfqcAAAAJ&hl=en Patricia Siguier] and Edith Gourbeyre. [https://scholar.google.com/citations?user=cFWBDcQAAAAJ&hl=pt-BR&hl=en Alessandro M. Varani] and [https://scholar.google.com.br/citations?user=CeHMhoIAAAAJ&hl=en Danillo O. Alvarenga] coded and designed the website and edited the original material. | ||
<br> | <br> | ||
<br> | <br> | ||
| − | If you have comments, suggestions, improvements, errors, etc. Please contact Mick Chandler at [mailto:mc2126@georgetown.edu mc2126@georgetown.edu] | + | If you have comments, suggestions, improvements, errors, etc. Please contact Mick Chandler at [mailto:mc2126@georgetown.edu mc2126@georgetown.edu] or Alessandro Varani at [mailto:alessandro.varani@unesp.br alessandro.varani@unesp.br] |
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| + | ====How to cite TnPedia ?==== | ||
| + | If you use TnPedia in your work, please cite: | ||
| + | Ross K, Varani AM, Snesrud E, Huang H, Alvarenga DO, Zhang J, Wu C, McGann P, Chandler M. '''TnCentral: a Prokaryotic Transposable Element Database and Web Portal for Transposon Analysis.''' mBio. 2021 Oct 26;12(5):e0206021. doi: [https://doi.org/10.1128/mBio.02060-21 10.1128/mBio.02060-21]. Epub 2021 Sep 14. PMID: [https://pubmed.ncbi.nlm.nih.gov/34517763/ 34517763]; PMCID: [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8546635/ PMC8546635]. | ||
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|[[File:Logo-pir.png|alt=Protein Information Resource (PIR)|center|Protein Information Resource (PIR)|243x243px]] [https://proteininformationresource.org/ Protein Information Resource (PIR) ] | |[[File:Logo-pir.png|alt=Protein Information Resource (PIR)|center|Protein Information Resource (PIR)|243x243px]] [https://proteininformationresource.org/ Protein Information Resource (PIR) ] | ||
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Latest revision as of 22:33, 27 September 2024
Welcome to TnPedia, the TnCentral Wiki
TnCentral is a Web-resource for prokaryotic transposons, their passenger genes, and their host organisms. It provides a variety of Search functions, BLAST functions for TnCentral and other related databases and a summary page with detailed annotation and a descriptive graphic for each transposon. It also makes available stand-alone scripts for identifying different transposons in genomic sequence data.
This Tnpedia has been written in an attempt to assemble a body of information (including many of the historical articles) generally dispersed in the literature as an aid to understanding how knowledge has been built up to our present view of the key role played by transposable elements (TE) in prokaryotes – both in influencing gene expression, in driving genome evolution and in facilitating horizontal gene transfer (HGT). It is divided into four sections:
- General Information on Prokaryotic Elements
- A section providing general information about Transposition and Transposable Elements (TE) with emphasis on prokaryotic elements. It was originally written for ISfinder (https://www-is.biotoul.fr/index.php) with contributions from P. Siguier and E. Gourbeyre. It contains historical, mechanistic and genetic information.
- Insertion Sequence (IS) Families [New Content on 07/01/24]
- A second section describing each Insertion Sequence (IS) family in some detail. This section has been entirely updated compared to that which was included in a previous ISfinder version. It contains information from a number of reviews and from the primary literature together with analyses undertaken in the framework of ISfinder and TnCentral. P. Siguier and E. Gourbeyre provided a large proportion of these analyses.
- Transposon families [New Content on 09/27/24]
- A third section presenting detailed descriptions of transposon and transposon families written in the framework of TnCentral.
- Transposition Glossary [In continuous progress]
- An alphabetical list of commonly used transposition terms with the definitions for those terms.
All sections will be updated periodically here, but can also be accessed through TnCentral.
Acknowledgments: The entries in this Tnpedia have been written by Michael Chandler with contributions from Patricia Siguier and Edith Gourbeyre. Alessandro M. Varani and Danillo O. Alvarenga coded and designed the website and edited the original material.
If you have comments, suggestions, improvements, errors, etc. Please contact Mick Chandler at mc2126@georgetown.edu or Alessandro Varani at alessandro.varani@unesp.br
How to cite TnPedia ?
If you use TnPedia in your work, please cite:
Ross K, Varani AM, Snesrud E, Huang H, Alvarenga DO, Zhang J, Wu C, McGann P, Chandler M. TnCentral: a Prokaryotic Transposable Element Database and Web Portal for Transposon Analysis. mBio. 2021 Oct 26;12(5):e0206021. doi: 10.1128/mBio.02060-21. Epub 2021 Sep 14. PMID: 34517763; PMCID: PMC8546635.
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