How to cite WikiPathways

From WikiPathways

(Difference between revisions)
Jump to: navigation, search
Current revision (08:18, 20 April 2024) (view source)
 
(11 intermediate revisions not shown.)
Line 1: Line 1:
'''''When referring to the latest website or content, please cite the most recent update paper:'''''
'''''When referring to the latest website or content, please cite the most recent update paper:'''''
-
[[Image:SlenterNARFirstPage.png|right|x350px]]
+
* Agrawal A, Balcı H, Hanspers K, Coort SL, Martens M, Slenter DN, Ehrhart F, Digles D, Waagmeester A, Wassink I, Abbassi-Daloii T, Lopes EN, Iyer A, Millán Acosta J, Willighagen LG, Nishida K, Riutta A, Basaric H, Evelo CT, Willighagen EL, Kutmon M, Pico AR. (2024) '''WikiPathways 2024: next generation pathway database'''. NAR 52(D1): [https://doi.org/10.1093/nar/gkad960 (link to article)]
-
* Slenter DN, Kutmon M, Hanspers K, Riutta A, Windsor J, Nunes N, Mélius J, Cirillo E, Coort SL, Digles D, Ehrhart F, Giesbertz P, Kalafati M, Martens M, Miller R, Nishida K, Rieswijk L, Waagmeester A, Eijssen LMT, Evelo CT, Pico AR, Willighagen EL. '''WikiPathways: a multifaceted pathway database bridging metabolomics to other omics research''' ''Nucleic Acids Research'', (2018) [https://doi.org/10.1093/nar/gkx1064 doi.org/10.1093/nar/gkx1064] [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5753270/ PMC5753270]
+
[[Image:Nar2024.png|right|x350px]]
 +
When citing the WikiPathways project, we recommend citing either our latest NAR Database article or the original 2008 PLoS Biology article:
 +
* Agrawal A, Balcı H, Hanspers K, Coort SL, Martens M, Slenter DN, Ehrhart F, Digles D, Waagmeester A, Wassink I, Abbassi-Daloii T, Lopes EN, Iyer A, Millán Acosta J, Willighagen LG, Nishida K, Riutta A, Basaric H, Evelo CT, Willighagen EL, Kutmon M, Pico AR. (2024) '''WikiPathways 2024: next generation pathway database'''. NAR 52(D1): [https://doi.org/10.1093/nar/gkad960 (link to article)]
 +
* Pico AR, Kelder T, van Iersel MP, Hanspers K, Conklin BR, Evelo C. (2008) '''WikiPathways: Pathway Editing for the People'''. PLoS Biol 6(7): [http://journals.plos.org/plosbiology/article?id=10.1371/journal.pbio.0060184  (link to article)]
-
----
+
When you want to cite specific functionality, like biological interactions, metabolomics, the WikiPathways Academy, our nanopublication, the Web Service, RDF, etc, please see [https://www.wikipathways.org/cite.html this page for more citetable research output].
 +
== Trademark ==
 +
The WikiPathways trademark (our logo) can be reproduced with any use and redistribution of WikiPathways content. You do not necessarily have to ask permission before using the logo, if you are confident that you satisfy the license and ''Terms of Use''. However, we always appreciate hearing about related efforts, so please drop us a line.  We have a wiki page dedicated to listing such efforts [https://www.wikipathways.org/index.php/Help:Tools_using_WikiPathways here], and we would love to add your tool.
-
'''''When referring to specific issues described in previous update papers, please cite the respective paper:'''''
+
If you do not satisfy the license or ''Terms of Use'' (they're really quite leanient) our first measure will be to contact you and request that you change your behavior. Failing that, we will require that you remove the WikiPathways trademark from your site or resource. Please see this [https://wiki.creativecommons.org/wiki/CC0_FAQ#What_about_other_IP_related_rights.2C_such_as_trademark_and_patent_rights.3F FAQ on Trademarks and CC0].
-
* Kutmon M, Riutta A, Nunes N, Hanspers K, Willighagen EL, Bohler A, Mélius J, Waagmeester A, Sinha SR, Miller R, Coort SL, Cirillo E, Smeets B, Evelo CT, Pico AR. '''WikiPathways: capturing the full diversity of pathway knowledge''' ''Nucl. Acids Res.'', 44, D488-D494 (2016) [http://dx.doi.org/10.1093/nar/gkv1024 doi:10.1093/nar/gkv1024] [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4702772/ PMC4702772]
+
Logos can be downloaded or linked to from WikiMedia:
-
 
+
* https://commons.wikimedia.org/wiki/File:Wplogo_with_text_500.png
-
* Kelder T, van Iersel MP, Hanspers K, Kutmon M, Conklin BR, Evelo C, Pico AR. '''WikiPathways: building research communities on biological pathways.''' ''Nucleic Acids Res.'' 2012 Jan;40(Database issue):D1301-7 [http://nar.oxfordjournals.org/content/early/2011/11/16/nar.gkr1074.abstract (link to article)]
+
https://upload.wikimedia.org/wikipedia/commons/thumb/8/83/Wplogo_with_text_500.png/150px-Wplogo_with_text_500.png
 +
* https://commons.wikimedia.org/wiki/File:Wplogo_500.png
 +
https://upload.wikimedia.org/wikipedia/commons/thumb/3/34/Wplogo_500.png/100px-Wplogo_500.png
 +
And here are some SVG versions:
 +
* https://www.wikipathways.org/img_auth.php/a/a2/WP-Logo-Symbol.svg
 +
* https://www.wikipathways.org/img_auth.php/c/c8/WP-Logo-Vertical.svg
 +
* https://www.wikipathways.org/img_auth.php/3/32/WP-Logo-Horizontal.svg
 +
* https://www.wikipathways.org/img_auth.php/b/ba/WP-Logo-Horizontal-1-2inch.svg
----
----
-
 
-
 
-
'''''When referring to the web services, please cite:'''''
 
-
 
-
* Kelder T, Pico AR, Hanspers K, van Iersel MP, Evelo C, Conklin BR. (2009) Mining Biological Pathways Using WikiPathways Web Services. PLoS ONE 4(7): [http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2714472/ (link to article)]
 
-
 
-
 
-
----
 
-
 
-
 
-
'''''When referring to the origins of WikiPathways, please cite:'''''
 
-
 
-
* Pico AR, Kelder T, van Iersel MP, Hanspers K, Conklin BR, Evelo C. (2008) WikiPathways: Pathway Editing for the People. PLoS Biol 6(7): [http://journals.plos.org/plosbiology/article?id=10.1371/journal.pbio.0060184  (link to article)]
 
-
 
-
 
-
----
 
-
 
-
 
-
'''''When using or referencing WikiPathways in general, please cite the main page:'''''
 
-
* [https://www.wikipathways.org wikipathways.org]
 
-
 
-
 
-
----
 
-
 
-
 
-
'''''When using, referencing or redistributing particular pathways, please cite the specific pathway, for example:'''''
 
-
[https://www.wikipathways.org/instance/WP254 www.wikipathways.org/instance/WP254]
 
-
 
-
* When citing the live version of a pathway, attribution to individual contributors is not necessary. WikiPathways will track and display contributions from individual authors and curators to each pathway on each pathway page. So as long as hyperlinks are provided to WikiPathways, the evolving list of contributors will be indirectly referenced.
 
-
* However, if you are referencing a specific version of a pathway (even including the current version), then it is important to include a URL of the form: [https://www.wikipathways.org/instance/WP254_r93003 wikipathways.org/instance/WP254_r93003]. This approach is useful if you want to maintain a link to a snapshot of the pathway and not have future changes obscure your original points. Use the "r" argument in the URL to refer to particular revision ID numbers, which you can find in the History section of each pathway page.
 
-
* Also, when referencing a specific version, it is appropriate to list the individual contributors, since future contributors are not an issue. Thus, the reference might look like this:
 
-
Salomonis N, Pico A, Hanspers K: SIDS Susceptibility Pathways (Homo sapiens). [https://www.wikipathways.org/instance/WP706_r92921 wikipathways.org/instance/WP706_r92921]
 
-
 
-
----
 
-
 
-
 
-
'''''When referring to the use of Adverse Outcome Pathways (AOPs) and WikiPathways, please cite the respective paper:'''''
 
-
 
-
* Martens M, Verbruggen T, Nymark P, Grafström R, Burgoon LD, Aladjov H, Torres Andón T, Evelo CT, Willighagen EL. '''Introducing WikiPathways as a data-source to support Adverse Outcome Pathways for regulatory risk assessment of chemicals and nanomaterials.''' ''Front. Genet. '', (2018) [https://www.frontiersin.org/articles/10.3389/fgene.2018.00661/abstract doi:10.3389/fgene.2018.00661]
 

Current revision

When referring to the latest website or content, please cite the most recent update paper:

  • Agrawal A, Balcı H, Hanspers K, Coort SL, Martens M, Slenter DN, Ehrhart F, Digles D, Waagmeester A, Wassink I, Abbassi-Daloii T, Lopes EN, Iyer A, Millán Acosta J, Willighagen LG, Nishida K, Riutta A, Basaric H, Evelo CT, Willighagen EL, Kutmon M, Pico AR. (2024) WikiPathways 2024: next generation pathway database. NAR 52(D1): (link to article)

When citing the WikiPathways project, we recommend citing either our latest NAR Database article or the original 2008 PLoS Biology article:

  • Agrawal A, Balcı H, Hanspers K, Coort SL, Martens M, Slenter DN, Ehrhart F, Digles D, Waagmeester A, Wassink I, Abbassi-Daloii T, Lopes EN, Iyer A, Millán Acosta J, Willighagen LG, Nishida K, Riutta A, Basaric H, Evelo CT, Willighagen EL, Kutmon M, Pico AR. (2024) WikiPathways 2024: next generation pathway database. NAR 52(D1): (link to article)
  • Pico AR, Kelder T, van Iersel MP, Hanspers K, Conklin BR, Evelo C. (2008) WikiPathways: Pathway Editing for the People. PLoS Biol 6(7): (link to article)

When you want to cite specific functionality, like biological interactions, metabolomics, the WikiPathways Academy, our nanopublication, the Web Service, RDF, etc, please see this page for more citetable research output.

Trademark

The WikiPathways trademark (our logo) can be reproduced with any use and redistribution of WikiPathways content. You do not necessarily have to ask permission before using the logo, if you are confident that you satisfy the license and Terms of Use. However, we always appreciate hearing about related efforts, so please drop us a line. We have a wiki page dedicated to listing such efforts here, and we would love to add your tool.

If you do not satisfy the license or Terms of Use (they're really quite leanient) our first measure will be to contact you and request that you change your behavior. Failing that, we will require that you remove the WikiPathways trademark from your site or resource. Please see this FAQ on Trademarks and CC0.

Logos can be downloaded or linked to from WikiMedia:

150px-Wplogo_with_text_500.png

100px-Wplogo_500.png

And here are some SVG versions:

Retrieved from "https://classic.wikipathways.org/index.php/How_to_cite_WikiPathways"
Personal tools