WikiPathways 2024: next generation pathway database

Ayushi Agrawal; Hasan Balcı; Kristina Hanspers; Susan L Coort; Marvin Martens; Denise N Slenter; Friederike Ehrhart; Daniela Digles; Andra Waagmeester; Isabel Wassink; Tooba Abbassi-Daloii; Elisson N Lopes; Aishwarya Iyer; Javier Millán Acosta; Lars G Willighagen; Kozo Nishida; Anders Riutta; Helena Basaric; Chris T Evelo; Egon L Willighagen; Martina Kutmon; Alexander R Pico

doi:10.1093/nar/gkad960

WikiPathways 2024: next generation pathway database

Ayushi Agrawal
, Hasan Balcı
, Kristina Hanspers
, Susan L Coort
, Marvin Martens
, Denise N Slenter
, Friederike Ehrhart
, Daniela Digles
, Andra Waagmeester
, Isabel Wassink
, Tooba Abbassi-Daloii
, Elisson N Lopes
, Aishwarya Iyer
, Javier Millán Acosta
, Lars G Willighagen
, Kozo Nishida
, Anders Riutta
, Helena Basaric
, Chris T Evelo
, Egon L Willighagen

Martina Kutmon, Alexander R Pico

Department of Pharmaceutical Sciences

Publications: Contribution to journal › Article › Peer Reviewed

Abstract

WikiPathways (wikipathways.org) is an open-source biological pathway database. Collaboration and open science are pivotal to the success of WikiPathways. Here we highlight the continuing efforts supporting WikiPathways, content growth and collaboration among pathway researchers. As an evolving database, there is a growing need for WikiPathways to address and overcome technical challenges. In this direction, WikiPathways has undergone major restructuring, enabling a renewed approach for sharing and curating pathway knowledge, thus providing stability for the future of community pathway curation. The website has been redesigned to improve and enhance user experience. This next generation of WikiPathways continues to support existing features while improving maintainability of the database and facilitating community input by providing new functionality and leveraging automation.

Original language	English
Pages (from-to)	D679-D689
Journal	Nucleic Acids Research
Volume	52
Issue number	D1
DOIs	https://doi.org/10.1093/nar/gkad960
Publication status	Published - 5 Jan 2024

Austrian Fields of Science 2012

106005 Bioinformatics

Keywords

Databases, Factual

Access to Document

10.1093/nar/gkad960Licence: CC BY 4.0

https://phaidra.univie.ac.at/o:2175601Licence: CC BY 4.0

Cite this

Agrawal, A., Balcı, H., Hanspers, K., Coort, S. L., Martens, M., Slenter, D. N., Ehrhart, F., Digles, D., Waagmeester, A., Wassink, I., Abbassi-Daloii, T., Lopes, E. N., Iyer, A., Acosta, J. M., Willighagen, L. G., Nishida, K., Riutta, A., Basaric, H., Evelo, C. T., ... Pico, A. R. (2024). WikiPathways 2024: next generation pathway database. Nucleic Acids Research, 52(D1), D679-D689. https://doi.org/10.1093/nar/gkad960

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abstract = "WikiPathways (wikipathways.org) is an open-source biological pathway database. Collaboration and open science are pivotal to the success of WikiPathways. Here we highlight the continuing efforts supporting WikiPathways, content growth and collaboration among pathway researchers. As an evolving database, there is a growing need for WikiPathways to address and overcome technical challenges. In this direction, WikiPathways has undergone major restructuring, enabling a renewed approach for sharing and curating pathway knowledge, thus providing stability for the future of community pathway curation. The website has been redesigned to improve and enhance user experience. This next generation of WikiPathways continues to support existing features while improving maintainability of the database and facilitating community input by providing new functionality and leveraging automation.",

keywords = "Databases, Factual",

author = "Ayushi Agrawal and Hasan Balcı and Kristina Hanspers and Coort, \{Susan L\} and Marvin Martens and Slenter, \{Denise N\} and Friederike Ehrhart and Daniela Digles and Andra Waagmeester and Isabel Wassink and Tooba Abbassi-Daloii and Lopes, \{Elisson N\} and Aishwarya Iyer and Acosta, \{Javier Mill{\'a}n\} and Willighagen, \{Lars G\} and Kozo Nishida and Anders Riutta and Helena Basaric and Evelo, \{Chris T\} and Willighagen, \{Egon L\} and Martina Kutmon and Pico, \{Alexander R\}",

note = "{\textcopyright} The Author(s) 2023. Published by Oxford University Press on behalf of Nucleic Acids Research.",

year = "2024",

month = jan,

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doi = "10.1093/nar/gkad960",

language = "English",

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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, Acosta, JM, Willighagen, LG, Nishida, K, Riutta, A, Basaric, H, Evelo, CT, Willighagen, EL, Kutmon, M & Pico, AR 2024, 'WikiPathways 2024: next generation pathway database', Nucleic Acids Research, vol. 52, no. D1, pp. D679-D689. https://doi.org/10.1093/nar/gkad960

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T1 - WikiPathways 2024: next generation pathway database

AU - Agrawal, Ayushi

AU - Balcı, Hasan

AU - Hanspers, Kristina

AU - Coort, Susan L

AU - Martens, Marvin

AU - Slenter, Denise N

AU - Ehrhart, Friederike

AU - Digles, Daniela

AU - Waagmeester, Andra

AU - Wassink, Isabel

AU - Abbassi-Daloii, Tooba

AU - Lopes, Elisson N

AU - Iyer, Aishwarya

AU - Acosta, Javier Millán

AU - Willighagen, Lars G

AU - Nishida, Kozo

AU - Riutta, Anders

AU - Basaric, Helena

AU - Evelo, Chris T

AU - Willighagen, Egon L

AU - Kutmon, Martina

AU - Pico, Alexander R

PY - 2024/1/5

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KW - Databases, Factual

UR - https://www.wikipathways.org/

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SN - 0305-1048

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SP - D679-D689

JO - Nucleic Acids Research

JF - Nucleic Acids Research

IS - D1

ER -

WikiPathways 2024: next generation pathway database

Abstract

Austrian Fields of Science 2012

Keywords

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