The Zebrafish GenomeWiki: A crowdsourcing approach to connect the long tail for zebrafish gene annotation

Meghna Singh; Deeksha Bhartiya; Jayant Maini; Meenakshi Sharma; Angom Ramcharan Singh; Subburaj Kadarkaraisamy; Rajiv Rana; Ankit Sabharwal; Srishti Nanda; Aravindhakshan Ramachandran; Ashish Mittal; Shruti Kapoor; Paras Sehgal; Zainab Asad; Kriti Kaushik; Shamsudheen Karuthedath Vellarikkal; Divya Jagga; Muthulakshmi Muthuswami; Rajendra K. Chauhan; Elvin Leonard; Ruby Priyadarshini; Mahantappa Halimani; Sunny Malhotra; Ashok Patowary; Harinder Vishwakarma; Prateek Joshi; Vivek Bhardwaj; Arijit Bhaumik; Bharat Bhatt; Aamod Jha; Aalok Kumar; Prerna Budakoti; Mukesh Kumar Lalwani; Rajeshwari Meli; Saakshi Jalali; Kandarp Joshi; Koustav Pal; Heena Dhiman; Saurabh V. Laddha; Vaibhav Jadhav; Naresh Singh; Vikas Pandey; Chetana Sachidanandan; Stephen C. Ekker; Eric W. Klee; Vinod Scaria; Sridhar Sivasubbu

doi:10.1093/database/bau011

The Zebrafish GenomeWiki: A crowdsourcing approach to connect the long tail for zebrafish gene annotation

Meghna Singh, Deeksha Bhartiya, Jayant Maini, Meenakshi Sharma, Angom Ramcharan Singh, Subburaj Kadarkaraisamy, Rajiv Rana, Ankit Sabharwal, Srishti Nanda, Aravindhakshan Ramachandran, Ashish Mittal, Shruti Kapoor, Paras Sehgal, Zainab Asad, Kriti Kaushik, Shamsudheen Karuthedath Vellarikkal, Divya Jagga, Muthulakshmi Muthuswami, Rajendra K. Chauhan, Elvin LeonardRuby Priyadarshini, Mahantappa Halimani, Sunny Malhotra, Ashok Patowary, Harinder Vishwakarma, Prateek Joshi, Vivek Bhardwaj, Arijit Bhaumik, Bharat Bhatt, Aamod Jha, Aalok Kumar, Prerna Budakoti, Mukesh Kumar Lalwani, Rajeshwari Meli, Saakshi Jalali, Kandarp Joshi, Koustav Pal, Heena Dhiman, Saurabh V. Laddha, Vaibhav Jadhav, Naresh Singh, Vikas Pandey, Chetana Sachidanandan, Stephen C. Ekker, Eric W. Klee, Vinod Scaria, Sridhar Sivasubbu

Research output: Contribution to journal › Article › peer-review

7 Scopus citations

Abstract

A large repertoire of gene-centric data has been generated in the field of zebrafish biology. Although the bulk of these data are available in the public domain, most of them are not readily accessible or available in nonstandard formats. One major challenge is to unify and integrate these widely scattered data sources. We tested the hypothesis that active community participation could be a viable option to address this challenge. We present here our approach to create standards for assimilation and sharing of information and a system of open standards for database intercommunication. We have attempted to address this challenge by creating a community-centric solution for zebrafish gene annotation. The Zebrafish GenomeWiki is a 'wiki'-based resource, which aims to provide an altruistic shared environment for collective annotation of the zebrafish genes. The Zebrafish GenomeWiki has features that enable users to comment, annotate, edit and rate this gene-centric information. The credits for contributions can be tracked through a transparent microattribution system. In contrast to other wikis, the Zebrafish GenomeWiki is a 'structured wiki' or rather a 'semantic wiki'. The Zebrafish GenomeWiki implements a semantically linked data structure, which in the future would be amenable to semantic search.

Original language	English (US)
Article number	bau011
Journal	Database
Volume	2014
DOIs	https://doi.org/10.1093/database/bau011
State	Published - 2014

ASJC Scopus subject areas

Information Systems
General Biochemistry, Genetics and Molecular Biology
General Agricultural and Biological Sciences

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Singh, M., Bhartiya, D., Maini, J., Sharma, M., Singh, A. R., Kadarkaraisamy, S., Rana, R., Sabharwal, A., Nanda, S., Ramachandran, A., Mittal, A., Kapoor, S., Sehgal, P., Asad, Z., Kaushik, K., Vellarikkal, S. K., Jagga, D., Muthuswami, M., Chauhan, R. K., ... Sivasubbu, S. (2014). The Zebrafish GenomeWiki: A crowdsourcing approach to connect the long tail for zebrafish gene annotation. Database, 2014, Article bau011. https://doi.org/10.1093/database/bau011

Singh, M, Bhartiya, D, Maini, J, Sharma, M, Singh, AR, Kadarkaraisamy, S, Rana, R, Sabharwal, A, Nanda, S, Ramachandran, A, Mittal, A, Kapoor, S, Sehgal, P, Asad, Z, Kaushik, K, Vellarikkal, SK, Jagga, D, Muthuswami, M, Chauhan, RK, Leonard, E, Priyadarshini, R, Halimani, M, Malhotra, S, Patowary, A, Vishwakarma, H, Joshi, P, Bhardwaj, V, Bhaumik, A, Bhatt, B, Jha, A, Kumar, A, Budakoti, P, Lalwani, MK, Meli, R, Jalali, S, Joshi, K, Pal, K, Dhiman, H, Laddha, SV, Jadhav, V, Singh, N, Pandey, V, Sachidanandan, C, Ekker, SC , Klee, EW, Scaria, V & Sivasubbu, S 2014, 'The Zebrafish GenomeWiki: A crowdsourcing approach to connect the long tail for zebrafish gene annotation', Database, vol. 2014, bau011. https://doi.org/10.1093/database/bau011

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title = "The Zebrafish GenomeWiki: A crowdsourcing approach to connect the long tail for zebrafish gene annotation",

abstract = "A large repertoire of gene-centric data has been generated in the field of zebrafish biology. Although the bulk of these data are available in the public domain, most of them are not readily accessible or available in nonstandard formats. One major challenge is to unify and integrate these widely scattered data sources. We tested the hypothesis that active community participation could be a viable option to address this challenge. We present here our approach to create standards for assimilation and sharing of information and a system of open standards for database intercommunication. We have attempted to address this challenge by creating a community-centric solution for zebrafish gene annotation. The Zebrafish GenomeWiki is a 'wiki'-based resource, which aims to provide an altruistic shared environment for collective annotation of the zebrafish genes. The Zebrafish GenomeWiki has features that enable users to comment, annotate, edit and rate this gene-centric information. The credits for contributions can be tracked through a transparent microattribution system. In contrast to other wikis, the Zebrafish GenomeWiki is a 'structured wiki' or rather a 'semantic wiki'. The Zebrafish GenomeWiki implements a semantically linked data structure, which in the future would be amenable to semantic search.",

author = "Meghna Singh and Deeksha Bhartiya and Jayant Maini and Meenakshi Sharma and Singh, {Angom Ramcharan} and Subburaj Kadarkaraisamy and Rajiv Rana and Ankit Sabharwal and Srishti Nanda and Aravindhakshan Ramachandran and Ashish Mittal and Shruti Kapoor and Paras Sehgal and Zainab Asad and Kriti Kaushik and Vellarikkal, {Shamsudheen Karuthedath} and Divya Jagga and Muthulakshmi Muthuswami and Chauhan, {Rajendra K.} and Elvin Leonard and Ruby Priyadarshini and Mahantappa Halimani and Sunny Malhotra and Ashok Patowary and Harinder Vishwakarma and Prateek Joshi and Vivek Bhardwaj and Arijit Bhaumik and Bharat Bhatt and Aamod Jha and Aalok Kumar and Prerna Budakoti and Lalwani, {Mukesh Kumar} and Rajeshwari Meli and Saakshi Jalali and Kandarp Joshi and Koustav Pal and Heena Dhiman and Laddha, {Saurabh V.} and Vaibhav Jadhav and Naresh Singh and Vikas Pandey and Chetana Sachidanandan and Ekker, {Stephen C.} and Klee, {Eric W.} and Vinod Scaria and Sridhar Sivasubbu",

note = "Publisher Copyright: {\textcopyright} The Author(s) 2014.",

year = "2014",

doi = "10.1093/database/bau011",

language = "English (US)",

volume = "2014",

journal = "Database",

issn = "1758-0463",

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TY - JOUR

T1 - The Zebrafish GenomeWiki

T2 - A crowdsourcing approach to connect the long tail for zebrafish gene annotation

AU - Singh, Meghna

AU - Bhartiya, Deeksha

AU - Maini, Jayant

AU - Sharma, Meenakshi

AU - Singh, Angom Ramcharan

AU - Kadarkaraisamy, Subburaj

AU - Rana, Rajiv

AU - Sabharwal, Ankit

AU - Nanda, Srishti

AU - Ramachandran, Aravindhakshan

AU - Mittal, Ashish

AU - Kapoor, Shruti

AU - Sehgal, Paras

AU - Asad, Zainab

AU - Kaushik, Kriti

AU - Vellarikkal, Shamsudheen Karuthedath

AU - Jagga, Divya

AU - Muthuswami, Muthulakshmi

AU - Chauhan, Rajendra K.

AU - Leonard, Elvin

AU - Priyadarshini, Ruby

AU - Halimani, Mahantappa

AU - Malhotra, Sunny

AU - Patowary, Ashok

AU - Vishwakarma, Harinder

AU - Joshi, Prateek

AU - Bhardwaj, Vivek

AU - Bhaumik, Arijit

AU - Bhatt, Bharat

AU - Jha, Aamod

AU - Kumar, Aalok

AU - Budakoti, Prerna

AU - Lalwani, Mukesh Kumar

AU - Meli, Rajeshwari

AU - Jalali, Saakshi

AU - Joshi, Kandarp

AU - Pal, Koustav

AU - Dhiman, Heena

AU - Laddha, Saurabh V.

AU - Jadhav, Vaibhav

AU - Singh, Naresh

AU - Pandey, Vikas

AU - Sachidanandan, Chetana

AU - Ekker, Stephen C.

AU - Klee, Eric W.

AU - Scaria, Vinod

AU - Sivasubbu, Sridhar

PY - 2014

Y1 - 2014

N2 - A large repertoire of gene-centric data has been generated in the field of zebrafish biology. Although the bulk of these data are available in the public domain, most of them are not readily accessible or available in nonstandard formats. One major challenge is to unify and integrate these widely scattered data sources. We tested the hypothesis that active community participation could be a viable option to address this challenge. We present here our approach to create standards for assimilation and sharing of information and a system of open standards for database intercommunication. We have attempted to address this challenge by creating a community-centric solution for zebrafish gene annotation. The Zebrafish GenomeWiki is a 'wiki'-based resource, which aims to provide an altruistic shared environment for collective annotation of the zebrafish genes. The Zebrafish GenomeWiki has features that enable users to comment, annotate, edit and rate this gene-centric information. The credits for contributions can be tracked through a transparent microattribution system. In contrast to other wikis, the Zebrafish GenomeWiki is a 'structured wiki' or rather a 'semantic wiki'. The Zebrafish GenomeWiki implements a semantically linked data structure, which in the future would be amenable to semantic search.

AB - A large repertoire of gene-centric data has been generated in the field of zebrafish biology. Although the bulk of these data are available in the public domain, most of them are not readily accessible or available in nonstandard formats. One major challenge is to unify and integrate these widely scattered data sources. We tested the hypothesis that active community participation could be a viable option to address this challenge. We present here our approach to create standards for assimilation and sharing of information and a system of open standards for database intercommunication. We have attempted to address this challenge by creating a community-centric solution for zebrafish gene annotation. The Zebrafish GenomeWiki is a 'wiki'-based resource, which aims to provide an altruistic shared environment for collective annotation of the zebrafish genes. The Zebrafish GenomeWiki has features that enable users to comment, annotate, edit and rate this gene-centric information. The credits for contributions can be tracked through a transparent microattribution system. In contrast to other wikis, the Zebrafish GenomeWiki is a 'structured wiki' or rather a 'semantic wiki'. The Zebrafish GenomeWiki implements a semantically linked data structure, which in the future would be amenable to semantic search.

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U2 - 10.1093/database/bau011

DO - 10.1093/database/bau011

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C2 - 24578356

AN - SCOPUS:84906562418

SN - 1758-0463

VL - 2014

JO - Database

JF - Database

M1 - bau011

ER -

The Zebrafish GenomeWiki: A crowdsourcing approach to connect the long tail for zebrafish gene annotation

Abstract

ASJC Scopus subject areas

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