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 & 27 others 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

Research output: Contribution to journalArticle

6 Citations (Scopus)

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. Database URL: http://genome.igib.res.in/twiki.

Original languageEnglish (US)
JournalDatabase : the journal of biological databases and curation
Volume2014
DOIs
StatePublished - 2014

Fingerprint

Crowdsourcing
Molecular Sequence Annotation
Zebrafish
Danio rerio
Tail
tail
Genes
genes
Semantics
Databases
community service
Data structures
Public Sector
Information Storage and Retrieval
credit
Information Systems
assimilation (physiology)
Genome
Biological Sciences

ASJC Scopus subject areas

  • Medicine(all)

Cite this

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

In: Database : the journal of biological databases and curation, Vol. 2014, 2014.

Research output: Contribution to journalArticle

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 : the journal of biological databases and curation, vol. 2014. https://doi.org/10.1093/database/bau011
Singh, Meghna ; Bhartiya, Deeksha ; Maini, Jayant ; Sharma, Meenakshi ; Singh, Angom Ramcharan ; Kadarkaraisamy, Subburaj ; Rana, Rajiv ; Sabharwal, Ankit ; Nanda, Srishti ; Ramachandran, Aravindhakshan ; Mittal, Ashish ; Kapoor, Shruti ; Sehgal, Paras ; Asad, Zainab ; Kaushik, Kriti ; Vellarikkal, Shamsudheen Karuthedath ; Jagga, Divya ; Muthuswami, Muthulakshmi ; Chauhan, Rajendra K. ; Leonard, Elvin ; Priyadarshini, Ruby ; Halimani, Mahantappa ; Malhotra, Sunny ; Patowary, Ashok ; Vishwakarma, Harinder ; Joshi, Prateek ; Bhardwaj, Vivek ; Bhaumik, Arijit ; Bhatt, Bharat ; Jha, Aamod ; Kumar, Aalok ; Budakoti, Prerna ; Lalwani, Mukesh Kumar ; Meli, Rajeshwari ; Jalali, Saakshi ; Joshi, Kandarp ; Pal, Koustav ; Dhiman, Heena ; Laddha, Saurabh V. ; Jadhav, Vaibhav ; Singh, Naresh ; Pandey, Vikas ; Sachidanandan, Chetana ; Ekker, Stephen C ; Klee, Eric W ; Scaria, Vinod ; Sivasubbu, Sridhar. / The Zebrafish GenomeWiki : a crowdsourcing approach to connect the long tail for zebrafish gene annotation. In: Database : the journal of biological databases and curation. 2014 ; Vol. 2014.
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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. Database URL: http://genome.igib.res.in/twiki.",
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",
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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

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