CrossCheck: an open-source web tool for high-throughput screen data analysis

Abstract Modern high-throughput screening methods allow researchers to generate large datasets that potentially contain important biological information. However, oftentimes, picking relevant hits from such screens and generating testable hypotheses requires training in bioinformatics and the skills...

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Autores principales:	Jamil Najafov, Ayaz Najafov
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2017
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/b760f2eb256a480985d2a92af79cbab3
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spelling	oai:doaj.org-article:b760f2eb256a480985d2a92af79cbab32021-12-02T16:06:46ZCrossCheck: an open-source web tool for high-throughput screen data analysis10.1038/s41598-017-05960-32045-2322https://doaj.org/article/b760f2eb256a480985d2a92af79cbab32017-07-01T00:00:00Zhttps://doi.org/10.1038/s41598-017-05960-3https://doaj.org/toc/2045-2322Abstract Modern high-throughput screening methods allow researchers to generate large datasets that potentially contain important biological information. However, oftentimes, picking relevant hits from such screens and generating testable hypotheses requires training in bioinformatics and the skills to efficiently perform database mining. There are currently no tools available to general public that allow users to cross-reference their screen datasets with published screen datasets. To this end, we developed CrossCheck, an online platform for high-throughput screen data analysis. CrossCheck is a centralized database that allows effortless comparison of the user-entered list of gene symbols with 16,231 published datasets. These datasets include published data from genome-wide RNAi and CRISPR screens, interactome proteomics and phosphoproteomics screens, cancer mutation databases, low-throughput studies of major cell signaling mediators, such as kinases, E3 ubiquitin ligases and phosphatases, and gene ontological information. Moreover, CrossCheck includes a novel database of predicted protein kinase substrates, which was developed using proteome-wide consensus motif searches. CrossCheck dramatically simplifies high-throughput screen data analysis and enables researchers to dig deep into the published literature and streamline data-driven hypothesis generation. CrossCheck is freely accessible as a web-based application at http://proteinguru.com/crosscheck.Jamil NajafovAyaz NajafovNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 7, Iss 1, Pp 1-4 (2017)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Jamil Najafov Ayaz Najafov CrossCheck: an open-source web tool for high-throughput screen data analysis
description	Abstract Modern high-throughput screening methods allow researchers to generate large datasets that potentially contain important biological information. However, oftentimes, picking relevant hits from such screens and generating testable hypotheses requires training in bioinformatics and the skills to efficiently perform database mining. There are currently no tools available to general public that allow users to cross-reference their screen datasets with published screen datasets. To this end, we developed CrossCheck, an online platform for high-throughput screen data analysis. CrossCheck is a centralized database that allows effortless comparison of the user-entered list of gene symbols with 16,231 published datasets. These datasets include published data from genome-wide RNAi and CRISPR screens, interactome proteomics and phosphoproteomics screens, cancer mutation databases, low-throughput studies of major cell signaling mediators, such as kinases, E3 ubiquitin ligases and phosphatases, and gene ontological information. Moreover, CrossCheck includes a novel database of predicted protein kinase substrates, which was developed using proteome-wide consensus motif searches. CrossCheck dramatically simplifies high-throughput screen data analysis and enables researchers to dig deep into the published literature and streamline data-driven hypothesis generation. CrossCheck is freely accessible as a web-based application at http://proteinguru.com/crosscheck.
format	article
author	Jamil Najafov Ayaz Najafov
author_facet	Jamil Najafov Ayaz Najafov
author_sort	Jamil Najafov
title	CrossCheck: an open-source web tool for high-throughput screen data analysis
title_short	CrossCheck: an open-source web tool for high-throughput screen data analysis
title_full	CrossCheck: an open-source web tool for high-throughput screen data analysis
title_fullStr	CrossCheck: an open-source web tool for high-throughput screen data analysis
title_full_unstemmed	CrossCheck: an open-source web tool for high-throughput screen data analysis
title_sort	crosscheck: an open-source web tool for high-throughput screen data analysis
publisher	Nature Portfolio
publishDate	2017
url	https://doaj.org/article/b760f2eb256a480985d2a92af79cbab3
work_keys_str_mv	AT jamilnajafov crosscheckanopensourcewebtoolforhighthroughputscreendataanalysis AT ayaznajafov crosscheckanopensourcewebtoolforhighthroughputscreendataanalysis
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CrossCheck: an open-source web tool for high-throughput screen data analysis

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