CrossQuery: a web tool for easy associative querying of transcriptome data.

Enormous amounts of data are being generated by modern methods such as transcriptome or exome sequencing and microarray profiling. Primary analyses such as quality control, normalization, statistics and mapping are highly complex and need to be performed by specialists. Thereafter, results are hande...

Descripción completa

Guardado en:

Detalles Bibliográficos
Autores principales:	Toni U Wagner, Andreas Fischer, Eva C Thoma, Manfred Schartl
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2011
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/15b07f9e2ae6498a92f359627bfa55b3
Etiquetas:	Agregar Etiqueta Sin Etiquetas, Sea el primero en etiquetar este registro!

id	oai:doaj.org-article:15b07f9e2ae6498a92f359627bfa55b3
record_format	dspace
spelling	oai:doaj.org-article:15b07f9e2ae6498a92f359627bfa55b32021-11-18T07:32:29ZCrossQuery: a web tool for easy associative querying of transcriptome data.1932-620310.1371/journal.pone.0028990https://doaj.org/article/15b07f9e2ae6498a92f359627bfa55b32011-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/22174941/pdf/?tool=EBIhttps://doaj.org/toc/1932-6203Enormous amounts of data are being generated by modern methods such as transcriptome or exome sequencing and microarray profiling. Primary analyses such as quality control, normalization, statistics and mapping are highly complex and need to be performed by specialists. Thereafter, results are handed back to biomedical researchers, who are then confronted with complicated data lists. For rather simple tasks like data filtering, sorting and cross-association there is a need for new tools which can be used by non-specialists. Here, we describe CrossQuery, a web tool that enables straight forward, simple syntax queries to be executed on transcriptome sequencing and microarray datasets. We provide deep-sequencing data sets of stem cell lines derived from the model fish Medaka and microarray data of human endothelial cells. In the example datasets provided, mRNA expression levels, gene, transcript and sample identification numbers, GO-terms and gene descriptions can be freely correlated, filtered and sorted. Queries can be saved for later reuse and results can be exported to standard formats that allow copy-and-paste to all widespread data visualization tools such as Microsoft Excel. CrossQuery enables researchers to quickly and freely work with transcriptome and microarray data sets requiring only minimal computer skills. Furthermore, CrossQuery allows growing association of multiple datasets as long as at least one common point of correlated information, such as transcript identification numbers or GO-terms, is shared between samples. For advanced users, the object-oriented plug-in and event-driven code design of both server-side and client-side scripts allow easy addition of new features, data sources and data types.Toni U WagnerAndreas FischerEva C ThomaManfred SchartlPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 6, Iss 12, p e28990 (2011)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Toni U Wagner Andreas Fischer Eva C Thoma Manfred Schartl CrossQuery: a web tool for easy associative querying of transcriptome data.
description	Enormous amounts of data are being generated by modern methods such as transcriptome or exome sequencing and microarray profiling. Primary analyses such as quality control, normalization, statistics and mapping are highly complex and need to be performed by specialists. Thereafter, results are handed back to biomedical researchers, who are then confronted with complicated data lists. For rather simple tasks like data filtering, sorting and cross-association there is a need for new tools which can be used by non-specialists. Here, we describe CrossQuery, a web tool that enables straight forward, simple syntax queries to be executed on transcriptome sequencing and microarray datasets. We provide deep-sequencing data sets of stem cell lines derived from the model fish Medaka and microarray data of human endothelial cells. In the example datasets provided, mRNA expression levels, gene, transcript and sample identification numbers, GO-terms and gene descriptions can be freely correlated, filtered and sorted. Queries can be saved for later reuse and results can be exported to standard formats that allow copy-and-paste to all widespread data visualization tools such as Microsoft Excel. CrossQuery enables researchers to quickly and freely work with transcriptome and microarray data sets requiring only minimal computer skills. Furthermore, CrossQuery allows growing association of multiple datasets as long as at least one common point of correlated information, such as transcript identification numbers or GO-terms, is shared between samples. For advanced users, the object-oriented plug-in and event-driven code design of both server-side and client-side scripts allow easy addition of new features, data sources and data types.
format	article
author	Toni U Wagner Andreas Fischer Eva C Thoma Manfred Schartl
author_facet	Toni U Wagner Andreas Fischer Eva C Thoma Manfred Schartl
author_sort	Toni U Wagner
title	CrossQuery: a web tool for easy associative querying of transcriptome data.
title_short	CrossQuery: a web tool for easy associative querying of transcriptome data.
title_full	CrossQuery: a web tool for easy associative querying of transcriptome data.
title_fullStr	CrossQuery: a web tool for easy associative querying of transcriptome data.
title_full_unstemmed	CrossQuery: a web tool for easy associative querying of transcriptome data.
title_sort	crossquery: a web tool for easy associative querying of transcriptome data.
publisher	Public Library of Science (PLoS)
publishDate	2011
url	https://doaj.org/article/15b07f9e2ae6498a92f359627bfa55b3
work_keys_str_mv	AT toniuwagner crossqueryawebtoolforeasyassociativequeryingoftranscriptomedata AT andreasfischer crossqueryawebtoolforeasyassociativequeryingoftranscriptomedata AT evacthoma crossqueryawebtoolforeasyassociativequeryingoftranscriptomedata AT manfredschartl crossqueryawebtoolforeasyassociativequeryingoftranscriptomedata
_version_	1718423270127042560

CrossQuery: a web tool for easy associative querying of transcriptome data.

Ejemplares similares