CarbArrayART

Detalhes bibliográficos
Autor(a) principal: Akune, Yukie
Data de Publicação: 2022
Outros Autores: Arpinar, Sena, Silva, Lisete M., Palma, Angelina S., Tajadura-Ortega, Virginia, Aoki-Kinoshita, Kiyoko F., Ranzinger, Rene, Liu, Yan, Feizi, Ten
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
Texto Completo: http://hdl.handle.net/10362/151031
Resumo: Publisher Copyright: © 2022 The Author(s) 2022. Published by Oxford University Press. This project is supported by Wellcome Trust Biomedical Resource grants (WT099197/Z/12/Z, 108430/Z/15/Z and 218304/Z/19/Z); March of Dimes European Prematurity Research Centre grant 22-FY18-82 and NIH Commons Fund 1U01GM125267-01.
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spelling CarbArrayARTA new software tool for carbohydrate microarray data storage, processing, presentation, and reportingglycan microarray data managementglycan microarray data presentationglycan microarray data storageglycan microarray softwareglycoinformaticsBiochemistryPublisher Copyright: © 2022 The Author(s) 2022. Published by Oxford University Press. This project is supported by Wellcome Trust Biomedical Resource grants (WT099197/Z/12/Z, 108430/Z/15/Z and 218304/Z/19/Z); March of Dimes European Prematurity Research Centre grant 22-FY18-82 and NIH Commons Fund 1U01GM125267-01.Glycan microarrays are essential tools in glycobiology and are being widely used for assignment of glycan ligands in diverse glycan recognition systems. We have developed a new software, called Carbohydrate microArray Analysis and Reporting Tool (CarbArrayART), to address the need for a distributable application for glycan microarray data management. The main features of CarbArrayART include: (i) Storage of quantified array data from different array layouts with scan data and array-specific metadata, such as lists of arrayed glycans, array geometry, information on glycan-binding samples, and experimental protocols. (ii) Presentation of microarray data as charts, tables, and heatmaps derived from the average fluorescence intensity values that are calculated based on the imaging scan data and array geometry, as well as filtering and sorting functions according to monosaccharide content and glycan sequences. (iii) Data export for reporting in Word, PDF, and Excel formats, together with metadata that are compliant with the guidelines of MIRAGE (Minimum Information Required for A Glycomics Experiment). CarbArrayART is designed for routine use in recording, storage, and management of any slide-based glycan microarray experiment. In conjunction with the MIRAGE guidelines, CarbArrayART addresses issues that are critical for glycobiology, namely, clarity of data for evaluation of reproducibility and validity.UCIBIO - Applied Molecular Biosciences UnitDQ - Departamento de QuímicaRUNAkune, YukieArpinar, SenaSilva, Lisete M.Palma, Angelina S.Tajadura-Ortega, VirginiaAoki-Kinoshita, Kiyoko F.Ranzinger, ReneLiu, YanFeizi, Ten2023-03-21T22:28:39Z2022-072022-07-01T00:00:00Zinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/article4application/pdfhttp://hdl.handle.net/10362/151031engAkune, Y., Arpinar, S., Silva, L. M., Palma, A. S., Tajadura-Ortega, V., Aoki-Kinoshita, K. F., Ranzinger, R., Liu, Y., & Feizi, T. (2022). CarbArrayART: A new software tool for carbohydrate microarray data storage, processing, presentation, and reporting. Glycobiology, 32(7), 552-555. https://doi.org/10.1093/glycob/cwac0180959-6658PURE: 56525431https://doi.org/10.1093/glycob/cwac018info:eu-repo/semantics/openAccessreponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãoinstacron:RCAAP2024-03-11T05:33:28Zoai:run.unl.pt:10362/151031Portal AgregadorONGhttps://www.rcaap.pt/oai/openaireopendoar:71602024-03-20T03:54:25.960154Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãofalse
dc.title.none.fl_str_mv CarbArrayART
A new software tool for carbohydrate microarray data storage, processing, presentation, and reporting
title CarbArrayART
spellingShingle CarbArrayART
Akune, Yukie
glycan microarray data management
glycan microarray data presentation
glycan microarray data storage
glycan microarray software
glycoinformatics
Biochemistry
title_short CarbArrayART
title_full CarbArrayART
title_fullStr CarbArrayART
title_full_unstemmed CarbArrayART
title_sort CarbArrayART
author Akune, Yukie
author_facet Akune, Yukie
Arpinar, Sena
Silva, Lisete M.
Palma, Angelina S.
Tajadura-Ortega, Virginia
Aoki-Kinoshita, Kiyoko F.
Ranzinger, Rene
Liu, Yan
Feizi, Ten
author_role author
author2 Arpinar, Sena
Silva, Lisete M.
Palma, Angelina S.
Tajadura-Ortega, Virginia
Aoki-Kinoshita, Kiyoko F.
Ranzinger, Rene
Liu, Yan
Feizi, Ten
author2_role author
author
author
author
author
author
author
author
dc.contributor.none.fl_str_mv UCIBIO - Applied Molecular Biosciences Unit
DQ - Departamento de Química
RUN
dc.contributor.author.fl_str_mv Akune, Yukie
Arpinar, Sena
Silva, Lisete M.
Palma, Angelina S.
Tajadura-Ortega, Virginia
Aoki-Kinoshita, Kiyoko F.
Ranzinger, Rene
Liu, Yan
Feizi, Ten
dc.subject.por.fl_str_mv glycan microarray data management
glycan microarray data presentation
glycan microarray data storage
glycan microarray software
glycoinformatics
Biochemistry
topic glycan microarray data management
glycan microarray data presentation
glycan microarray data storage
glycan microarray software
glycoinformatics
Biochemistry
description Publisher Copyright: © 2022 The Author(s) 2022. Published by Oxford University Press. This project is supported by Wellcome Trust Biomedical Resource grants (WT099197/Z/12/Z, 108430/Z/15/Z and 218304/Z/19/Z); March of Dimes European Prematurity Research Centre grant 22-FY18-82 and NIH Commons Fund 1U01GM125267-01.
publishDate 2022
dc.date.none.fl_str_mv 2022-07
2022-07-01T00:00:00Z
2023-03-21T22:28:39Z
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
dc.type.driver.fl_str_mv info:eu-repo/semantics/article
format article
status_str publishedVersion
dc.identifier.uri.fl_str_mv http://hdl.handle.net/10362/151031
url http://hdl.handle.net/10362/151031
dc.language.iso.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv Akune, Y., Arpinar, S., Silva, L. M., Palma, A. S., Tajadura-Ortega, V., Aoki-Kinoshita, K. F., Ranzinger, R., Liu, Y., & Feizi, T. (2022). CarbArrayART: A new software tool for carbohydrate microarray data storage, processing, presentation, and reporting. Glycobiology, 32(7), 552-555. https://doi.org/10.1093/glycob/cwac018
0959-6658
PURE: 56525431
https://doi.org/10.1093/glycob/cwac018
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv 4
application/pdf
dc.source.none.fl_str_mv reponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
instacron:RCAAP
instname_str Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
instacron_str RCAAP
institution RCAAP
reponame_str Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
collection Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
repository.name.fl_str_mv Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
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