000078180 001__ 78180 000078180 005__ 20201116174353.0 000078180 0247_ $$2doi$$a10.1371/journal.pcbi.1006691 000078180 0248_ $$2sideral$$a110934 000078180 037__ $$aART-2019-110934 000078180 041__ $$aeng 000078180 100__ $$0(orcid)0000-0003-0389-2422$$aAlquézar-Baeta, C.$$uUniversidad de Zaragoza 000078180 245__ $$aOpenCASA: A new open-source and scalable tool for sperm quality analysis 000078180 260__ $$c2019 000078180 5060_ $$aAccess copy available to the general public$$fUnrestricted 000078180 5203_ $$aIn the field of assisted reproductive techniques (ART), computer-assisted sperm analysis (CASA) systems have proved their utility and potential for assessing sperm quality, improving the prediction of the fertility potential of a seminal dose. Although most laboratories and scientific centers use commercial systems, in the recent years certain free and open-source alternatives have emerged that can reduce the costs that research groups have to face. However, these open-source alternatives cannot analyze sperm kinetic responses to different stimuli, such as chemotaxis, thermotaxis or rheotaxis. In addition, the programs released to date have not usually been designed to encourage the scalability and the continuity of software development. We have developed an open-source CASA software, called OpenCASA, which allows users to study three classical sperm quality parameters: motility, morphometry and membrane integrity (viability) and offers the possibility of analyzing the guided movement response of spermatozoa to different stimuli (useful for chemotaxis, thermotaxis or rheotaxis studies) or different motile cells such as bacteria, using a single software. This software has been released in a Version Control System at Github. This platform will allow researchers not only to download the software but also to be involved in and contribute to further developments. Additionally, a Google group has been created to allow the research community to interact and discuss OpenCASA. For validation of the OpenCASA software, we analysed different simulated sperm populations (for chemotaxis module) and evaluated 36 ejaculates obtained from 12 fertile rams using other sperm analysis systems (for motility, membrane integrity and morphology modules). The results were compared with those obtained by Open-CASA using the Pearson''s correlation and Bland-Altman tests, obtaining a high level of correlation in all parameters and a good agreement between the different used methods and the OpenCASA. With this work, we propose an open-source project oriented to the development of a new software application for sperm quality analysis. This proposed software will use a minimally centralized infrastructure to allow the continued development of its modules by the research community. 000078180 536__ $$9info:eu-repo/grantAgreement/ES/DGA/A26$$9info:eu-repo/grantAgreement/ES/DGA-FSE/A40$$9info:eu-repo/grantAgreement/ES/MINECO/BES-2015-072034$$9info:eu-repo/grantAgreement/ES/MINECO-CICYT-FEDER/AGL2014-57863-R$$9info:eu-repo/grantAgreement/ES/MINECO-CICYT-FEDER/AGL2017-8503-R 000078180 540__ $$9info:eu-repo/semantics/openAccess$$aby$$uhttp://creativecommons.org/licenses/by/3.0/es/ 000078180 590__ $$a4.7$$b2019 000078180 592__ $$a2.91$$b2019 000078180 591__ $$aMATHEMATICAL & COMPUTATIONAL BIOLOGY$$b6 / 59 = 0.102$$c2019$$dQ1$$eT1 000078180 593__ $$aCellular and Molecular Neuroscience$$c2019$$dQ1 000078180 591__ $$aBIOCHEMICAL RESEARCH METHODS$$b9 / 77 = 0.117$$c2019$$dQ1$$eT1 000078180 593__ $$aComputational Theory and Mathematics$$c2019$$dQ1 000078180 593__ $$aEcology$$c2019$$dQ1 000078180 593__ $$aMolecular Biology$$c2019$$dQ1 000078180 593__ $$aGenetics$$c2019$$dQ1 000078180 593__ $$aModeling and Simulation$$c2019$$dQ1 000078180 593__ $$aEcology, Evolution, Behavior and Systematics$$c2019$$dQ1 000078180 655_4 $$ainfo:eu-repo/semantics/article$$vinfo:eu-repo/semantics/publishedVersion 000078180 700__ $$0(orcid)0000-0002-1685-6845$$aGimeno-Martos, S.$$uUniversidad de Zaragoza 000078180 700__ $$0(orcid)0000-0001-6733-9373$$aMiguel-Jiménez, S.$$uUniversidad de Zaragoza 000078180 700__ $$0(orcid)0000-0001-8991-325X$$aSantolaria, P.$$uUniversidad de Zaragoza 000078180 700__ $$0(orcid)0000-0001-5316-1703$$aYániz, J.$$uUniversidad de Zaragoza 000078180 700__ $$0(orcid)0000-0003-1228-535X$$aPalacín, I.$$uUniversidad de Zaragoza 000078180 700__ $$0(orcid)0000-0003-1997-4262$$aCasao, A.$$uUniversidad de Zaragoza 000078180 700__ $$0(orcid)0000-0001-9842-6197$$aCebrián-Pérez, J.Á.$$uUniversidad de Zaragoza 000078180 700__ $$0(orcid)0000-0003-1306-8517$$aMuiño-Blanco, T.$$uUniversidad de Zaragoza 000078180 700__ $$0(orcid)0000-0002-2312-6402$$aPérez-Pé, R.$$uUniversidad de Zaragoza 000078180 7102_ $$12006$$2440$$aUniversidad de Zaragoza$$bDpto. Matemáticas$$cÁrea Geometría y Topología 000078180 7102_ $$11002$$2819$$aUniversidad de Zaragoza$$bDpto. Bioq.Biolog.Mol. Celular$$cÁrea Zoología 000078180 7102_ $$12008$$2700$$aUniversidad de Zaragoza$$bDpto. Produc.Animal Cienc.Ali.$$cÁrea Producción Animal 000078180 7102_ $$11002$$2060$$aUniversidad de Zaragoza$$bDpto. Bioq.Biolog.Mol. Celular$$cÁrea Bioquímica y Biolog.Mole. 000078180 773__ $$g15, 1 (2019), e1006691[18 pp]$$pPLoS Comput. Biol.$$tPLoS computational biology$$x1553-734X 000078180 8564_ $$s710004$$uhttps://zaguan.unizar.es/record/78180/files/texto_completo.pdf$$yVersión publicada 000078180 8564_ $$s111464$$uhttps://zaguan.unizar.es/record/78180/files/texto_completo.jpg?subformat=icon$$xicon$$yVersión publicada 000078180 909CO $$ooai:zaguan.unizar.es:78180$$particulos$$pdriver 000078180 951__ $$a2020-11-16-17:42:25 000078180 980__ $$aARTICLE