{"data":{"id":"10.6084/m9.figshare.10257458.v1","type":"dois","attributes":{"doi":"10.6084/m9.figshare.10257458.v1","prefix":"10.6084","suffix":"m9.figshare.10257458.v1","identifiers":[],"alternateIdentifiers":[],"creators":[{"name":"Schürmann, Mirjam","nameType":"Personal","givenName":"Mirjam","familyName":"Schürmann","affiliation":[],"nameIdentifiers":[]},{"name":"Scholze, Jana","nameType":"Personal","givenName":"Jana","familyName":"Scholze","affiliation":[],"nameIdentifiers":[]},{"name":"Müller, Paul","nameType":"Personal","givenName":"Paul","familyName":"Müller","affiliation":[],"nameIdentifiers":[{"schemeUri":"https://orcid.org","nameIdentifier":"https://orcid.org/0000-0002-5734-3130","nameIdentifierScheme":"ORCID"}]},{"name":"Guck, Jochen","nameType":"Personal","givenName":"Jochen","familyName":"Guck","affiliation":[],"nameIdentifiers":[{"schemeUri":"https://orcid.org","nameIdentifier":"https://orcid.org/0000-0002-1453-6119","nameIdentifierScheme":"ORCID"}]},{"name":"Chii J. Chan","affiliation":[],"nameIdentifiers":[]}],"titles":[{"title":"Digital holograms of isolated HL60 cell nuclei"}],"publisher":"figshare","container":{},"publicationYear":2019,"subjects":[{"subject":"Biophysics"},{"subject":"111602 Human Biophysics","subjectScheme":"FOR"},{"subject":"FOS: Basic medicine","schemeUri":"http://www.oecd.org/science/inno/38235147.pdf","subjectScheme":"Fields of Science and Technology (FOS)"},{"subject":"FOS: Basic medicine","subjectScheme":"Fields of Science and Technology (FOS)"}],"contributors":[],"dates":[{"date":"2019-11-05","dateType":"Created"},{"date":"2019-11-05","dateType":"Updated"},{"date":"2019","dateType":"Issued"}],"language":null,"types":{"ris":"DATA","bibtex":"misc","citeproc":"dataset","schemaOrg":"Dataset","resourceType":"Dataset","resourceTypeGeneral":"Dataset"},"relatedIdentifiers":[{"relationType":"IsIdenticalTo","relatedIdentifier":"10.6084/m9.figshare.10257458","relatedIdentifierType":"DOI"}],"relatedItems":[],"sizes":["679795261 Bytes"],"formats":[],"version":null,"rightsList":[{"rights":"Creative Commons Zero v1.0 Universal","rightsUri":"https://creativecommons.org/publicdomain/zero/1.0/legalcode","schemeUri":"https://spdx.org/licenses/","rightsIdentifier":"cc0-1.0","rightsIdentifierScheme":"SPDX"}],"descriptions":[{"description":"\u003cb\u003eDigital holograms of isolated HL60 cell nuclei\u003cbr\u003e\u003c/b\u003e\u003cbr\u003eThese data were originally used by Schürmann et al. [1] for the\u003cbr\u003equantification of the refractive index of isolated HL60 cell nuclei.\u003cbr\u003e\u003cbr\u003e\u003cbr\u003eRaw data\u003cbr\u003eThe data are related to [1] according to the following scheme\u003cbr\u003e(last part before suffix indicates cell cycle stage):\u003cbr\u003e\u003cbr\u003eFigure 5 - 1st measurement:\u003cbr\u003e2014-05-29_DHM_HL60-nuclei-G1.zip\u003cbr\u003e2014-05-29_DHM_HL60-nuclei-G2.zip\u003cbr\u003e2014-05-29_DHM_HL60-nuclei-S.zip\u003cbr\u003e\u003cbr\u003eFigure 5 - 2nd measurement:\u003cbr\u003e2014-07-03_DHM_HL60-nuclei-G1.zip\u003cbr\u003e2014-07-03_DHM_HL60-nuclei-G2.zip\u003cbr\u003e2014-07-03_DHM_HL60-nuclei-S.zip\u003cbr\u003e\u003cbr\u003e\u003cbr\u003eData analysis\u003cbr\u003eData analysis in [1] has been performed largely manual. In [2],\u003cbr\u003ethe analysis has been revisited with DryMass [3] which enables an\u003cbr\u003eautomated data analysis. The .cfg files are DryMass configuration\u003cbr\u003efiles [4], i.e. analysis recipes that allow a complete data analysis\u003cbr\u003efrom scratch. The file \"HL60nuc.cfg\" contains the basic data analysis\u003cbr\u003erecipe. The file \"ignore_ROIs.txt\" contains the ignored regions of\u003cbr\u003einterest for each measurement. The other .cfg files contain the same\u003cbr\u003einformation with default values filled in by DryMass. The analysis\u003cbr\u003ehas been tested with DryMass version 0.10.0.\u003cbr\u003e\u003cbr\u003eTo run an analysis, issue e.g. the following command:\u003cbr\u003e\u003cbr\u003e dm_analyze_sphere -p 2014-05-29_DHM_HL60-nuclei-G1.cfg 2014-05-29_DHM_HL60-nuclei-G1.zip\u003cbr\u003e\u003cbr\u003e\u003cbr\u003eReferences\u003cbr\u003e[1] M. Schürmann et al., \"Cell nuclei have lower refractive index and mass density than cytoplasm,\" Journal of Biophotonics 9(10): 1068–1076, 2016. doi:10.1002/jbio.201500273.\u003cbr\u003e[2] P. Müller et al., \"DryMass: handling and analyzing quantitative phase microscopy images of cell-sized objects,\" manuscript in preparation.\u003cbr\u003e[3] https://drymass.readthedocs.io/\u003cbr\u003e[4] https://drymass.readthedocs.io/en/stable/sec_gs_configuration_file.html\u003cbr\u003e\u003cbr\u003e","descriptionType":"Abstract"}],"geoLocations":[],"fundingReferences":[],"xml":"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