{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,30]],"date-time":"2026-07-30T18:21:09Z","timestamp":1785435669719,"version":"3.56.0"},"reference-count":40,"publisher":"International Union of Crystallography (IUCr)","issue":"6","license":[{"start":{"date-parts":[[2022,11,21]],"date-time":"2022-11-21T00:00:00Z","timestamp":1668988800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/legalcode"},{"start":{"date-parts":[[2022,11,21]],"date-time":"2022-11-21T00:00:00Z","timestamp":1668988800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/legalcode"}],"funder":[{"DOI":"10.13039\/100000049","name":"National Institutes of Health, National Institute on Aging","doi-asserted-by":"publisher","award":["R21-AG068972"],"award-info":[{"award-number":["R21-AG068972"]}],"id":[{"id":"10.13039\/100000049","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000049","name":"National Institutes of Health, National Institute on Aging","doi-asserted-by":"publisher","award":["P30-AG-062421"],"award-info":[{"award-number":["P30-AG-062421"]}],"id":[{"id":"10.13039\/100000049","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000057","name":"National Institutes of Health, National Institute of General Medical Sciences","doi-asserted-by":"publisher","award":["P30GM133893"],"award-info":[{"award-number":["P30GM133893"]}],"id":[{"id":"10.13039\/100000057","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000015","name":"U.S. Department of Energy, Office of Biological and Environmental Science","doi-asserted-by":"publisher","award":["KP1605010"],"award-info":[{"award-number":["KP1605010"]}],"id":[{"id":"10.13039\/100000015","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["iucr.org","wiley.com","iucrj.org"],"crossmark-restriction":true},"short-container-title":["J Appl Crystallogr","J Appl Cryst"],"accepted":{"date-parts":[[2022,10,11]]},"published-print":{"date-parts":[[2022,12,1]]},"abstract":"<jats:p>Small-angle X-ray scattering (SAXS) from fibrils embedded in a fixed, thin section of tissue includes contributions from the fibrils, the polymeric matrix surrounding the fibrils, other constituents of the tissue, and cross-terms due to the spatial correlation between fibrils and neighboring molecules. This complex mixture severely limits the amount of information that can be extracted from scattering studies. However, availability of micro- and nano-beams has made the measurement of scattering from very small volumes possible, which, in some cases, may be dominated by a single fibrillar constituent. In such cases, information about the predominant species may be accessible. Nevertheless, even in these cases, the correlations between the positions of fibrils and other constituents have a significant impact on the observed scattering. Here, strategies are proposed to extract partial information about fibril structure and tissue organization on the basis of SAXS from samples of this type. It is shown that the spatial correlation function of the fibril in the direction perpendicular to the fibril axis can be computed and contains information about the predominant fibril structure and the organization of the surrounding tissue matrix. This has significant advantages over approaches based on techniques developed for X-ray solution scattering. Examples of correlation calculations in different types of samples are given to demonstrate the information that can be obtained from these measurements.<\/jats:p>","DOI":"10.1107\/s1600576722009955","type":"journal-article","created":{"date-parts":[[2022,11,3]],"date-time":"2022-11-03T09:48:46Z","timestamp":1667468926000},"page":"1562-1571","update-policy":"https:\/\/doi.org\/10.1107\/cm_01","source":"Crossref","is-referenced-by-count":2,"title":["Small-angle X-ray microdiffraction from fibrils embedded in tissue thin sections"],"prefix":"10.1107","volume":"55","author":[{"given":"Prakash","family":"Nepal","sequence":"first","affiliation":[{"id":[{"id":"https:\/\/ror.org\/04t5xt781","id-type":"ROR","asserted-by":"publisher"}],"department":["Department of Bioengineering"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Abdullah","family":"Al Bashit","sequence":"additional","affiliation":[{"id":[{"id":"https:\/\/ror.org\/04t5xt781","id-type":"ROR","asserted-by":"publisher"}],"department":["Department of Electrical and Computer Engineering"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1057-9194","authenticated-orcid":true,"given":"Lin","family":"Yang","sequence":"additional","affiliation":[{"id":[{"id":"https:\/\/ror.org\/02ex6cf31","id-type":"ROR","asserted-by":"publisher"}],"department":["National Synchrotron Light Source II"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lee","family":"Makowski","sequence":"additional","affiliation":[{"id":[{"id":"https:\/\/ror.org\/04t5xt781","id-type":"ROR","asserted-by":"publisher"}],"department":["Department of Bioengineering"]}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"329","published-online":{"date-parts":[[2022,11,21]]},"reference":[{"key":"fs5212_bb1","first-page":"283","volume":"5","author":"Airy","year":"1835","journal-title":"Trans. Camb. Philos. Soc."},{"key":"fs5212_bb2","doi-asserted-by":"crossref","first-page":"909542","DOI":"10.3389\/fnins.2022.909542","volume":"16","author":"Bashit","year":"2022","journal-title":"Front. Neurosci."},{"key":"fs5212_bb3","unstructured":"Caspar, D. L. D. (1955). PhD thesis, Yale University, USA."},{"key":"fs5212_bb4","doi-asserted-by":"crossref","first-page":"1009","DOI":"10.1093\/brain\/awv006","volume":"138","author":"Cohen","year":"2015","journal-title":"Brain"},{"key":"fs5212_bb5","doi-asserted-by":"crossref","unstructured":"Costa, L., Andriatis, A., Brennich, M., Teulon, J.-M., Chen, S. W., Pellequer, J.-L. & Round, A. (2016). BMC Struct. Biol. 16, 18.","DOI":"10.1186\/s12900-016-0068-2"},{"key":"fs5212_bb7","doi-asserted-by":"crossref","first-page":"277","DOI":"10.1016\/S0065-3233(08)60627-0","volume":"2","author":"French","year":"1945","journal-title":"Adv. Protein Chem."},{"key":"fs5212_bb8","doi-asserted-by":"crossref","first-page":"577","DOI":"10.1107\/S0021889880012794","volume":"13","author":"Glatter","year":"1980","journal-title":"J. Appl. Cryst."},{"key":"fs5212_bb9","unstructured":"Glatter, O. (2018). Scattering Methods and Their Application in Colloid and Interface Science. Amsterdam: Elsevier."},{"key":"fs5212_bb10","unstructured":"Glatter, O. & Kratky, O. (1982). Small Angle X-ray Scattering. London: Academic Press."},{"key":"fs5212_bb11","doi-asserted-by":"crossref","first-page":"116","DOI":"10.1126\/science.aao2825","volume":"358","author":"Gremer","year":"2017","journal-title":"Science"},{"key":"fs5212_bb12","unstructured":"Guinier, A. & Fournet, G. (1955). Small Angle Scattering of X-rays. New York, London: John Willey & Sons\/Chapman and Hall."},{"key":"fs5212_bb13","doi-asserted-by":"crossref","first-page":"083903","DOI":"10.1063\/1.3089360","volume":"94","author":"Hong","year":"2009","journal-title":"Appl. Phys. Lett."},{"key":"fs5212_bb14","doi-asserted-by":"crossref","first-page":"147","DOI":"10.1017\/S0033583503003871","volume":"36","author":"Koch","year":"2003","journal-title":"Q. Rev. Biophys."},{"key":"fs5212_bb15","doi-asserted-by":"crossref","first-page":"105","DOI":"10.1016\/S0079-6107(63)80015-2","volume":"13","author":"Kratky","year":"1963","journal-title":"Prog. Biophys. Mol. Biol."},{"key":"fs5212_bb16","first-page":"133","volume":"2","author":"Kratky","year":"1948","journal-title":"Acta Phys. Austriaca"},{"key":"fs5212_bb17","doi-asserted-by":"crossref","first-page":"882","DOI":"10.1107\/S1399004715001674","volume":"71","author":"Langkilde","year":"2015","journal-title":"Acta Cryst. D"},{"key":"fs5212_bb18","doi-asserted-by":"crossref","unstructured":"Lattman, E. E., Grant, T. D. & Snell, E. H. (2018). Biological Small Angle Scattering: Theory and Practice. Oxford University Press.","DOI":"10.1093\/oso\/9780199670871.001.0001"},{"key":"fs5212_bb19","doi-asserted-by":"crossref","first-page":"226","DOI":"10.1016\/j.jsb.2012.05.011","volume":"180","author":"Liu","year":"2012","journal-title":"J. Struct. Biol."},{"key":"fs5212_bb20","doi-asserted-by":"crossref","first-page":"33079","DOI":"10.1038\/srep33079","volume":"6","author":"Liu","year":"2016","journal-title":"Sci. Rep."},{"key":"fs5212_bb21","doi-asserted-by":"crossref","first-page":"273","DOI":"10.1107\/S002188987801331X","volume":"11","author":"Makowski","year":"1978","journal-title":"J. Appl. Cryst."},{"key":"fs5212_bb22","doi-asserted-by":"crossref","first-page":"869","DOI":"10.1016\/j.jmb.2008.11.005","volume":"386","author":"Meinhardt","year":"2009","journal-title":"J. Mol. Biol."},{"key":"fs5212_bb23","doi-asserted-by":"crossref","first-page":"eabh1448","DOI":"10.1126\/sciadv.abh1448","volume":"7","author":"Meisl","year":"2021","journal-title":"Sci. Adv."},{"key":"fs5212_bb24","doi-asserted-by":"crossref","first-page":"785","DOI":"10.1016\/S1474-4422(11)70156-9","volume":"10","author":"Murray","year":"2011","journal-title":"Lancet Neurol."},{"key":"fs5212_bb25","doi-asserted-by":"crossref","first-page":"195426","DOI":"10.1103\/PhysRevB.97.195426","volume":"97","author":"Nepal","year":"2018","journal-title":"Phys. Rev. B"},{"key":"fs5212_bb26","doi-asserted-by":"crossref","first-page":"272","DOI":"10.1107\/S0365110X5200071X","volume":"5","author":"Oster","year":"1952","journal-title":"Acta Cryst."},{"key":"fs5212_bb27","doi-asserted-by":"crossref","first-page":"134114","DOI":"10.1063\/1.3099611","volume":"130","author":"Park","year":"2009","journal-title":"J. Chem. Phys."},{"key":"fs5212_bb28","doi-asserted-by":"crossref","first-page":"225","DOI":"10.1146\/annurev-biophys-042910-155349","volume":"40","author":"Pollack","year":"2011","journal-title":"Annu. Rev. Biophys."},{"key":"fs5212_bb29","first-page":"255","volume":"2","author":"Porod","year":"1948","journal-title":"Acta Phys. Austriaca"},{"key":"fs5212_bb30","doi-asserted-by":"crossref","first-page":"191","DOI":"10.1017\/S0033583507004635","volume":"40","author":"Putnam","year":"2007","journal-title":"Q. Rev. Biophys."},{"key":"fs5212_bb31","doi-asserted-by":"crossref","first-page":"217","DOI":"10.1038\/nature20814","volume":"541","author":"Qiang","year":"2017","journal-title":"Nature"},{"key":"fs5212_bb32","doi-asserted-by":"crossref","first-page":"248","DOI":"10.1016\/j.jsb.2017.05.003","volume":"200","author":"Roig-Solvas","year":"2017","journal-title":"J. Struct. Biol."},{"key":"fs5212_bb36","doi-asserted-by":"crossref","first-page":"495","DOI":"10.1107\/S0021889892001663","volume":"25","author":"Svergun","year":"1992","journal-title":"J. Appl. Cryst."},{"key":"fs5212_bb33","doi-asserted-by":"crossref","first-page":"768","DOI":"10.1107\/S0021889895007047","volume":"28","author":"Svergun","year":"1995","journal-title":"J. Appl. Cryst."},{"key":"fs5212_bb34","doi-asserted-by":"crossref","first-page":"654","DOI":"10.1016\/S0959-440X(02)00363-9","volume":"12","author":"Svergun","year":"2002","journal-title":"Curr. Opin. Struct. Biol."},{"key":"fs5212_bb37","doi-asserted-by":"crossref","first-page":"1735","DOI":"10.1088\/0034-4885\/66\/10\/R05","volume":"66","author":"Svergun","year":"2003","journal-title":"Rep. Prog. Phys."},{"key":"fs5212_bb35","doi-asserted-by":"crossref","first-page":"736","DOI":"10.1107\/S0108767391006414","volume":"47","author":"Svergun","year":"1991","journal-title":"Acta Cryst. A"},{"key":"fs5212_bb38","doi-asserted-by":"crossref","first-page":"1016","DOI":"10.1097\/00000478-200007000-00014","volume":"24","author":"Werner","year":"2000","journal-title":"Am. J. Surg. Pathol."},{"key":"fs5212_bb39","doi-asserted-by":"crossref","first-page":"804","DOI":"10.1107\/S1600577520002362","volume":"27","author":"Yang","year":"2020","journal-title":"J. Synchrotron Rad."},{"key":"fs5212_bb40","doi-asserted-by":"crossref","first-page":"540","DOI":"10.1107\/S1600577521013266","volume":"29","author":"Yang","year":"2022","journal-title":"J. Synchrotron Rad."},{"key":"fs5212_bb41","doi-asserted-by":"crossref","first-page":"e0116491","DOI":"10.1371\/journal.pone.0116491","volume":"10","author":"Zohdi","year":"2015","journal-title":"PLoS One"}],"container-title":["Journal of Applied Crystallography"],"original-title":[],"link":[{"URL":"https:\/\/journals.iucr.org\/j\/issues\/2022\/06\/00\/fs5212\/fs5212.pdf","content-type":"unspecified","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/journals.iucr.org\/j\/issues\/2022\/06\/00\/fs5212\/fs5212.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,1,13]],"date-time":"2025-01-13T06:12:15Z","timestamp":1736748735000},"score":1,"resource":{"primary":{"URL":"https:\/\/journals.iucr.org\/paper?S1600576722009955"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2022,11,21]]},"references-count":40,"journal-issue":{"issue":"6","published-online":{"date-parts":[[2022,12]]}},"alternative-id":["S1600576722009955"],"URL":"https:\/\/doi.org\/10.1107\/s1600576722009955","relation":{"is-supplemented-by":[{"id-type":"doi","id":"10.1107\/S1600576722009955\/fs5212sup1.pdf","asserted-by":"subject"}],"has-preprint":[{"id-type":"doi","id":"10.1101\/2022.05.10.491381","asserted-by":"object"}]},"ISSN":["1600-5767"],"issn-type":[{"value":"1600-5767","type":"electronic"}],"subject":[],"published":{"date-parts":[[2022,11,21]]},"assertion":[{"value":"Journal of Applied Crystallography","order":0,"name":"journal","label":"Publication","explanation":{"URL":"https:\/\/journals.iucr.org\/j"},"group":{"name":"general","label":"General"}},{"value":"research papers","order":1,"name":"content_type","label":"Content type","explanation":{"URL":"https:\/\/journals.iucr.org\/j\/services\/notesforauthors.html"},"group":{"name":"general","label":"General"}},{"value":"Available","URL":"https:\/\/scripts.iucr.org\/cgi-bin\/citedin?fs5212","order":2,"name":"article_metrics","label":"Article metrics","group":{"name":"general","label":"General"}},{"value":"Yes","order":0,"name":"peer_reviewed","label":"Peer reviewed","group":{"name":"peer_review","label":"Peer review"}},{"value":"Single blind","order":1,"name":"review_process","label":"Review process","group":{"name":"peer_review","label":"Peer review"}},{"value":"8 May 2022","order":0,"name":"received","label":"Received","group":{"name":"publication_history","label":"Publication history"}},{"value":"11 October 2022","order":1,"name":"accepted","label":"Accepted","group":{"name":"publication_history","label":"Publication history"}},{"value":"21 November 2022","order":2,"name":"published_online","label":"Published online","group":{"name":"publication_history","label":"Publication history"}},{"value":"This article has supporting information","name":"supplementary_materials","label":"Supplementary materials","explanation":{"URL":"https:\/\/scripts.iucr.org\/cgi-bin\/sendsup?fs5212"}},{"value":"\u00a9 2022 Prakash Nepal\n                      et al.","order":0,"name":"copyright","label":"Copyright","explanation":{"URL":"https:\/\/journals.iucr.org\/services\/copyrightpolicy.html"},"group":{"name":"copyright_and_licencing","label":"Copyright and licencing"}},{"value":"Creative Commons Attribution (CC-BY)","order":1,"name":"license","label":"Licence","explanation":{"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/legalcode"},"group":{"name":"copyright_and_licencing","label":"Copyright and licencing"}}]}}