{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,7,30]],"date-time":"2025-07-30T14:04:27Z","timestamp":1753884267735,"version":"3.41.2"},"reference-count":42,"publisher":"The Company of Biologists","issue":"3","license":[{"start":{"date-parts":[[2025,2,7]],"date-time":"2025-02-07T00:00:00Z","timestamp":1738886400000},"content-version":"vor","delay-in-days":6,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0"}],"funder":[{"name":"Austrian Science Fund","award":["10.55776\/F83","10.55776\/COE14"],"award-info":[{"award-number":["10.55776\/F83","10.55776\/COE14"]}]},{"DOI":"10.13039\/501100009057","name":"University of Graz","doi-asserted-by":"crossref","id":[{"id":"10.13039\/501100009057","id-type":"DOI","asserted-by":"crossref"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2025,2,1]]},"abstract":"<jats:title>ABSTRACT<\/jats:title>\n               <jats:p>White adipose tissue (WAT) comprises a plethora of cell types beyond adipocytes forming a regulatory network that ensures systemic energy homeostasis. Intertissue communication is facilitated by metabolites and signaling molecules that are spread by vasculature and nerves. Previous works have indicated that WAT responds to environmental cues by adapting the abundance of these \u2018communication routes\u2019; however, the high intra-tissue heterogeneity questions the informative value of bulk or single-cell analyses and underscores the necessity of whole-mount imaging. The applicability of whole-mount WAT-imaging is currently limited by two factors \u2013 (1) methanol-based tissue clearing protocols restrict the usable antibody portfolio to methanol-resistant antibodies and (2) the vast amounts of data resulting from 3D imaging of whole-tissue samples require high computational expertise and advanced equipment. Here, we present a protocol for whole-mount WAT clearing, overcoming the constraints of antibody-methanol sensitivity. Additionally, we introduce TiNeQuant (for \u2018tissue network quantifier\u2019) a Fiji tool for automated 3D quantification of neuron or vascular network density, which we have made freely available. Given TiNeQuants versatility beyond WAT, it simplifies future efforts studying neuronal or vascular alterations in numerous pathologies.<\/jats:p>","DOI":"10.1242\/jcs.263438","type":"journal-article","created":{"date-parts":[[2025,1,29]],"date-time":"2025-01-29T10:30:14Z","timestamp":1738146614000},"source":"Crossref","is-referenced-by-count":1,"title":["Clearing the path for whole-mount labeling and quantification of neuron and vessel density in adipose tissue"],"prefix":"10.1242","volume":"138","author":[{"given":"Thomas","family":"Rauchenwald","sequence":"first","affiliation":[{"name":"Institute of Molecular Biosciences, University of Graz 1 , 8010 Graz ,","place":["Austria"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Pia","family":"Benedikt-K\u00fchnast","sequence":"additional","affiliation":[{"name":"Institute for Diabetes and Cancer, Helmholtz Center Munich 2 , 85764 Neuherberg ,","place":["Germany"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Sandra","family":"Eder","sequence":"additional","affiliation":[{"name":"Institute of Molecular Biosciences, University of Graz 1 , 8010 Graz ,","place":["Austria"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Gernot F.","family":"Grabner","sequence":"additional","affiliation":[{"name":"Gottfried Schatz Research Center, Molecular Biology and Biochemistry, Medical University of Graz 3 , 8010 Graz ,","place":["Austria"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Sebastian","family":"Forstreiter","sequence":"additional","affiliation":[{"name":"Institute of Molecular Biosciences, University of Graz 1 , 8010 Graz ,","place":["Austria"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Michaela","family":"Lang","sequence":"additional","affiliation":[{"name":"Institute of Molecular Biosciences, University of Graz 1 , 8010 Graz ,","place":["Austria"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Roko","family":"Sango","sequence":"additional","affiliation":[{"name":"Centre for Pathobiochemistry and Genetics, Medical University of Vienna 4 , 1090 Vienna ,","place":["Austria"]},{"name":"Centre for Microbiology and Environmental Systems\u2019 Science, University of Vienna 5 , 1030 Vienna ,","place":["Austria"]},{"name":"Doctoral School in Microbiology and Environmental Science, University of Vienna 6 , 1030 Vienna ,","place":["Austria"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Tobias","family":"Eisenberg","sequence":"additional","affiliation":[{"name":"Institute of Molecular Biosciences, University of Graz 1 , 8010 Graz ,","place":["Austria"]},{"name":"Field of Excellence BioHealth - University of Graz 7 , 8010 Graz ,","place":["Austria"]},{"name":"BioTechMed-Graz 8 , 8010 Graz ,","place":["Austria"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Thomas","family":"Rattei","sequence":"additional","affiliation":[{"name":"Centre for Microbiology and Environmental Systems\u2019 Science, University of Vienna 5 , 1030 Vienna ,","place":["Austria"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Arvand","family":"Haschemi","sequence":"additional","affiliation":[{"name":"Medical University of Vienna 9 Department of Laboratory Medicine (KILM) , , 1090 Vienna ,","place":["Austria"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1583-6092","authenticated-orcid":false,"given":"Heimo","family":"Wolinski","sequence":"additional","affiliation":[{"name":"Institute of Molecular Biosciences, University of Graz 1 , 8010 Graz ,","place":["Austria"]},{"name":"Field of Excellence BioHealth - University of Graz 7 , 8010 Graz ,","place":["Austria"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3419-1007","authenticated-orcid":false,"given":"Martina","family":"Schweiger","sequence":"additional","affiliation":[{"name":"Institute of Molecular Biosciences, University of Graz 1 , 8010 Graz ,","place":["Austria"]},{"name":"Field of Excellence BioHealth - University of Graz 7 , 8010 Graz ,","place":["Austria"]},{"name":"BioTechMed-Graz 8 , 8010 Graz ,","place":["Austria"]}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"237","published-online":{"date-parts":[[2025,2,7]]},"reference":[{"key":"2025020709502061500_JCS263438C1","doi-asserted-by":"publisher","DOI":"10.48550\/arXiv.1605.08695","article-title":"TensorFlow: a system for large-scale machine learning","author":"Abadi","year":"2016"},{"key":"2025020709502061500_JCS263438C2","doi-asserted-by":"publisher","first-page":"691","DOI":"10.1038\/s41574-023-00893-6","article-title":"The evolving functions of the vasculature in regulating adipose tissue biology in health and obesity","volume":"19","author":"Alzaim","year":"2023","journal-title":"Nat. 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