000265800 001__ 265800
000265800 005__ 20240112171313.0
000265800 0247_ $$2pmc$$apmc:PMC10626193
000265800 0247_ $$2doi$$a10.1016/j.crmeth.2023.100598
000265800 0247_ $$2pmid$$apmid:37776856
000265800 0247_ $$2altmetric$$aaltmetric:154777242
000265800 037__ $$aDZNE-2023-01044
000265800 041__ $$aEnglish
000265800 082__ $$a610
000265800 1001_ $$0P:(DE-2719)9001303$$aCarraro, Caterina$$b0$$eFirst author
000265800 245__ $$aChromatin accessibility profiling of targeted cell populations with laser capture microdissection coupled to ATAC-seq.
000265800 260__ $$aCambridge, MA$$bCell Press$$c2023
000265800 3367_ $$2DRIVER$$aarticle
000265800 3367_ $$2DataCite$$aOutput Types/Journal article
000265800 3367_ $$0PUB:(DE-HGF)16$$2PUB:(DE-HGF)$$aJournal Article$$bjournal$$mjournal$$s1700230530_11245
000265800 3367_ $$2BibTeX$$aARTICLE
000265800 3367_ $$2ORCID$$aJOURNAL_ARTICLE
000265800 3367_ $$00$$2EndNote$$aJournal Article
000265800 520__ $$aSpatially resolved omics technologies reveal context-dependent cellular regulatory networks in tissues of interest. Beyond transcriptome analysis, information on epigenetic traits and chromatin accessibility can provide further insights on gene regulation in health and disease. Nevertheless, compared to the enormous advancements in spatial transcriptomics technologies, the field of spatial epigenomics is much younger and still underexplored. In this study, we report laser capture microdissection coupled to ATAC-seq (LCM-ATAC-seq) applied to fresh frozen samples for the spatial characterization of chromatin accessibility. We first demonstrate the efficient use of LCM coupled to in situ tagmentation and evaluate its performance as a function of cell number, microdissected areas, and tissue type. Further, we demonstrate its use for the targeted chromatin accessibility analysis of discrete contiguous or scattered cell populations in tissues via single-nuclei capture based on immunostaining for specific cellular markers.
000265800 536__ $$0G:(DE-HGF)POF4-352$$a352 - Disease Mechanisms (POF4-352)$$cPOF4-352$$fPOF IV$$x0
000265800 536__ $$0G:(DE-HGF)POF4-354$$a354 - Disease Prevention and Healthy Aging (POF4-354)$$cPOF4-354$$fPOF IV$$x1
000265800 536__ $$0G:(DE-HGF)POF4-351$$a351 - Brain Function (POF4-351)$$cPOF4-351$$fPOF IV$$x2
000265800 588__ $$aDataset connected to CrossRef, PubMed, , Journals: pub.dzne.de
000265800 650_7 $$2Other$$aATAC-seq
000265800 650_7 $$2Other$$aCP: Molecular biology
000265800 650_7 $$2Other$$achromatin accessibility
000265800 650_7 $$2Other$$aepigenomics
000265800 650_7 $$2Other$$alaser capture microdissection
000265800 650_7 $$2Other$$aspatial omics
000265800 650_7 $$2NLM Chemicals$$aChromatin
000265800 650_2 $$2MeSH$$aChromatin: genetics
000265800 650_2 $$2MeSH$$aChromatin Immunoprecipitation Sequencing
000265800 650_2 $$2MeSH$$aLaser Capture Microdissection
000265800 650_2 $$2MeSH$$aGene Expression Profiling
000265800 650_2 $$2MeSH$$aFreezing
000265800 693__ $$0EXP:(DE-2719)PRECISE-20190321$$5EXP:(DE-2719)PRECISE-20190321$$ePlatform for Single Cell Genomics and Epigenomics at DZNE  University of Bonn$$x0
000265800 693__ $$0EXP:(DE-2719)LMF-20190308$$5EXP:(DE-2719)LMF-20190308$$eLight Microscope Facility (CRFS-LMF) / Bonn$$x1
000265800 7001_ $$0P:(DE-2719)9001512$$aBonaguro, Lorenzo$$b1
000265800 7001_ $$0P:(DE-HGF)0$$aSrinivasa, Rachana$$b2
000265800 7001_ $$0P:(DE-2719)9002579$$avan Uelft, Martina$$b3
000265800 7001_ $$0P:(DE-2719)9001922$$aIsakzai, Victoria$$b4
000265800 7001_ $$0P:(DE-2719)9001500$$aSchulte-Schrepping, Jonas$$b5
000265800 7001_ $$0P:(DE-2719)9001159$$aGambhir, Prerna$$b6
000265800 7001_ $$0P:(DE-2719)9000539$$aElmzzahi, Tarek$$b7
000265800 7001_ $$0P:(DE-2719)9002690$$aMontgomery, Jessica V$$b8
000265800 7001_ $$0P:(DE-2719)9002816$$aHayer, Hannah$$b9
000265800 7001_ $$0P:(DE-2719)9001790$$aLi, Yuanfang$$b10
000265800 7001_ $$0P:(DE-2719)2812165$$aTheis, Heidi$$b11
000265800 7001_ $$0P:(DE-2719)9000840$$aKraut, Michael$$b12
000265800 7001_ $$aMahbubani, Krishnaa T$$b13
000265800 7001_ $$0P:(DE-2719)2812913$$aAschenbrenner, Anna C$$b14
000265800 7001_ $$0P:(DE-2719)2740503$$aKönig, Ireen$$b15
000265800 7001_ $$0P:(DE-2719)2159508$$aFava, Eugenio$$b16
000265800 7001_ $$0P:(DE-2719)2191568$$aFried, Hans-Ulrich$$b17
000265800 7001_ $$0P:(DE-2719)9000846$$aDe Domenico, Elena$$b18
000265800 7001_ $$0P:(DE-2719)2812219$$aBeyer, Marc$$b19
000265800 7001_ $$0P:(DE-2719)2812564$$aSaglam, Adem$$b20
000265800 7001_ $$0P:(DE-2719)2811660$$aSchultze, Joachim L$$b21$$eLast author
000265800 773__ $$0PERI:(DE-600)3091714-1$$a10.1016/j.crmeth.2023.100598$$gVol. 3, no. 10, p. 100598 -$$n10$$p100598$$tCell reports / Methods$$v3$$x2667-2375$$y2023
000265800 8564_ $$uhttps://pub.dzne.de/record/265800/files/DZNE-2023-01044.pdf$$yOpenAccess
000265800 8564_ $$uhttps://pub.dzne.de/record/265800/files/DZNE-2023-01044.pdf?subformat=pdfa$$xpdfa$$yOpenAccess
000265800 909CO $$ooai:pub.dzne.de:265800$$pdnbdelivery$$pdriver$$pVDB$$popen_access$$popenaire
000265800 9101_ $$0I:(DE-588)1065079516$$6P:(DE-2719)9001303$$aDeutsches Zentrum für Neurodegenerative Erkrankungen$$b0$$kDZNE
000265800 9101_ $$0I:(DE-588)1065079516$$6P:(DE-2719)9001512$$aDeutsches Zentrum für Neurodegenerative Erkrankungen$$b1$$kDZNE
000265800 9101_ $$0I:(DE-588)1065079516$$6P:(DE-HGF)0$$aDeutsches Zentrum für Neurodegenerative Erkrankungen$$b2$$kDZNE
000265800 9101_ $$0I:(DE-588)1065079516$$6P:(DE-2719)9002579$$aDeutsches Zentrum für Neurodegenerative Erkrankungen$$b3$$kDZNE
000265800 9101_ $$0I:(DE-588)1065079516$$6P:(DE-2719)9001922$$aDeutsches Zentrum für Neurodegenerative Erkrankungen$$b4$$kDZNE
000265800 9101_ $$0I:(DE-588)1065079516$$6P:(DE-2719)9001500$$aDeutsches Zentrum für Neurodegenerative Erkrankungen$$b5$$kDZNE
000265800 9101_ $$0I:(DE-588)1065079516$$6P:(DE-2719)9001159$$aDeutsches Zentrum für Neurodegenerative Erkrankungen$$b6$$kDZNE
000265800 9101_ $$0I:(DE-588)1065079516$$6P:(DE-2719)9000539$$aDeutsches Zentrum für Neurodegenerative Erkrankungen$$b7$$kDZNE
000265800 9101_ $$0I:(DE-588)1065079516$$6P:(DE-2719)9002690$$aDeutsches Zentrum für Neurodegenerative Erkrankungen$$b8$$kDZNE
000265800 9101_ $$0I:(DE-588)1065079516$$6P:(DE-2719)9002816$$aDeutsches Zentrum für Neurodegenerative Erkrankungen$$b9$$kDZNE
000265800 9101_ $$0I:(DE-588)1065079516$$6P:(DE-2719)9001790$$aDeutsches Zentrum für Neurodegenerative Erkrankungen$$b10$$kDZNE
000265800 9101_ $$0I:(DE-588)1065079516$$6P:(DE-2719)2812165$$aDeutsches Zentrum für Neurodegenerative Erkrankungen$$b11$$kDZNE
000265800 9101_ $$0I:(DE-588)1065079516$$6P:(DE-2719)9000840$$aDeutsches Zentrum für Neurodegenerative Erkrankungen$$b12$$kDZNE
000265800 9101_ $$0I:(DE-588)1065079516$$6P:(DE-2719)2812913$$aDeutsches Zentrum für Neurodegenerative Erkrankungen$$b14$$kDZNE
000265800 9101_ $$0I:(DE-588)1065079516$$6P:(DE-2719)2740503$$aDeutsches Zentrum für Neurodegenerative Erkrankungen$$b15$$kDZNE
000265800 9101_ $$0I:(DE-588)1065079516$$6P:(DE-2719)2159508$$aDeutsches Zentrum für Neurodegenerative Erkrankungen$$b16$$kDZNE
000265800 9101_ $$0I:(DE-588)1065079516$$6P:(DE-2719)2191568$$aDeutsches Zentrum für Neurodegenerative Erkrankungen$$b17$$kDZNE
000265800 9101_ $$0I:(DE-588)1065079516$$6P:(DE-2719)9000846$$aDeutsches Zentrum für Neurodegenerative Erkrankungen$$b18$$kDZNE
000265800 9101_ $$0I:(DE-588)1065079516$$6P:(DE-2719)2812219$$aDeutsches Zentrum für Neurodegenerative Erkrankungen$$b19$$kDZNE
000265800 9101_ $$0I:(DE-588)1065079516$$6P:(DE-2719)2812564$$aDeutsches Zentrum für Neurodegenerative Erkrankungen$$b20$$kDZNE
000265800 9101_ $$0I:(DE-588)1065079516$$6P:(DE-2719)2811660$$aDeutsches Zentrum für Neurodegenerative Erkrankungen$$b21$$kDZNE
000265800 9131_ $$0G:(DE-HGF)POF4-352$$1G:(DE-HGF)POF4-350$$2G:(DE-HGF)POF4-300$$3G:(DE-HGF)POF4$$4G:(DE-HGF)POF$$aDE-HGF$$bGesundheit$$lNeurodegenerative Diseases$$vDisease Mechanisms$$x0
000265800 9131_ $$0G:(DE-HGF)POF4-354$$1G:(DE-HGF)POF4-350$$2G:(DE-HGF)POF4-300$$3G:(DE-HGF)POF4$$4G:(DE-HGF)POF$$aDE-HGF$$bGesundheit$$lNeurodegenerative Diseases$$vDisease Prevention and Healthy Aging$$x1
000265800 9131_ $$0G:(DE-HGF)POF4-351$$1G:(DE-HGF)POF4-350$$2G:(DE-HGF)POF4-300$$3G:(DE-HGF)POF4$$4G:(DE-HGF)POF$$aDE-HGF$$bGesundheit$$lNeurodegenerative Diseases$$vBrain Function$$x2
000265800 9141_ $$y2023
000265800 915__ $$0StatID:(DE-HGF)0200$$2StatID$$aDBCoverage$$bSCOPUS$$d2023-10-27
000265800 915__ $$0StatID:(DE-HGF)1050$$2StatID$$aDBCoverage$$bBIOSIS Previews$$d2023-10-27
000265800 915__ $$0StatID:(DE-HGF)1190$$2StatID$$aDBCoverage$$bBiological Abstracts$$d2023-10-27
000265800 915__ $$0StatID:(DE-HGF)0112$$2StatID$$aWoS$$bEmerging Sources Citation Index$$d2023-10-27
000265800 915__ $$0LIC:(DE-HGF)CCBYNCND4$$2HGFVOC$$aCreative Commons Attribution-NonCommercial-NoDerivs CC BY-NC-ND 4.0
000265800 915__ $$0StatID:(DE-HGF)0100$$2StatID$$aJCR$$bCELL REP METHODS : 2022$$d2023-10-27
000265800 915__ $$0StatID:(DE-HGF)0501$$2StatID$$aDBCoverage$$bDOAJ Seal$$d2022-04-27T10:46:44Z
000265800 915__ $$0StatID:(DE-HGF)0500$$2StatID$$aDBCoverage$$bDOAJ$$d2022-04-27T10:46:44Z
000265800 915__ $$0StatID:(DE-HGF)0700$$2StatID$$aFees$$d2023-10-27
000265800 915__ $$0StatID:(DE-HGF)0150$$2StatID$$aDBCoverage$$bWeb of Science Core Collection$$d2023-10-27
000265800 915__ $$0StatID:(DE-HGF)9900$$2StatID$$aIF < 5$$d2023-10-27
000265800 915__ $$0StatID:(DE-HGF)0510$$2StatID$$aOpenAccess
000265800 915__ $$0StatID:(DE-HGF)0030$$2StatID$$aPeer Review$$bDOAJ : Anonymous peer review$$d2022-04-27T10:46:44Z
000265800 915__ $$0StatID:(DE-HGF)0561$$2StatID$$aArticle Processing Charges$$d2023-10-27
000265800 915__ $$0StatID:(DE-HGF)0300$$2StatID$$aDBCoverage$$bMedline$$d2023-10-27
000265800 915__ $$0StatID:(DE-HGF)0320$$2StatID$$aDBCoverage$$bPubMed Central$$d2023-10-27
000265800 915__ $$0StatID:(DE-HGF)0199$$2StatID$$aDBCoverage$$bClarivate Analytics Master Journal List$$d2023-10-27
000265800 9201_ $$0I:(DE-2719)1013038$$kAG Schultze$$lClinical Single Cell Omics (CSCO) / Systems Medicine$$x0
000265800 9201_ $$0I:(DE-2719)1013031$$kSchultze - PRECISE$$lPlatform for Single Cell Genomics and Epigenomics$$x1
000265800 9201_ $$0I:(DE-2719)1013035$$kAG Beyer$$lImmunogenomics and Neurodegeneration$$x2
000265800 9201_ $$0I:(DE-2719)5000082$$kAG Aschenbrenner ; AG Aschenbrenner$$lAging and Immunity$$x3
000265800 9201_ $$0I:(DE-2719)1040180$$kLMF$$lLight Microscopy Facility (CRFS-LMF)$$x4
000265800 9201_ $$0I:(DE-2719)1040000$$kAG Fava$$lCore Research Facilities & Services$$x5
000265800 980__ $$ajournal
000265800 980__ $$aVDB
000265800 980__ $$aUNRESTRICTED
000265800 980__ $$aI:(DE-2719)1013038
000265800 980__ $$aI:(DE-2719)1013031
000265800 980__ $$aI:(DE-2719)1013035
000265800 980__ $$aI:(DE-2719)5000082
000265800 980__ $$aI:(DE-2719)1040180
000265800 980__ $$aI:(DE-2719)1040000
000265800 9801_ $$aFullTexts