{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,26]],"date-time":"2026-02-26T20:25:28Z","timestamp":1772137528710,"version":"3.50.1"},"reference-count":43,"publisher":"Elsevier BV","issue":"7","license":[{"start":{"date-parts":[[2009,7,1]],"date-time":"2009-07-01T00:00:00Z","timestamp":1246406400000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2009,7,1]],"date-time":"2009-07-01T00:00:00Z","timestamp":1246406400000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"},{"start":{"date-parts":[[2020,9,18]],"date-time":"2020-09-18T00:00:00Z","timestamp":1600387200000},"content-version":"vor","delay-in-days":4097,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":["mcponline.org","elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["Molecular & Cellular Proteomics"],"published-print":{"date-parts":[[2009,7]]},"DOI":"10.1074\/mcp.m900039-mcp200","type":"journal-article","created":{"date-parts":[[2009,4,7]],"date-time":"2009-04-07T21:40:01Z","timestamp":1239140401000},"page":"1648-1657","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":92,"title":["An In-solution Ultrasonication-assisted Digestion Method for Improved Extracellular Matrix Proteome Coverage"],"prefix":"10.1016","volume":"8","author":[{"given":"Kirk C.","family":"Hansen","sequence":"first","affiliation":[]},{"given":"Lauren","family":"Kiemele","sequence":"additional","affiliation":[]},{"given":"Ori","family":"Maller","sequence":"additional","affiliation":[]},{"given":"Jenean","family":"O'Brien","sequence":"additional","affiliation":[]},{"given":"Aarthi","family":"Shankar","sequence":"additional","affiliation":[]},{"given":"Jaime","family":"Fornetti","sequence":"additional","affiliation":[]},{"given":"Pepper","family":"Schedin","sequence":"additional","affiliation":[]}],"member":"78","reference":[{"key":"10.1074\/mcp.M900039-MCP200_bib1","doi-asserted-by":"crossref","first-page":"356","DOI":"10.1016\/j.semcancer.2008.03.016","article-title":"Can cancer be reversed by engineering the tumor microenvironment?","volume":"18","author":"Ingber","year":"2008","journal-title":"Semin. Biol."},{"key":"10.1074\/mcp.M900039-MCP200_bib2","doi-asserted-by":"crossref","first-page":"677","DOI":"10.1016\/j.cell.2006.06.044","article-title":"Matrix elasticity directs stem cell lineage specification","volume":"126","author":"Engler","year":"2006","journal-title":"Cell"},{"key":"10.1074\/mcp.M900039-MCP200_bib3","doi-asserted-by":"crossref","first-page":"207","DOI":"10.1002\/mc.20058","article-title":"Mammary ECM composition and function are altered by reproductive state","volume":"41","author":"Schedin","year":"2004","journal-title":"Mol. Carcinog."},{"key":"10.1074\/mcp.M900039-MCP200_bib4","doi-asserted-by":"crossref","first-page":"93","DOI":"10.1186\/bcr772","article-title":"Multistep tumorigenesis and the microenvironment","volume":"6","author":"Schedin","year":"2004","journal-title":"Breast Cancer Res."},{"key":"10.1074\/mcp.M900039-MCP200_bib5","doi-asserted-by":"crossref","first-page":"279","DOI":"10.1007\/s11154-007-9037-1","article-title":"Stromal induction of breast cancer: inflammation and invasion","volume":"8","author":"Radisky","year":"2007","journal-title":"Rev. Endocr. Metab. Disord."},{"key":"10.1074\/mcp.M900039-MCP200_bib6","doi-asserted-by":"crossref","first-page":"1531","DOI":"10.1016\/j.addr.2003.08.002","article-title":"Collagens\u2014structure, function, and biosynthesis","volume":"55","author":"Gelse","year":"2003","journal-title":"Adv. Drug Deliv. Rev."},{"key":"10.1074\/mcp.M900039-MCP200_bib7","doi-asserted-by":"crossref","first-page":"71","DOI":"10.1007\/s10911-007-9039-3","article-title":"Microenvironment of the involuting mammary gland mediates mammary cancer progression","volume":"12","author":"Schedin","year":"2007","journal-title":"J. Mammary Gland Biol. Neoplasia"},{"key":"10.1074\/mcp.M900039-MCP200_bib8","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1186\/bcr634","article-title":"Regulation of mammary gland branching morphogenesis by the extracellular matrix and its remodeling enzymes","volume":"6","author":"Fata","year":"2004","journal-title":"Breast Cancer Res."},{"key":"10.1074\/mcp.M900039-MCP200_bib9","first-page":"497","article-title":"Lysyl oxidase gene expression in the stromal reaction to in situ and invasive ductal breast carcinoma","volume":"150","author":"Peyrol","year":"1997","journal-title":"Am. J. Pathol."},{"key":"10.1074\/mcp.M900039-MCP200_bib10","doi-asserted-by":"crossref","first-page":"2563","DOI":"10.1038\/sj.onc.1210048","article-title":"Transglutaminase 2 inhibitor, KCC009, disrupts fibronectin assembly in the extracellular matrix and sensitizes orthotopic glioblastomas to chemotherapy","volume":"26","author":"Yuan","year":"2007","journal-title":"Oncogene"},{"key":"10.1074\/mcp.M900039-MCP200_bib11","doi-asserted-by":"crossref","first-page":"654","DOI":"10.1016\/j.trac.2004.06.007","article-title":"Enzymatic digestion and ultrasonication: a powerful combination in analytical chemistry","volume":"23","author":"Bermejo","year":"2004","journal-title":"Trends Anal. Chem."},{"key":"10.1074\/mcp.M900039-MCP200_bib12","doi-asserted-by":"crossref","first-page":"225","DOI":"10.1016\/j.ultsonch.2003.10.010","article-title":"Discussion of parameters associated with the ultrasonic solid-liquid extraction for elemental analysis (total content) by electrothermal atomic absorption spectrometry. An overview","volume":"12","author":"Capelo","year":"2005","journal-title":"Ultrason. Sonochem."},{"key":"10.1074\/mcp.M900039-MCP200_bib13","doi-asserted-by":"crossref","first-page":"261","DOI":"10.1089\/ten.tec.2008.0030","article-title":"A novel 3D in vitro culture model to study stromal-epithelial interactions in the mammary gland","volume":"14","author":"Krause","year":"2008","journal-title":"Tissue Eng. Part C Methods"},{"key":"10.1074\/mcp.M900039-MCP200_bib14","doi-asserted-by":"crossref","first-page":"4613","DOI":"10.1021\/ac0700225","article-title":"Shotgun analysis of integral membrane proteins facilitated by elevated temperature","volume":"79","author":"Speers","year":"2007","journal-title":"Anal. Chem."},{"key":"10.1074\/mcp.M900039-MCP200_bib15","doi-asserted-by":"crossref","first-page":"2680","DOI":"10.1002\/pmic.200400128","article-title":"Method optimisation for peptide profiling of microdissected breast carcinoma tissue by matrix-assisted laser desorption\/ionisation-time of flight and matrix-assisted laser desorption\/ionisation-time of flight\/time of flight-mass spectrometry","volume":"5","author":"Umar","year":"2005","journal-title":"Proteomics"},{"key":"10.1074\/mcp.M900039-MCP200_bib16","doi-asserted-by":"crossref","first-page":"383","DOI":"10.1101\/sqb.2005.70.007","article-title":"The fibroblastic coconspirator in cancer progression","volume":"70","author":"Egeblad","year":"2005","journal-title":"Cold Spring Harb. Symp. Quant. Biol."},{"key":"10.1074\/mcp.M900039-MCP200_bib17","doi-asserted-by":"crossref","first-page":"439","DOI":"10.1016\/S0092-8674(00)80429-8","article-title":"ECM and cell surface proteolysis: regulating cellular ecology","volume":"91","author":"Werb","year":"1997","journal-title":"Cell"},{"key":"10.1074\/mcp.M900039-MCP200_bib18","doi-asserted-by":"crossref","first-page":"366","DOI":"10.1016\/S0962-8924(03)00129-6","article-title":"Tales from the crypt[ic] sites of the extracellular matrix","volume":"13","author":"Schenk","year":"2003","journal-title":"Trends Cell Biol."},{"key":"10.1074\/mcp.M900039-MCP200_bib19","doi-asserted-by":"crossref","first-page":"213","DOI":"10.1023\/A:1011317009329","article-title":"It takes a tissue to make a tumor: epigenetics, cancer and the microenvironment","volume":"6","author":"Barcellos-Hoff","year":"2001","journal-title":"J. Mammary Gland Biol. Neoplasia"},{"key":"10.1074\/mcp.M900039-MCP200_bib20","doi-asserted-by":"crossref","first-page":"97","DOI":"10.1006\/scbi.2000.0361","article-title":"Stromal cells can contribute oncogenic signals","volume":"11","author":"Tlsty","year":"2001","journal-title":"Semin. Cancer Biol."},{"key":"10.1074\/mcp.M900039-MCP200_bib21","doi-asserted-by":"crossref","first-page":"839","DOI":"10.1038\/nrc1477","article-title":"Friends or foes\u2014bipolar effects of the tumour stroma in cancer","volume":"4","author":"Mueller","year":"2004","journal-title":"Nat. Rev. Cancer."},{"key":"10.1074\/mcp.M900039-MCP200_bib22","doi-asserted-by":"crossref","first-page":"246","DOI":"10.1038\/nrc2108","article-title":"Reprogramming metastatic tumour cells with embryonic microenvironments","volume":"7","author":"Hendrix","year":"2007","journal-title":"Nat. Rev. Cancer"},{"key":"10.1074\/mcp.M900039-MCP200_bib23","doi-asserted-by":"crossref","first-page":"241","DOI":"10.1016\/j.ccr.2005.08.010","article-title":"Tensional homeostasis and the malignant phenotype","volume":"8","author":"Paszek","year":"2005","journal-title":"Cancer Cell"},{"key":"10.1074\/mcp.M900039-MCP200_bib24","doi-asserted-by":"crossref","first-page":"5868","DOI":"10.1002\/pmic.200402040","article-title":"Comparative proteomic analysis of extracellular matrix proteins secreted by two types of skin fibroblasts","volume":"6","author":"Pflieger","year":"2006","journal-title":"Proteomics"},{"key":"10.1074\/mcp.M900039-MCP200_bib25","doi-asserted-by":"crossref","first-page":"233","DOI":"10.1289\/ehp.8564233","article-title":"Free radical generation by ultrasound in aqueous and nonaqueous solutions","volume":"64","author":"Riesz","year":"1985","journal-title":"Environ. Health Perspect."},{"key":"10.1074\/mcp.M900039-MCP200_bib26","doi-asserted-by":"crossref","first-page":"9895","DOI":"10.1016\/S0021-9258(18)48018-0","article-title":"Protein damage and degradation by oxygen radicals. I. General aspects","volume":"262","author":"Davies","year":"1987","journal-title":"J. Biol. Chem."},{"key":"10.1074\/mcp.M900039-MCP200_bib27","doi-asserted-by":"crossref","first-page":"9902","DOI":"10.1016\/S0021-9258(18)48019-2","article-title":"Protein damage and degradation by oxygen radicals. II. Modification of amino acids","volume":"262","author":"Davies","year":"1987","journal-title":"J. Biol. Chem."},{"key":"10.1074\/mcp.M900039-MCP200_bib28","doi-asserted-by":"crossref","first-page":"443","DOI":"10.1046\/j.1365-2613.1998.00090.x","article-title":"Differentiation of a colon cancer cell line on a reconstituted basement membrane in vitro","volume":"79","author":"Kim","year":"1998","journal-title":"Int. J. Exp. Pathol."},{"key":"10.1074\/mcp.M900039-MCP200_bib29","doi-asserted-by":"crossref","first-page":"971","DOI":"10.1038\/nbt1001-971","article-title":"Feeder-free growth of undifferentiated human embryonic stem cells","volume":"19","author":"Xu","year":"2001","journal-title":"Nat. Biotechnol."},{"key":"10.1074\/mcp.M900039-MCP200_bib30","doi-asserted-by":"crossref","first-page":"795","DOI":"10.1242\/jcs.113.5.795","article-title":"Fibronectin fragments induce MMP activity in mouse mammary epithelial cells: evidence for a role in mammary tissue remodeling","volume":"113","author":"Schedin","year":"2000","journal-title":"J. Cell Sci."},{"key":"10.1074\/mcp.M900039-MCP200_bib31","doi-asserted-by":"crossref","first-page":"769","DOI":"10.1093\/jnci\/83.11.769","article-title":"Enhanced tumor growth of both primary and established human and murine tumor cells in athymic mice after coinjection with Matrigel","volume":"83","author":"Fridman","year":"1991","journal-title":"J. Natl. Cancer Inst."},{"key":"10.1074\/mcp.M900039-MCP200_bib32","doi-asserted-by":"crossref","first-page":"65","DOI":"10.1007\/BF00662402","article-title":"Growth and metastasis of human breast carcinomas with Matrigel in athymic mice","volume":"25","author":"Mehta","year":"1993","journal-title":"Breast Cancer Res. Treat."},{"key":"10.1074\/mcp.M900039-MCP200_bib33","doi-asserted-by":"crossref","first-page":"161","DOI":"10.1002\/path.2284","article-title":"Macrophage activation by endogenous danger signals","volume":"214","author":"Zhang","year":"2008","journal-title":"J. Pathol."},{"key":"10.1074\/mcp.M900039-MCP200_bib34","first-page":"274","article-title":"Heat shock protein and innate immunity","volume":"1","author":"Tsan","year":"2004","journal-title":"Cell. Mol. Immunol."},{"key":"10.1074\/mcp.M900039-MCP200_bib35","doi-asserted-by":"crossref","first-page":"3214","DOI":"10.1210\/endo.142.7.8273","article-title":"Fibronectin and the alpha(5)beta(1) integrin are under developmental and ovarian steroid regulation in the normal mouse mammary gland","volume":"142","author":"Woodward","year":"2001","journal-title":"Endocrinology"},{"key":"10.1074\/mcp.M900039-MCP200_bib36","doi-asserted-by":"crossref","first-page":"3185","DOI":"10.1158\/0008-5472.CAN-07-2673","article-title":"Fibronectin expression modulates mammary epithelial cell proliferation during acinar differentiation","volume":"68","author":"Williams","year":"2008","journal-title":"Cancer Res."},{"key":"10.1074\/mcp.M900039-MCP200_bib37","doi-asserted-by":"crossref","first-page":"477","DOI":"10.1006\/excr.1997.3895","article-title":"Localization of a cell adhesion site on collagen XIV (undulin)","volume":"239","author":"Ehnis","year":"1998","journal-title":"Exp. Cell Res."},{"key":"10.1074\/mcp.M900039-MCP200_bib38","doi-asserted-by":"crossref","first-page":"555","DOI":"10.1016\/S1357-2725(96)00100-8","article-title":"Collagen IX","volume":"29","author":"Olsen","year":"1997","journal-title":"Int. J. Biochem. Cell Biol."},{"key":"10.1074\/mcp.M900039-MCP200_bib39","doi-asserted-by":"crossref","first-page":"557","DOI":"10.1083\/jcb.120.2.557","article-title":"Structure and binding properties of collagen type XIV isolated from human placenta","volume":"120","author":"Brown","year":"1993","journal-title":"J. Cell Biol."},{"key":"10.1074\/mcp.M900039-MCP200_bib40","doi-asserted-by":"crossref","first-page":"28193","DOI":"10.1016\/S0021-9258(18)46913-X","article-title":"Type XII and XIV collagens mediate interactions between banded collagen fibers in vitro and may modulate extracellular matrix deformability","volume":"269","author":"Nishiyama","year":"1994","journal-title":"J. Biol. Chem."},{"key":"10.1074\/mcp.M900039-MCP200_bib41","doi-asserted-by":"crossref","first-page":"389","DOI":"10.1007\/s00403-006-0706-9","article-title":"Interactions of human tenascin-X domains with dermal extracellular matrix molecules","volume":"298","author":"Egging","year":"2007","journal-title":"Arch. Dermatol. Res."},{"key":"10.1074\/mcp.M900039-MCP200_bib42","doi-asserted-by":"crossref","first-page":"1030","DOI":"10.1038\/nature05817","article-title":"Heparan sulphate proteoglycans fine-tune mammalian physiology","volume":"446","author":"Bishop","year":"2007","journal-title":"Nature"},{"key":"10.1074\/mcp.M900039-MCP200_bib43","doi-asserted-by":"crossref","first-page":"65","DOI":"10.1006\/scdb.2000.0237","article-title":"Cellular functions of proteoglycans\u2014an overview","volume":"12","author":"Perrimon","year":"2001","journal-title":"Semin. Cell Dev. Biol."}],"container-title":["Molecular & Cellular Proteomics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S1535947620340421?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S1535947620340421?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/syndication.highwire.org\/content\/doi\/10.1074\/mcp.M900039-MCP200","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,10,27]],"date-time":"2025-10-27T00:56:12Z","timestamp":1761526572000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S1535947620340421"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2009,7]]},"references-count":43,"journal-issue":{"issue":"7","published-print":{"date-parts":[[2009,7]]}},"alternative-id":["S1535947620340421"],"URL":"https:\/\/doi.org\/10.1074\/mcp.m900039-mcp200","relation":{"has-review":[{"id-type":"doi","id":"10.3410\/f.721943083.793511177","asserted-by":"object"}]},"ISSN":["1535-9476"],"issn-type":[{"value":"1535-9476","type":"print"}],"subject":[],"published":{"date-parts":[[2009,7]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"An In-solution Ultrasonication-assisted Digestion Method for Improved Extracellular Matrix Proteome Coverage","name":"articletitle","label":"Article Title"},{"value":"Molecular & Cellular Proteomics","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1074\/mcp.M900039-MCP200","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2009 ASBMB. Currently published by Elsevier Inc; originally published by American Society for Biochemistry and Molecular Biology.","name":"copyright","label":"Copyright"}]}}