Extracellular Matrix Orchestration of Tissue Remodeling in the Chronically Inflamed Mouse Colon
Chronic inflammatory illnesses are debilitating and recurrent conditions associated with significant comorbidities, including an increased risk of developing cancer. Extensive tissue remodeling is a hallmark of such illnesses, and is both a consequence and a mediator of disease progression. Despite...
Uložené v:
| Vydané v: | Cellular and molecular gastroenterology and hepatology Ročník 17; číslo 4; s. 639 - 656 |
|---|---|
| Hlavní autori: | , , , , , , , , , , , |
| Médium: | Journal Article |
| Jazyk: | English |
| Vydavateľské údaje: |
United States
Elsevier Inc
2024
|
| Predmet: | |
| ISSN: | 2352-345X, 2352-345X |
| On-line prístup: | Získať plný text |
| Tagy: |
Pridať tag
Žiadne tagy, Buďte prvý, kto otaguje tento záznam!
|
| Abstract | Chronic inflammatory illnesses are debilitating and recurrent conditions associated with significant comorbidities, including an increased risk of developing cancer. Extensive tissue remodeling is a hallmark of such illnesses, and is both a consequence and a mediator of disease progression. Despite previous characterization of epithelial and stromal remodeling during inflammatory bowel disease, a complete understanding of its impact on disease progression is lacking.
A comprehensive proteomic pipeline using data-independent acquisition was applied to decellularized colon samples from the Muc2 knockout (Muc2KO) mouse model of colitis for an in-depth characterization of extracellular matrix remodeling. Unique proteomic profiles of the matrisomal landscape were extracted from prepathologic and overt colitis. Integration of proteomics and transcriptomics data sets extracted from the same murine model produced network maps describing the orchestrating role of matrisomal proteins in tissue remodeling during the progression of colitis.
The in-depth proteomic workflow used here allowed the addition of 34 proteins to the known colon matrisomal signature. Protein signatures of prepathologic and pathologic colitic states were extracted, differentiating the 2 states by expression of small leucine-rich proteoglycans. We outlined the role of this class and other matrisomal proteins in tissue remodeling during colitis, as well as the potential for coordinated regulation of cell types by matrisomal ligands.
Our work highlights a central role for matrisomal proteins in tissue remodeling during colitis and defines orchestrating nodes that can be exploited in the selection of therapeutic targets.
[Display omitted] |
|---|---|
| AbstractList | Chronic inflammatory illnesses are debilitating and recurrent conditions associated with significant comorbidities, including an increased risk of developing cancer. Extensive tissue remodeling is a hallmark of such illnesses, and is both a consequence and a mediator of disease progression. Despite previous characterization of epithelial and stromal remodeling during inflammatory bowel disease, a complete understanding of its impact on disease progression is lacking.BACKGROUND & AIMSChronic inflammatory illnesses are debilitating and recurrent conditions associated with significant comorbidities, including an increased risk of developing cancer. Extensive tissue remodeling is a hallmark of such illnesses, and is both a consequence and a mediator of disease progression. Despite previous characterization of epithelial and stromal remodeling during inflammatory bowel disease, a complete understanding of its impact on disease progression is lacking.A comprehensive proteomic pipeline using data-independent acquisition was applied to decellularized colon samples from the Muc2 knockout (Muc2KO) mouse model of colitis for an in-depth characterization of extracellular matrix remodeling. Unique proteomic profiles of the matrisomal landscape were extracted from prepathologic and overt colitis. Integration of proteomics and transcriptomics data sets extracted from the same murine model produced network maps describing the orchestrating role of matrisomal proteins in tissue remodeling during the progression of colitis.METHODSA comprehensive proteomic pipeline using data-independent acquisition was applied to decellularized colon samples from the Muc2 knockout (Muc2KO) mouse model of colitis for an in-depth characterization of extracellular matrix remodeling. Unique proteomic profiles of the matrisomal landscape were extracted from prepathologic and overt colitis. Integration of proteomics and transcriptomics data sets extracted from the same murine model produced network maps describing the orchestrating role of matrisomal proteins in tissue remodeling during the progression of colitis.The in-depth proteomic workflow used here allowed the addition of 34 proteins to the known colon matrisomal signature. Protein signatures of prepathologic and pathologic colitic states were extracted, differentiating the 2 states by expression of small leucine-rich proteoglycans. We outlined the role of this class and other matrisomal proteins in tissue remodeling during colitis, as well as the potential for coordinated regulation of cell types by matrisomal ligands.RESULTSThe in-depth proteomic workflow used here allowed the addition of 34 proteins to the known colon matrisomal signature. Protein signatures of prepathologic and pathologic colitic states were extracted, differentiating the 2 states by expression of small leucine-rich proteoglycans. We outlined the role of this class and other matrisomal proteins in tissue remodeling during colitis, as well as the potential for coordinated regulation of cell types by matrisomal ligands.Our work highlights a central role for matrisomal proteins in tissue remodeling during colitis and defines orchestrating nodes that can be exploited in the selection of therapeutic targets.CONCLUSIONSOur work highlights a central role for matrisomal proteins in tissue remodeling during colitis and defines orchestrating nodes that can be exploited in the selection of therapeutic targets. Chronic inflammatory illnesses are debilitating and recurrent conditions associated with significant comorbidities, including an increased risk of developing cancer. Extensive tissue remodeling is a hallmark of such illnesses, and is both a consequence and a mediator of disease progression. Despite previous characterization of epithelial and stromal remodeling during inflammatory bowel disease, a complete understanding of its impact on disease progression is lacking. A comprehensive proteomic pipeline using data-independent acquisition was applied to decellularized colon samples from the Muc2 knockout (Muc2KO) mouse model of colitis for an in-depth characterization of extracellular matrix remodeling. Unique proteomic profiles of the matrisomal landscape were extracted from prepathologic and overt colitis. Integration of proteomics and transcriptomics data sets extracted from the same murine model produced network maps describing the orchestrating role of matrisomal proteins in tissue remodeling during the progression of colitis. The in-depth proteomic workflow used here allowed the addition of 34 proteins to the known colon matrisomal signature. Protein signatures of prepathologic and pathologic colitic states were extracted, differentiating the 2 states by expression of small leucine-rich proteoglycans. We outlined the role of this class and other matrisomal proteins in tissue remodeling during colitis, as well as the potential for coordinated regulation of cell types by matrisomal ligands. Our work highlights a central role for matrisomal proteins in tissue remodeling during colitis and defines orchestrating nodes that can be exploited in the selection of therapeutic targets. [Display omitted] Background & AimsChronic inflammatory illnesses are debilitating and recurrent conditions associated with significant comorbidities, including an increased risk of developing cancer. Extensive tissue remodeling is a hallmark of such illnesses, and is both a consequence and a mediator of disease progression. Despite previous characterization of epithelial and stromal remodeling during inflammatory bowel disease, a complete understanding of its impact on disease progression still is lacking. MethodsA comprehensive proteomic pipeline using data-independent acquisition was applied to decellularized colon samples from the Muc2 knockout ( Muc2KO) mouse model of colitis for an in-depth characterization of extracellular matrix remodeling. Unique proteomic profiles of the matrisomal landscape were extracted from prepathologic and overt colitis. Integration of proteomics and transcriptomics data sets extracted from the same murine model produced network maps describing the orchestrating role of matrisomal proteins in tissue remodeling during the progression of colitis. ResultsThe in-depth proteomic workflow used here allowed the addition of 34 proteins to the known colon matrisomal signature. Protein signatures of prepathologic and pathologic colitic states were extracted, differentiating the 2 states by expression of small leucine-rich proteoglycans. We outlined the role of this class and other matrisomal proteins in tissue remodeling during colitis, as well as the potential for coordinated regulation of cell types by matrisomal ligands. ConclusionsOur work highlights a central role for matrisomal proteins in tissue remodeling during colitis and defines orchestrating nodes that can be exploited in the selection of therapeutic targets. Chronic inflammatory illnesses are debilitating and recurrent conditions associated with significant comorbidities, including an increased risk of developing cancer. Extensive tissue remodeling is a hallmark of such illnesses, and is both a consequence and a mediator of disease progression. Despite previous characterization of epithelial and stromal remodeling during inflammatory bowel disease, a complete understanding of its impact on disease progression is lacking. A comprehensive proteomic pipeline using data-independent acquisition was applied to decellularized colon samples from the Muc2 knockout (Muc2 ) mouse model of colitis for an in-depth characterization of extracellular matrix remodeling. Unique proteomic profiles of the matrisomal landscape were extracted from prepathologic and overt colitis. Integration of proteomics and transcriptomics data sets extracted from the same murine model produced network maps describing the orchestrating role of matrisomal proteins in tissue remodeling during the progression of colitis. The in-depth proteomic workflow used here allowed the addition of 34 proteins to the known colon matrisomal signature. Protein signatures of prepathologic and pathologic colitic states were extracted, differentiating the 2 states by expression of small leucine-rich proteoglycans. We outlined the role of this class and other matrisomal proteins in tissue remodeling during colitis, as well as the potential for coordinated regulation of cell types by matrisomal ligands. Our work highlights a central role for matrisomal proteins in tissue remodeling during colitis and defines orchestrating nodes that can be exploited in the selection of therapeutic targets. |
| Author | Pan, Deng Winton, Douglas J. Lourenco, Filipe Bons, Joanna Gascard, Philippe Shah, Samah Colombé, Mathilde Schilling, Birgit Tlsty, Thea Moutin, Elisa B. Burton, Jordan B. Giavara, Giada |
| Author_xml | – sequence: 1 givenname: Elisa B. orcidid: 0000-0002-9029-1520 surname: Moutin fullname: Moutin, Elisa B. organization: Cancer Research UK Cambridge Institute, Li Ka Shing Centre, Cambridge, United Kingdom – sequence: 2 givenname: Joanna surname: Bons fullname: Bons, Joanna organization: Buck Institute for Research on Aging, Novato, California – sequence: 3 givenname: Giada surname: Giavara fullname: Giavara, Giada organization: Cancer Research UK Cambridge Institute, Li Ka Shing Centre, Cambridge, United Kingdom – sequence: 4 givenname: Filipe surname: Lourenco fullname: Lourenco, Filipe organization: Cancer Research UK Cambridge Institute, Li Ka Shing Centre, Cambridge, United Kingdom – sequence: 5 givenname: Deng surname: Pan fullname: Pan, Deng organization: Department of Pathology, University of California, San Francisco, California – sequence: 6 givenname: Jordan B. surname: Burton fullname: Burton, Jordan B. organization: Buck Institute for Research on Aging, Novato, California – sequence: 7 givenname: Samah surname: Shah fullname: Shah, Samah organization: Buck Institute for Research on Aging, Novato, California – sequence: 8 givenname: Mathilde surname: Colombé fullname: Colombé, Mathilde organization: Cancer Research UK Cambridge Institute, Li Ka Shing Centre, Cambridge, United Kingdom – sequence: 9 givenname: Philippe surname: Gascard fullname: Gascard, Philippe organization: Department of Pathology, University of California, San Francisco, California – sequence: 10 givenname: Thea surname: Tlsty fullname: Tlsty, Thea organization: Department of Pathology, University of California, San Francisco, California – sequence: 11 givenname: Birgit surname: Schilling fullname: Schilling, Birgit organization: Buck Institute for Research on Aging, Novato, California – sequence: 12 givenname: Douglas J. orcidid: 0000-0001-6067-7927 surname: Winton fullname: Winton, Douglas J. email: doug.winton@cruk.cam.ac.uk organization: Cancer Research UK Cambridge Institute, Li Ka Shing Centre, Cambridge, United Kingdom |
| BackLink | https://www.ncbi.nlm.nih.gov/pubmed/38199279$$D View this record in MEDLINE/PubMed |
| BookMark | eNqFkV9rFTEQxYNUbK39BILk0Ze7zb_dbRAFuVQttBRqBd9CNjvpzZpNarIrvd_erLcVEUqfMjDnTM785iXaCzEAQq8pqSihzfFQDWa82VSMMFERWhHCn6EDxmu24qL-vvdPvY-Och4IIVS0TUvqF2ifn1ApWSsPkDq9m5I24P3sdcIXekruDl8ms4FcGpOLAUeLr13OM-ArGGMP3oUb7AKeNoDXmxSDM9r7LT4L1usRenwR51xa0cfwCj232mc4un8P0bdPp9frL6vzy89n64_nKyMaOq1430igpOuYtBxII2x7wngnbdsKRqnmTPe2q7lgTBhWF0mtRc2lsa3RvDf8EL3dzb1N8edcsqvR5WUtHaCkUUxSLoSsmSzSN_fSuStp1W1yo05b9QClCPhOYFLMOYH9K6FELfTVoP7QVwt9Ragq9Ivr_c4FZc1fDpLKxkEw0LsEZlJ9dE_4P_znNwX0gvYHbCEPcU6hEFRUZaaI-rrcdzkvE-W0hNMy4N3jA578_jctX7aJ |
| Cites_doi | 10.1007/s00418-008-0435-6 10.1002/pmic.201100463 10.1039/C8MO00239H 10.1002/advs.201901198 10.1016/j.cell.2019.06.029 10.1136/gutjnl-2019-319514 10.1046/j.1432-0436.2002.700908.x 10.1016/j.matbio.2017.11.014 10.1038/cdd.2016.117 10.1111/1467-9868.00346 10.1021/acs.jproteome.7b00170 10.1089/ten.tea.2009.0602 10.15252/embr.201439246 10.1074/mcp.RA117.000314 10.1016/j.stem.2018.07.002 10.1021/acs.jproteome.2c00526 10.1016/j.ceb.2004.07.010 10.1093/bioinformatics/btu393 10.1111/apt.14526 10.1074/mcp.O111.016717 10.1074/mcp.M111.014647 10.1053/j.gastro.2011.01.057 10.1126/science.1069094 10.1093/nar/gkn698 10.1093/nar/gkac1009 10.1002/pmic.202200021 10.1053/j.gastro.2020.04.074 10.1038/s41467-019-10769-x 10.1016/S0945-053X(98)90121-4 10.1016/j.cell.2018.08.067 10.1152/ajpgi.00398.2003 10.1016/S0016-5085(99)70339-2 10.1038/s41467-017-00249-5 10.1136/gutjnl-2012-303252 10.1126/science.827022 10.3390/cancers14235903 10.1016/j.matbio.2020.11.001 10.1074/jbc.R800020200 10.1016/j.matbio.2015.02.003 10.1016/S0140-6736(12)60150-0 10.1053/j.gastro.2006.04.020 10.1016/0022-5193(82)90388-5 10.1136/gutjnl-2012-303207 10.1002/term.2061 10.1002/ibd.21027 10.3389/fmed.2021.610189 |
| ContentType | Journal Article |
| Copyright | 2024 The Authors The Authors Copyright © 2024 The Authors. Published by Elsevier Inc. All rights reserved. |
| Copyright_xml | – notice: 2024 The Authors – notice: The Authors – notice: Copyright © 2024 The Authors. Published by Elsevier Inc. All rights reserved. |
| DBID | 6I. AAFTH AAYXX CITATION CGR CUY CVF ECM EIF NPM 7X8 |
| DOI | 10.1016/j.jcmgh.2024.01.003 |
| DatabaseName | ScienceDirect Open Access Titles Elsevier:ScienceDirect:Open Access CrossRef Medline MEDLINE MEDLINE (Ovid) MEDLINE MEDLINE PubMed MEDLINE - Academic |
| DatabaseTitle | CrossRef MEDLINE Medline Complete MEDLINE with Full Text PubMed MEDLINE (Ovid) MEDLINE - Academic |
| DatabaseTitleList | MEDLINE - Academic MEDLINE |
| Database_xml | – sequence: 1 dbid: NPM name: PubMed url: http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed sourceTypes: Index Database – sequence: 2 dbid: 7X8 name: MEDLINE - Academic url: https://search.proquest.com/medline sourceTypes: Aggregation Database |
| DeliveryMethod | fulltext_linktorsrc |
| Discipline | Medicine |
| EISSN | 2352-345X |
| EndPage | 656 |
| ExternalDocumentID | 38199279 10_1016_j_jcmgh_2024_01_003 S2352345X24000031 1_s2_0_S2352345X24000031 |
| Genre | Research Support, Non-U.S. Gov't Journal Article Research Support, N.I.H., Extramural |
| GrantInformation_xml | – fundername: CRUK Cambridge Institute grantid: A24456 funderid: https://doi.org/10.13039/501100022011 – fundername: National Cancer Institute grantid: A29074; A27145; 5R35CA197694; 5R50CA211543 funderid: https://doi.org/10.13039/100000054 – fundername: Wellcome Trust grantid: 103805 funderid: https://doi.org/10.13039/100010269 – fundername: NCI NIH HHS grantid: R50 CA211543 – fundername: Wellcome Trust – fundername: NCI NIH HHS grantid: R35 CA197694 – fundername: Cancer Research UK grantid: 27145 – fundername: NIH HHS grantid: S10 OD028654 |
| GroupedDBID | .1- .FO 0R~ 1P~ 4.4 457 53G AAEDT AAEDW AAIKJ AALRI AAXUO AAYWO ABMAC ACGFS ACVFH ADBBV ADCNI ADEZE ADRAZ ADVLN AEUPX AEVXI AEXQZ AFJKZ AFPUW AFRHN AFTJW AGHFR AIGII AITUG AJUYK AKBMS AKRWK AKYEP ALMA_UNASSIGNED_HOLDINGS AMRAJ AOIJS APXCP BCNDV EBS EJD FDB GROUPED_DOAJ HYE KQ8 M41 M48 O9- OC. OK1 ON0 ROL RPM SSZ Z5R AACTN 0SF 6I. AAFTH NCXOZ AAYXX CITATION CGR CUY CVF ECM EIF NPM 7X8 |
| ID | FETCH-LOGICAL-c461t-3d69e10bb29f3e064f7823b9f774211a32adfb534224c253e05a4539cf7ca3dc3 |
| ISICitedReferencesCount | 3 |
| ISICitedReferencesURI | http://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=Summon&SrcAuth=ProQuest&DestLinkType=CitingArticles&DestApp=WOS_CPL&KeyUT=001202089000001&url=https%3A%2F%2Fcvtisr.summon.serialssolutions.com%2F%23%21%2Fsearch%3Fho%3Df%26include.ft.matches%3Dt%26l%3Dnull%26q%3D |
| ISSN | 2352-345X |
| IngestDate | Wed Oct 01 14:40:58 EDT 2025 Mon Jul 21 05:52:40 EDT 2025 Wed Nov 12 18:36:48 EST 2025 Sat Mar 30 16:20:42 EDT 2024 Wed Apr 02 07:43:54 EDT 2025 Tue Aug 26 16:32:12 EDT 2025 |
| IsDoiOpenAccess | true |
| IsOpenAccess | true |
| IsPeerReviewed | true |
| IsScholarly | true |
| Issue | 4 |
| Keywords | DIA Proteomics Proteoglycans Grem1 SDS DTT MS iRT It ACN ECM UC Serpin H1 SLRP TEAB Cell-Matrix Interactions TGF-β Lamc1 Inflammatory Bowel Disease FA DIA triethylammonium bicarbonate Integrin mass spectrometry sodium dodecyl sulfate acetonitrile ulcerative colitis formic acid dithiothreitol Laminin subunit gamma 1 data-independent acquisition indexed retention time transforming growth factor-β Gremlin 1 small leucine-rich proteoglycan extracellular matrix Serpin family H member 1 |
| Language | English |
| License | This is an open access article under the CC BY license. Copyright © 2024 The Authors. Published by Elsevier Inc. All rights reserved. |
| LinkModel | OpenURL |
| MergedId | FETCHMERGED-LOGICAL-c461t-3d69e10bb29f3e064f7823b9f774211a32adfb534224c253e05a4539cf7ca3dc3 |
| Notes | ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 23 |
| ORCID | 0000-0001-6067-7927 0000-0002-9029-1520 |
| OpenAccessLink | http://dx.doi.org/10.1016/j.jcmgh.2024.01.003 |
| PMID | 38199279 |
| PQID | 2913449529 |
| PQPubID | 23479 |
| PageCount | 18 |
| ParticipantIDs | proquest_miscellaneous_2913449529 pubmed_primary_38199279 crossref_primary_10_1016_j_jcmgh_2024_01_003 elsevier_sciencedirect_doi_10_1016_j_jcmgh_2024_01_003 elsevier_clinicalkeyesjournals_1_s2_0_S2352345X24000031 elsevier_clinicalkey_doi_10_1016_j_jcmgh_2024_01_003 |
| PublicationCentury | 2000 |
| PublicationDate | 2024 2024-00-00 20240101 |
| PublicationDateYYYYMMDD | 2024-01-01 |
| PublicationDate_xml | – year: 2024 text: 2024 |
| PublicationDecade | 2020 |
| PublicationPlace | United States |
| PublicationPlace_xml | – name: United States |
| PublicationTitle | Cellular and molecular gastroenterology and hepatology |
| PublicationTitleAlternate | Cell Mol Gastroenterol Hepatol |
| PublicationYear | 2024 |
| Publisher | Elsevier Inc |
| Publisher_xml | – name: Elsevier Inc |
| References | Kinchen, Chen, Parikh (bib39) 2018; 175 Coussens, Werb (bib1) 2018; 23 Schaefer, Iozzo (bib31) 2008; 283 Burger (bib51) 2018; 17 Mak, Ng (bib38) 2020; 21 Love, Huber, Anders (bib55) 2014 Shimshoni, Adir, Afi (bib35) 2020; 96 Van der Sluis, De Koning, De Bruijn (bib26) 2006; 131 Isserlin R, Voisin V, Ailles L, et al. Cell-cell interaction database [DATASET]. Zenodo, 2020. Nakayama, Batchelder, Lee, Tarantal (bib7) 2010; 16 Ullah, Busch, Rabien (bib9) 2020; 7 Collins, Hunter, Liu (bib22) 2017; 8 Bruderer, Bernhardt, Gandhi (bib23) 2017; 16 Charni, Aloni-Grinstein, Molchadsky (bib43) 2017; 24 Hocking, Shinomura, McQuillan (bib32) 1998; 17 Velcich, Yang, Heyer (bib25) 2002; 295 Rana, Zreiqat, Benkirane-Jessel (bib8) 2017; 11 Marangio, Biccari, D’Angelo (bib15) 2022; 14 Gu, Gu, Eils (bib54) 2014; 30 Kamburov, Weirling, Lehrach, Herwig (bib52) 2009; 37 Fukushima, Fiocchi (bib44) 2004; 286 Rath, Haller (bib46) 2012; 18 Escher, Reiter, MacLean (bib49) 2012; 12 (bib56) 2016; 174 Mitsialis, Wall, Liu (bib41) 2020; 159 Czarnewski, Parigi, Sorini (bib29) 2019; 10 Beltran, Nos, Dasi (bib45) 2010; 16 Baugh, Perry, Hollander (bib12) 1999; 117 Khaloian, Rath, Hammoudi (bib47) 2020; 69 Koelink, Overbeek, Braber (bib18) 2014; 63 Kirov, Sasson, Zhang (bib11) 2019; 15 Rifkin, Rifkin, Zilberberg (bib37) 2018; 71–72 Ordás, Eckmann, Talamini (bib16) 2012; 380 Bons, Pan, Shah (bib24) 2023; 23 Solé, Unzeta (bib30) 2011 Moll, Divo, Langbein (bib28) 2008; 129 Mott, Werb (bib5) 2004; 16 Johansson, Gustafsson, Holmen-Larsson (bib36) 2014; 63 Smillie, Biton, Ordovas-Montanes (bib40) 2019; 178 Storey (bib50) 2002; 64 Naba, Clauser, Hoersh (bib53) 2012; 11 Ullman, Itzkowitz (bib20) 2011; 140 Muncie, Weaver (bib6) 2019; 130 Mortensen, Lindholm, Langholm (bib17) 2019; 10 Bissell, Hall, Parry (bib10) 1982; 99 Gordon, Agrawal, Willis (bib19) 2018; 47 Ingber (bib13) 2002; 70 McCabe, Saviola, Hansen (bib3) 2023; 22 Gillet, Navarro, Tate (bib21) 2012; 11 Iozzo, Schaefer (bib33) 2015; 42 Sakakura, Nishizuka, Dawe (bib4) 1976; 194 Troup, Njue, Kliewer (bib42) 2003; 9 Tomic, Morrissey, Kozar (bib48) 2018; 23 Pompili, Latella, Gaudio, Sferra, Vetuschi (bib2) 2021; 8 Pickup, Mouw, Weaver (bib14) 2014; 15 Shao (bib27) 2023; 51 Burger (10.1016/j.jcmgh.2024.01.003_bib51) 2018; 17 Charni (10.1016/j.jcmgh.2024.01.003_bib43) 2017; 24 Coussens (10.1016/j.jcmgh.2024.01.003_bib1) 2018; 23 McCabe (10.1016/j.jcmgh.2024.01.003_bib3) 2023; 22 Khaloian (10.1016/j.jcmgh.2024.01.003_bib47) 2020; 69 Smillie (10.1016/j.jcmgh.2024.01.003_bib40) 2019; 178 (10.1016/j.jcmgh.2024.01.003_bib56) 2016; 174 Mortensen (10.1016/j.jcmgh.2024.01.003_bib17) 2019; 10 Ullah (10.1016/j.jcmgh.2024.01.003_bib9) 2020; 7 Rana (10.1016/j.jcmgh.2024.01.003_bib8) 2017; 11 Mott (10.1016/j.jcmgh.2024.01.003_bib5) 2004; 16 Mak (10.1016/j.jcmgh.2024.01.003_bib38) 2020; 21 Collins (10.1016/j.jcmgh.2024.01.003_bib22) 2017; 8 Sakakura (10.1016/j.jcmgh.2024.01.003_bib4) 1976; 194 Pompili (10.1016/j.jcmgh.2024.01.003_bib2) 2021; 8 10.1016/j.jcmgh.2024.01.003_bib34 Love (10.1016/j.jcmgh.2024.01.003_bib55) 2014 Bons (10.1016/j.jcmgh.2024.01.003_bib24) 2023; 23 Tomic (10.1016/j.jcmgh.2024.01.003_bib48) 2018; 23 Shao (10.1016/j.jcmgh.2024.01.003_bib27) 2023; 51 Van der Sluis (10.1016/j.jcmgh.2024.01.003_bib26) 2006; 131 Johansson (10.1016/j.jcmgh.2024.01.003_bib36) 2014; 63 Nakayama (10.1016/j.jcmgh.2024.01.003_bib7) 2010; 16 Gordon (10.1016/j.jcmgh.2024.01.003_bib19) 2018; 47 Naba (10.1016/j.jcmgh.2024.01.003_bib53) 2012; 11 Ordás (10.1016/j.jcmgh.2024.01.003_bib16) 2012; 380 Hocking (10.1016/j.jcmgh.2024.01.003_bib32) 1998; 17 Velcich (10.1016/j.jcmgh.2024.01.003_bib25) 2002; 295 Gu (10.1016/j.jcmgh.2024.01.003_bib54) 2014; 30 Schaefer (10.1016/j.jcmgh.2024.01.003_bib31) 2008; 283 Baugh (10.1016/j.jcmgh.2024.01.003_bib12) 1999; 117 Troup (10.1016/j.jcmgh.2024.01.003_bib42) 2003; 9 Escher (10.1016/j.jcmgh.2024.01.003_bib49) 2012; 12 Rifkin (10.1016/j.jcmgh.2024.01.003_bib37) 2018; 71–72 Kamburov (10.1016/j.jcmgh.2024.01.003_bib52) 2009; 37 Mitsialis (10.1016/j.jcmgh.2024.01.003_bib41) 2020; 159 Marangio (10.1016/j.jcmgh.2024.01.003_bib15) 2022; 14 Ingber (10.1016/j.jcmgh.2024.01.003_bib13) 2002; 70 Czarnewski (10.1016/j.jcmgh.2024.01.003_bib29) 2019; 10 Muncie (10.1016/j.jcmgh.2024.01.003_bib6) 2019; 130 Rath (10.1016/j.jcmgh.2024.01.003_bib46) 2012; 18 Solé (10.1016/j.jcmgh.2024.01.003_bib30) 2011 Koelink (10.1016/j.jcmgh.2024.01.003_bib18) 2014; 63 Ullman (10.1016/j.jcmgh.2024.01.003_bib20) 2011; 140 Moll (10.1016/j.jcmgh.2024.01.003_bib28) 2008; 129 Shimshoni (10.1016/j.jcmgh.2024.01.003_bib35) 2020; 96 Kirov (10.1016/j.jcmgh.2024.01.003_bib11) 2019; 15 Beltran (10.1016/j.jcmgh.2024.01.003_bib45) 2010; 16 Storey (10.1016/j.jcmgh.2024.01.003_bib50) 2002; 64 Bissell (10.1016/j.jcmgh.2024.01.003_bib10) 1982; 99 Pickup (10.1016/j.jcmgh.2024.01.003_bib14) 2014; 15 Bruderer (10.1016/j.jcmgh.2024.01.003_bib23) 2017; 16 Kinchen (10.1016/j.jcmgh.2024.01.003_bib39) 2018; 175 Gillet (10.1016/j.jcmgh.2024.01.003_bib21) 2012; 11 Iozzo (10.1016/j.jcmgh.2024.01.003_bib33) 2015; 42 Fukushima (10.1016/j.jcmgh.2024.01.003_bib44) 2004; 286 38331388 - Cell Mol Gastroenterol Hepatol. 2024;17(4):660-661. doi: 10.1016/j.jcmgh.2024.01.019. |
| References_xml | – volume: 11 start-page: 1 year: 2012 end-page: 17 ident: bib21 article-title: Targeted data extraction of the MS/MS spectra generated by data-independent acquisition: a new concept for consistent and accurate proteome analysis publication-title: Mol Cell Proteomics – volume: 174 start-page: 245 year: 2016 end-page: 246 ident: bib56 article-title: Elegant Graphics for Data Analysis publication-title: Journal of the Royal Statistical Society Series A: Statistics in Society ggplot2 – volume: 70 start-page: 547 year: 2002 end-page: 560 ident: bib13 article-title: Cancer as a disease of epithelial-mesenchymal interactions and extracellular matrix regulation publication-title: Differentiation – volume: 17 start-page: 1 year: 1998 end-page: 19 ident: bib32 article-title: Leucine-rich repeat glycoproteins of the extracellular matrix publication-title: Matrix Biol – volume: 15 start-page: 1243 year: 2014 end-page: 1253 ident: bib14 article-title: The extracellular matrix modulates the hallmarks of cancer publication-title: EMBO Rep – volume: 14 start-page: 5903 year: 2022 ident: bib15 article-title: The study of the extracellular matrix in chronic inflammation: a way to prevent cancer initiation? publication-title: Cancers – volume: 21 start-page: 332 year: 2020 end-page: 335 ident: bib38 article-title: Epidemiology of fibrostenosing inflammatory bowel disease publication-title: J Dig Dis – volume: 24 start-page: 8 year: 2017 end-page: 14 ident: bib43 article-title: P53 on the crossroad between regeneration and cancer publication-title: Cell Death Differ – volume: 17 start-page: 12 year: 2018 end-page: 22 ident: bib51 article-title: Gentle introduction to the statistical foundations of false discovery rate in quantitative proteomics publication-title: J Proteome Res – volume: 16 start-page: 2296 year: 2017 end-page: 2309 ident: bib23 article-title: Optimization of experimental parameters in data-independent mass spectrometry significantly increases depth and reproducibility of results publication-title: Mol Cell Proteomics – reference: Isserlin R, Voisin V, Ailles L, et al. Cell-cell interaction database [DATASET]. Zenodo, 2020. – volume: 16 start-page: 2207 year: 2010 end-page: 2216 ident: bib7 article-title: Decellularized rhesus monkey kidney as a three-dimensional scaffold for renal tissue engineering publication-title: Tissue Eng – volume: 18 start-page: 1364 year: 2012 end-page: 1377 ident: bib46 article-title: Mitochondria at the interface between danger signaling and metabolism : role of unfolded protein responses in chronic inflammation publication-title: Basic Sci Rev – volume: 12 start-page: 1111 year: 2012 end-page: 1121 ident: bib49 article-title: Using iRT, a normalized retention time for more targeted measurement of peptides publication-title: Proteomics – volume: 23 year: 2023 ident: bib24 article-title: Data-independent acquisition and quantification of extracellular matrix from human lung in chronic inflammation-associated carcinomas publication-title: Proteomics – volume: 10 start-page: 1 year: 2019 end-page: 11 ident: bib29 article-title: Conserved transcriptomic profile between mouse and human colitis allows unsupervised patient stratification publication-title: Nat Commun – volume: 71–72 start-page: 90 year: 2018 end-page: 99 ident: bib37 article-title: LTBPs in biology and medicine: LTBP diseases publication-title: Matrix Biol – volume: 23 start-page: 436 year: 2018 end-page: 443 ident: bib48 article-title: Phospho-regulation of ATOH1 is required for plasticity of secretory progenitors and tissue regeneration publication-title: Cell Stem Cell – volume: 16 start-page: 76 year: 2010 end-page: 86 ident: bib45 article-title: Mitochondrial dysfunction, persistent oxidative damage, and catalase inhibition in immune cells of naïve and treated Crohn’s disease publication-title: Inflamm Bowel Dis – volume: 37 start-page: 623 year: 2009 end-page: 628 ident: bib52 article-title: ConsensusPathDB - a database for integrating human functional interaction networks publication-title: Nucleic Acids Res – volume: 69 start-page: 1939 year: 2020 end-page: 1951 ident: bib47 article-title: Mitochondrial impairment drives intestinal stem cell transition into dysfunctional Paneth cells predicting Crohn’s disease recurrence publication-title: Gut – volume: 51 start-page: D1519 year: 2023 end-page: D1530 ident: bib27 article-title: MatrisomeDB 2.0: 2023 updates to the ECM-protein knowledge database publication-title: Nucleic Acids Res – volume: 9 start-page: 207 year: 2003 end-page: 214 ident: bib42 article-title: Reduced expression of the small leucine-rich proteoglycans, lumican, and decorin is associated with poor outcome in node-negative invasive breast cancer publication-title: Clin Cancer Res – volume: 64 start-page: 479 year: 2002 end-page: 498 ident: bib50 article-title: A direct approach to false discovery rates publication-title: J R Stat Soc B Stat Methodol – volume: 10 start-page: 977 year: 2019 end-page: 993 ident: bib17 article-title: The intestinal tissue homeostasis–the role of extracellular matrix remodeling in inflammatory bowel disease publication-title: Gastroenterol Hepatol – volume: 131 start-page: 117 year: 2006 end-page: 129 ident: bib26 article-title: Muc2-deficient mice spontaneously develop colitis, indicating that MUC2 is critical for colonic protection publication-title: Gastroenterology – volume: 8 start-page: 1 year: 2021 end-page: 19 ident: bib2 article-title: The charming world of the extracellular matrix: a dynamic and protective network of the intestinal wall publication-title: Front Med – start-page: 103543 year: 2011 end-page: 103557 ident: bib30 article-title: Vascular cell lines expressing SSAO/VAP-1: a new experimental tool to study its involvement in vascular diseases publication-title: Biol Cell – volume: 42 start-page: 11 year: 2015 end-page: 55 ident: bib33 article-title: Proteoglycan form and function: a comprehensive nomenclature of proteoglycans publication-title: Matrix Biol – volume: 117 start-page: 814 year: 1999 end-page: 822 ident: bib12 article-title: Matrix metalloproteinase levels are elevated in inflammatory bowel disease publication-title: Gastroenterology – volume: 8 start-page: 1 year: 2017 end-page: 11 ident: bib22 article-title: Multi-laboratory assessment of reproducibility, qualitative and quantitative performance of SWATH-mass spectrometry publication-title: Nat Commun – volume: 140 start-page: 1807 year: 2011 end-page: 1816 ident: bib20 article-title: Intestinal inflammation and cancer publication-title: Gastroenterology – volume: 99 start-page: 31 year: 1982 end-page: 68 ident: bib10 article-title: How does the extracellular matrix direct gene expression? publication-title: J Theor Biol – volume: 11 year: 2012 ident: bib53 article-title: The matrisome: in silico definition and in vivo characterization by proteomics of normal and tumor extracellular matrices publication-title: Mol Cell Proteomics – volume: 63 start-page: 578 year: 2014 end-page: 587 ident: bib18 article-title: Collagen degradation and neutrophilic infiltration: a vicious circle in inflammatory bowel disease publication-title: Gut – volume: 178 start-page: 714 year: 2019 end-page: 730 ident: bib40 article-title: Intra- and inter-cellular rewiring of the human colon during ulcerative colitis publication-title: Cell – volume: 194 start-page: 1439 year: 1976 end-page: 1441 ident: bib4 article-title: Mesenchyme-dependent morphogenesis and epithelium-specific cytodifferentiation in mouse mammary gland publication-title: Science – volume: 380 start-page: 1606 year: 2012 end-page: 1619 ident: bib16 article-title: Ulcerative colitis publication-title: Lancet – volume: 96 start-page: 47 year: 2020 end-page: 68 ident: bib35 article-title: Distinct extracellular–matrix remodeling events precede symptoms of inflammation publication-title: Matrix Biol – volume: 283 start-page: 21305 year: 2008 end-page: 21309 ident: bib31 article-title: Biological functions of the small leucine-rich proteoglycans: from genetics to signal transduction publication-title: J Biol Chem – volume: 47 start-page: 922 year: 2018 end-page: 939 ident: bib19 article-title: Fibrosis in ulcerative colitis is directly linked to severity and chronicity of mucosal inflammation publication-title: Aliment Pharmacol Ther – volume: 30 start-page: 2811 year: 2014 end-page: 2812 ident: bib54 article-title: Circlize implements and enhances circular visualization in R publication-title: Bioinformatics – volume: 129 start-page: 705 year: 2008 end-page: 733 ident: bib28 article-title: The human keratins: biology and pathology publication-title: Histochem Cell Biol – volume: 7 start-page: 1 year: 2020 end-page: 10 ident: bib9 article-title: Adult tissue extracellular matrix determines tissue specification of human iPSC-derived embryonic stage mesodermal precursor cells publication-title: Adv Sci – volume: 175 start-page: 372 year: 2018 end-page: 386.e17 ident: bib39 article-title: Structural remodeling of the human colonic mesenchyme in inflammatory bowel disease publication-title: Cell – volume: 130 start-page: 1 year: 2019 end-page: 30 ident: bib6 article-title: The physical and biochemical properties of the extracellular matrix regulate cell fate publication-title: Curr Top Dev Biol – volume: 286 start-page: 804 year: 2004 end-page: 813 ident: bib44 article-title: Paradoxical decrease of mitochondrial DNA deletions in epithelial cells of active ulcerative colitis patients publication-title: Am J Physiol Gastrointest Liver Physiol – volume: 16 start-page: 558 year: 2004 end-page: 564 ident: bib5 article-title: Regulation of matrix biology by matrix metalloproteinases publication-title: Curr Opin Cell Biol – volume: 15 start-page: 67 year: 2019 end-page: 76 ident: bib11 article-title: Degradation of the extracellular matrix is part of the pathology of ulcerative colitis publication-title: Mol Omics – volume: 23: year: 2018 ident: bib1 article-title: Inflammation and cancer publication-title: Environmental Health and Preventive Medicine – volume: 11 start-page: 942 year: 2017 end-page: 965 ident: bib8 article-title: Development of decellularized scaffolds for stem cell-driven tissue engineering publication-title: J Tissue Eng Regen Med – volume: 63 start-page: 281 year: 2014 end-page: 291 ident: bib36 article-title: Bacteria penetrate the normally impenetrable inner colon mucus layer in both murine colitis models and patients with ulcerative colitis publication-title: Gut – volume: 159 start-page: 591 year: 2020 end-page: 608 ident: bib41 article-title: Single-cell analyses of colon and blood reveal distinct immune cell signatures of ulcerative colitis and Crohn’s disease publication-title: Gastroenterology – start-page: 1 year: 2014 end-page: 21 ident: bib55 article-title: Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2 publication-title: Genome Biology – volume: 295 start-page: 1726 year: 2002 end-page: 1729 ident: bib25 article-title: Colorectal cancer in mice genetically deficient in the mucin Muc2 publication-title: Science – volume: 22 start-page: 790 year: 2023 end-page: 801 ident: bib3 article-title: Mass spectrometry-based atlas of extracellular matrix proteins across 25 mouse organs publication-title: J Proteome Res – volume: 129 start-page: 705 year: 2008 ident: 10.1016/j.jcmgh.2024.01.003_bib28 article-title: The human keratins: biology and pathology publication-title: Histochem Cell Biol doi: 10.1007/s00418-008-0435-6 – volume: 12 start-page: 1111 year: 2012 ident: 10.1016/j.jcmgh.2024.01.003_bib49 article-title: Using iRT, a normalized retention time for more targeted measurement of peptides publication-title: Proteomics doi: 10.1002/pmic.201100463 – volume: 15 start-page: 67 year: 2019 ident: 10.1016/j.jcmgh.2024.01.003_bib11 article-title: Degradation of the extracellular matrix is part of the pathology of ulcerative colitis publication-title: Mol Omics doi: 10.1039/C8MO00239H – volume: 7 start-page: 1 year: 2020 ident: 10.1016/j.jcmgh.2024.01.003_bib9 article-title: Adult tissue extracellular matrix determines tissue specification of human iPSC-derived embryonic stage mesodermal precursor cells publication-title: Adv Sci doi: 10.1002/advs.201901198 – volume: 178 start-page: 714 year: 2019 ident: 10.1016/j.jcmgh.2024.01.003_bib40 article-title: Intra- and inter-cellular rewiring of the human colon during ulcerative colitis publication-title: Cell doi: 10.1016/j.cell.2019.06.029 – volume: 69 start-page: 1939 year: 2020 ident: 10.1016/j.jcmgh.2024.01.003_bib47 article-title: Mitochondrial impairment drives intestinal stem cell transition into dysfunctional Paneth cells predicting Crohn’s disease recurrence publication-title: Gut doi: 10.1136/gutjnl-2019-319514 – volume: 70 start-page: 547 year: 2002 ident: 10.1016/j.jcmgh.2024.01.003_bib13 article-title: Cancer as a disease of epithelial-mesenchymal interactions and extracellular matrix regulation publication-title: Differentiation doi: 10.1046/j.1432-0436.2002.700908.x – volume: 71–72 start-page: 90 year: 2018 ident: 10.1016/j.jcmgh.2024.01.003_bib37 article-title: LTBPs in biology and medicine: LTBP diseases publication-title: Matrix Biol doi: 10.1016/j.matbio.2017.11.014 – volume: 24 start-page: 8 year: 2017 ident: 10.1016/j.jcmgh.2024.01.003_bib43 article-title: P53 on the crossroad between regeneration and cancer publication-title: Cell Death Differ doi: 10.1038/cdd.2016.117 – volume: 64 start-page: 479 year: 2002 ident: 10.1016/j.jcmgh.2024.01.003_bib50 article-title: A direct approach to false discovery rates publication-title: J R Stat Soc B Stat Methodol doi: 10.1111/1467-9868.00346 – volume: 17 start-page: 12 year: 2018 ident: 10.1016/j.jcmgh.2024.01.003_bib51 article-title: Gentle introduction to the statistical foundations of false discovery rate in quantitative proteomics publication-title: J Proteome Res doi: 10.1021/acs.jproteome.7b00170 – volume: 16 start-page: 2207 year: 2010 ident: 10.1016/j.jcmgh.2024.01.003_bib7 article-title: Decellularized rhesus monkey kidney as a three-dimensional scaffold for renal tissue engineering publication-title: Tissue Eng doi: 10.1089/ten.tea.2009.0602 – volume: 174 start-page: 245 issue: 1 year: 2016 ident: 10.1016/j.jcmgh.2024.01.003_bib56 article-title: Elegant Graphics for Data Analysis publication-title: Journal of the Royal Statistical Society Series A: Statistics in Society ggplot2 – volume: 15 start-page: 1243 year: 2014 ident: 10.1016/j.jcmgh.2024.01.003_bib14 article-title: The extracellular matrix modulates the hallmarks of cancer publication-title: EMBO Rep doi: 10.15252/embr.201439246 – volume: 16 start-page: 2296 year: 2017 ident: 10.1016/j.jcmgh.2024.01.003_bib23 article-title: Optimization of experimental parameters in data-independent mass spectrometry significantly increases depth and reproducibility of results publication-title: Mol Cell Proteomics doi: 10.1074/mcp.RA117.000314 – volume: 23 start-page: 436 year: 2018 ident: 10.1016/j.jcmgh.2024.01.003_bib48 article-title: Phospho-regulation of ATOH1 is required for plasticity of secretory progenitors and tissue regeneration publication-title: Cell Stem Cell doi: 10.1016/j.stem.2018.07.002 – volume: 22 start-page: 790 year: 2023 ident: 10.1016/j.jcmgh.2024.01.003_bib3 article-title: Mass spectrometry-based atlas of extracellular matrix proteins across 25 mouse organs publication-title: J Proteome Res doi: 10.1021/acs.jproteome.2c00526 – volume: 16 start-page: 558 year: 2004 ident: 10.1016/j.jcmgh.2024.01.003_bib5 article-title: Regulation of matrix biology by matrix metalloproteinases publication-title: Curr Opin Cell Biol doi: 10.1016/j.ceb.2004.07.010 – volume: 30 start-page: 2811 year: 2014 ident: 10.1016/j.jcmgh.2024.01.003_bib54 article-title: Circlize implements and enhances circular visualization in R publication-title: Bioinformatics doi: 10.1093/bioinformatics/btu393 – volume: 47 start-page: 922 year: 2018 ident: 10.1016/j.jcmgh.2024.01.003_bib19 article-title: Fibrosis in ulcerative colitis is directly linked to severity and chronicity of mucosal inflammation publication-title: Aliment Pharmacol Ther doi: 10.1111/apt.14526 – volume: 11 start-page: 1 year: 2012 ident: 10.1016/j.jcmgh.2024.01.003_bib21 article-title: Targeted data extraction of the MS/MS spectra generated by data-independent acquisition: a new concept for consistent and accurate proteome analysis publication-title: Mol Cell Proteomics doi: 10.1074/mcp.O111.016717 – volume: 11 year: 2012 ident: 10.1016/j.jcmgh.2024.01.003_bib53 article-title: The matrisome: in silico definition and in vivo characterization by proteomics of normal and tumor extracellular matrices publication-title: Mol Cell Proteomics doi: 10.1074/mcp.M111.014647 – volume: 140 start-page: 1807 year: 2011 ident: 10.1016/j.jcmgh.2024.01.003_bib20 article-title: Intestinal inflammation and cancer publication-title: Gastroenterology doi: 10.1053/j.gastro.2011.01.057 – start-page: 103543 year: 2011 ident: 10.1016/j.jcmgh.2024.01.003_bib30 article-title: Vascular cell lines expressing SSAO/VAP-1: a new experimental tool to study its involvement in vascular diseases publication-title: Biol Cell – volume: 295 start-page: 1726 year: 2002 ident: 10.1016/j.jcmgh.2024.01.003_bib25 article-title: Colorectal cancer in mice genetically deficient in the mucin Muc2 publication-title: Science doi: 10.1126/science.1069094 – volume: 37 start-page: 623 issue: Suppl 1 year: 2009 ident: 10.1016/j.jcmgh.2024.01.003_bib52 article-title: ConsensusPathDB - a database for integrating human functional interaction networks publication-title: Nucleic Acids Res doi: 10.1093/nar/gkn698 – volume: 23: issue: 860–867 year: 2018 ident: 10.1016/j.jcmgh.2024.01.003_bib1 article-title: Inflammation and cancer publication-title: Environmental Health and Preventive Medicine – volume: 18 start-page: 1364 year: 2012 ident: 10.1016/j.jcmgh.2024.01.003_bib46 article-title: Mitochondria at the interface between danger signaling and metabolism : role of unfolded protein responses in chronic inflammation publication-title: Basic Sci Rev – volume: 51 start-page: D1519 year: 2023 ident: 10.1016/j.jcmgh.2024.01.003_bib27 article-title: MatrisomeDB 2.0: 2023 updates to the ECM-protein knowledge database publication-title: Nucleic Acids Res doi: 10.1093/nar/gkac1009 – volume: 23 year: 2023 ident: 10.1016/j.jcmgh.2024.01.003_bib24 article-title: Data-independent acquisition and quantification of extracellular matrix from human lung in chronic inflammation-associated carcinomas publication-title: Proteomics doi: 10.1002/pmic.202200021 – volume: 159 start-page: 591 year: 2020 ident: 10.1016/j.jcmgh.2024.01.003_bib41 article-title: Single-cell analyses of colon and blood reveal distinct immune cell signatures of ulcerative colitis and Crohn’s disease publication-title: Gastroenterology doi: 10.1053/j.gastro.2020.04.074 – volume: 10 start-page: 1 year: 2019 ident: 10.1016/j.jcmgh.2024.01.003_bib29 article-title: Conserved transcriptomic profile between mouse and human colitis allows unsupervised patient stratification publication-title: Nat Commun doi: 10.1038/s41467-019-10769-x – volume: 17 start-page: 1 year: 1998 ident: 10.1016/j.jcmgh.2024.01.003_bib32 article-title: Leucine-rich repeat glycoproteins of the extracellular matrix publication-title: Matrix Biol doi: 10.1016/S0945-053X(98)90121-4 – volume: 175 start-page: 372 year: 2018 ident: 10.1016/j.jcmgh.2024.01.003_bib39 article-title: Structural remodeling of the human colonic mesenchyme in inflammatory bowel disease publication-title: Cell doi: 10.1016/j.cell.2018.08.067 – volume: 286 start-page: 804 year: 2004 ident: 10.1016/j.jcmgh.2024.01.003_bib44 article-title: Paradoxical decrease of mitochondrial DNA deletions in epithelial cells of active ulcerative colitis patients publication-title: Am J Physiol Gastrointest Liver Physiol doi: 10.1152/ajpgi.00398.2003 – volume: 117 start-page: 814 year: 1999 ident: 10.1016/j.jcmgh.2024.01.003_bib12 article-title: Matrix metalloproteinase levels are elevated in inflammatory bowel disease publication-title: Gastroenterology doi: 10.1016/S0016-5085(99)70339-2 – volume: 8 start-page: 1 year: 2017 ident: 10.1016/j.jcmgh.2024.01.003_bib22 article-title: Multi-laboratory assessment of reproducibility, qualitative and quantitative performance of SWATH-mass spectrometry publication-title: Nat Commun doi: 10.1038/s41467-017-00249-5 – ident: 10.1016/j.jcmgh.2024.01.003_bib34 – volume: 63 start-page: 578 year: 2014 ident: 10.1016/j.jcmgh.2024.01.003_bib18 article-title: Collagen degradation and neutrophilic infiltration: a vicious circle in inflammatory bowel disease publication-title: Gut doi: 10.1136/gutjnl-2012-303252 – volume: 194 start-page: 1439 year: 1976 ident: 10.1016/j.jcmgh.2024.01.003_bib4 article-title: Mesenchyme-dependent morphogenesis and epithelium-specific cytodifferentiation in mouse mammary gland publication-title: Science doi: 10.1126/science.827022 – volume: 9 start-page: 207 year: 2003 ident: 10.1016/j.jcmgh.2024.01.003_bib42 article-title: Reduced expression of the small leucine-rich proteoglycans, lumican, and decorin is associated with poor outcome in node-negative invasive breast cancer publication-title: Clin Cancer Res – volume: 14 start-page: 5903 year: 2022 ident: 10.1016/j.jcmgh.2024.01.003_bib15 article-title: The study of the extracellular matrix in chronic inflammation: a way to prevent cancer initiation? publication-title: Cancers doi: 10.3390/cancers14235903 – volume: 21 start-page: 332 year: 2020 ident: 10.1016/j.jcmgh.2024.01.003_bib38 article-title: Epidemiology of fibrostenosing inflammatory bowel disease publication-title: J Dig Dis – volume: 96 start-page: 47 year: 2020 ident: 10.1016/j.jcmgh.2024.01.003_bib35 article-title: Distinct extracellular–matrix remodeling events precede symptoms of inflammation publication-title: Matrix Biol doi: 10.1016/j.matbio.2020.11.001 – volume: 283 start-page: 21305 year: 2008 ident: 10.1016/j.jcmgh.2024.01.003_bib31 article-title: Biological functions of the small leucine-rich proteoglycans: from genetics to signal transduction publication-title: J Biol Chem doi: 10.1074/jbc.R800020200 – volume: 130 start-page: 1 year: 2019 ident: 10.1016/j.jcmgh.2024.01.003_bib6 article-title: The physical and biochemical properties of the extracellular matrix regulate cell fate publication-title: Curr Top Dev Biol – volume: 10 start-page: 977 year: 2019 ident: 10.1016/j.jcmgh.2024.01.003_bib17 article-title: The intestinal tissue homeostasis–the role of extracellular matrix remodeling in inflammatory bowel disease publication-title: Gastroenterol Hepatol – volume: 42 start-page: 11 year: 2015 ident: 10.1016/j.jcmgh.2024.01.003_bib33 article-title: Proteoglycan form and function: a comprehensive nomenclature of proteoglycans publication-title: Matrix Biol doi: 10.1016/j.matbio.2015.02.003 – volume: 380 start-page: 1606 year: 2012 ident: 10.1016/j.jcmgh.2024.01.003_bib16 article-title: Ulcerative colitis publication-title: Lancet doi: 10.1016/S0140-6736(12)60150-0 – volume: 131 start-page: 117 year: 2006 ident: 10.1016/j.jcmgh.2024.01.003_bib26 article-title: Muc2-deficient mice spontaneously develop colitis, indicating that MUC2 is critical for colonic protection publication-title: Gastroenterology doi: 10.1053/j.gastro.2006.04.020 – volume: 99 start-page: 31 year: 1982 ident: 10.1016/j.jcmgh.2024.01.003_bib10 article-title: How does the extracellular matrix direct gene expression? publication-title: J Theor Biol doi: 10.1016/0022-5193(82)90388-5 – volume: 63 start-page: 281 year: 2014 ident: 10.1016/j.jcmgh.2024.01.003_bib36 article-title: Bacteria penetrate the normally impenetrable inner colon mucus layer in both murine colitis models and patients with ulcerative colitis publication-title: Gut doi: 10.1136/gutjnl-2012-303207 – start-page: 1 year: 2014 ident: 10.1016/j.jcmgh.2024.01.003_bib55 article-title: Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2 publication-title: Genome Biology – volume: 11 start-page: 942 year: 2017 ident: 10.1016/j.jcmgh.2024.01.003_bib8 article-title: Development of decellularized scaffolds for stem cell-driven tissue engineering publication-title: J Tissue Eng Regen Med doi: 10.1002/term.2061 – volume: 16 start-page: 76 year: 2010 ident: 10.1016/j.jcmgh.2024.01.003_bib45 article-title: Mitochondrial dysfunction, persistent oxidative damage, and catalase inhibition in immune cells of naïve and treated Crohn’s disease publication-title: Inflamm Bowel Dis doi: 10.1002/ibd.21027 – volume: 8 start-page: 1 year: 2021 ident: 10.1016/j.jcmgh.2024.01.003_bib2 article-title: The charming world of the extracellular matrix: a dynamic and protective network of the intestinal wall publication-title: Front Med doi: 10.3389/fmed.2021.610189 – reference: 38331388 - Cell Mol Gastroenterol Hepatol. 2024;17(4):660-661. doi: 10.1016/j.jcmgh.2024.01.019. |
| SSID | ssj0001476705 |
| Score | 2.3002367 |
| Snippet | Chronic inflammatory illnesses are debilitating and recurrent conditions associated with significant comorbidities, including an increased risk of developing... Background & AimsChronic inflammatory illnesses are debilitating and recurrent conditions associated with significant comorbidities, including an increased... |
| SourceID | proquest pubmed crossref elsevier |
| SourceType | Aggregation Database Index Database Publisher |
| StartPage | 639 |
| SubjectTerms | Animals Cell-Matrix Interactions Chronic Disease Colitis - pathology DIA Proteomics Disease Progression Extracellular Matrix - metabolism Gastroenterology and Hepatology Inflammatory Bowel Disease Mice Proteoglycans Proteomics |
| Title | Extracellular Matrix Orchestration of Tissue Remodeling in the Chronically Inflamed Mouse Colon |
| URI | https://www.clinicalkey.com/#!/content/1-s2.0-S2352345X24000031 https://www.clinicalkey.es/playcontent/1-s2.0-S2352345X24000031 https://dx.doi.org/10.1016/j.jcmgh.2024.01.003 https://www.ncbi.nlm.nih.gov/pubmed/38199279 https://www.proquest.com/docview/2913449529 |
| Volume | 17 |
| WOSCitedRecordID | wos001202089000001&url=https%3A%2F%2Fcvtisr.summon.serialssolutions.com%2F%23%21%2Fsearch%3Fho%3Df%26include.ft.matches%3Dt%26l%3Dnull%26q%3D |
| hasFullText | 1 |
| inHoldings | 1 |
| isFullTextHit | |
| isPrint | |
| journalDatabaseRights | – providerCode: PRVAON databaseName: DOAJ Directory of Open Access Journals customDbUrl: eissn: 2352-345X dateEnd: 99991231 omitProxy: false ssIdentifier: ssj0001476705 issn: 2352-345X databaseCode: DOA dateStart: 20150101 isFulltext: true titleUrlDefault: https://www.doaj.org/ providerName: Directory of Open Access Journals |
| link | http://cvtisr.summon.serialssolutions.com/2.0.0/link/0/eLvHCXMwtV1Lj9MwELa6C0JcEG_KY2UkbiWrxHbi-girAhLbBYki9WY5ibO06qarpFuVX8rfYWzHaatueUlcosiJE2fmk2c8GX-D0KuM5yTRvAgyzeKACVYEaU5JoHNDXs7iWLmNwqf87Kw_HovPnc4PvxdmOeNl2V-txOV_VTW0gbLN1tm_UHf7UGiAc1A6HEHtcPwjxQ9Wi0qZeLxNMB0aCv5V71NlC2NVrYM4sgIH6dpSOM3GFuOENmy5ajb7DpNHAYABl3Q4v6pNfbtZo0RPbeDfYqLvF77Qbu9cwZvmhuyzWjM8fQO7t9iK4cNDGwaDwWxSq3X957fzsvk7ocqyNRvvJ2qpbFWkHpyuAwmnIBTDxmndcBMd0puRDLd12k11BNzAgLJ47KzSNW1-ruYbmGQbE2_iKJEaG544svId8-AiFdPjaXZxbv5EEWY5W0O6toY-A2Bw8jEKanIcBl_MSMxATLqtmQS3b3ZLKVkTGcqdWw_QDcJhzbax1rfBP8YTbtNr26_0jFg293BnfPu8pn2rIusdje6iO82yBr9xcLyHOrq8j24Nm8SNB0huoRI7VOItVOJ5gR0q8RqVeFJiQCXeQCX2qMQWldii8iH6-m4wOvkQNLU9gowl0SKgeSJ0FKYpEQXV4BcX4KrSVBSwHCFRpChReZHGlIGLmZEYbokVi6nICp4pmmf0ETos56V-gnCkudb9lJtaB4wJuJxEimSUhoUgKS266LWXnbx0FC7S5zZOpRW1NKKWYWSYcruIeflKvzsZ7KkEDP26G7-um66bqaGW-zDSRUnbs3F7nTv7-1e-9OqXYBSMDlWpQfSSmHwaJmIiuuixw0X76SZEIwgXT_95wM_QbTMKF4h8jg4X1ZV-gW5my8Wkro7QAR_3jyzefwKDc-eU |
| linkProvider | Directory of Open Access Journals |
| openUrl | ctx_ver=Z39.88-2004&ctx_enc=info%3Aofi%2Fenc%3AUTF-8&rfr_id=info%3Asid%2Fsummon.serialssolutions.com&rft_val_fmt=info%3Aofi%2Ffmt%3Akev%3Amtx%3Ajournal&rft.genre=article&rft.atitle=Extracellular+Matrix+Orchestration+of+Tissue+Remodeling+in+the+Chronically+Inflamed+Mouse+Colon&rft.jtitle=Cellular+and+molecular+gastroenterology+and+hepatology&rft.au=Moutin%2C+Elisa+B&rft.au=Bons%2C+Joanna&rft.au=Giavara%2C+Giada&rft.au=Lourenco%2C+Filipe&rft.date=2024&rft.issn=2352-345X&rft.eissn=2352-345X&rft.volume=17&rft.issue=4&rft.spage=639&rft.epage=656&rft_id=info:doi/10.1016%2Fj.jcmgh.2024.01.003&rft.externalDBID=ECK1-s2.0-S2352345X24000031&rft.externalDocID=1_s2_0_S2352345X24000031 |
| thumbnail_m | http://cvtisr.summon.serialssolutions.com/2.0.0/image/custom?url=https%3A%2F%2Fcdn.clinicalkey.com%2Fck-thumbnails%2F2352345X%2Fcov200h.gif |