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Institute of Biochemistry, Biological Research Centre, Szeged, 6726, Hungary
Department of Immunology and Biotechnology, University of Pécs, Pécs, 7624, Hungary
Lymphoid Organogenesis Research Group, Szentágothai János Research Center, University of Pécs, Pécs, 7624, Hungary
1st Department of Internal Medicine, Medical School, University of Pécs, Pécs, 7624, Hungary
Department of Physiology, Anatomy and Neuroscience, University of Szeged, Szeged, 6726, Hungary
Institute of Pediatrics and Pediatric Health Center, University of Szeged, Szeged, 6720, Hungary
Seqomics Biotechnology Ltd., Mórahalom, 6782, Hungary
Cited By :3
Export Date: 16 October 2023
Correspondence Address: Nagy, I.; Institute of Biochemistry, Hungary; email: nagyi@baygen.hu
Correspondence Address: Nagy, I.; Seqomics Biotechnology Ltd.Hungary; email: nagyi@baygen.hu
Chemicals/CAS: alpha4 integrin, 355485-74-4; CD18 antigen, 172592-43-7; chemokine receptor CXCR4, 188900-71-2; endothelial leukocyte adhesion molecule 1, 128875-25-2; fucosyltransferase, 56626-18-7; gelatinase A, 146480-35-5; intercellular adhesion molecule 1, 126547-89-5; interleukin 8, 114308-91-7; L selectin, 126880-86-2; macrophage elastase; matrix metalloproteinase 14; trinitrobenzenesulfonic acid, 16655-63-3, 2508-19-2; tumor necrosis factor alpha induced protein 3; ubiquitin carboxyl terminal hydrolase 7; ubiquitin carboxyl terminal hydrolase CYLD; Trinitrobenzenesulfonic Acid
Funding details: GINOP-2.3.2-15-2016-00039
Funding details: European Commission, EC
Funding details: European Social Fund, ESF, -19-B-0076, A2-ELMH-12-0082, NTP-NFTÖ-19-B-0076
Funding text 1: Funding: This work was funded, in part, by a grant from the National Research, Development and Innovation Office (grant number GINOP-2.3.2-15-2016-00039). Éva Boros was funded by the European Union and the State of Hungary, co-financed by the European Social Fund in the framework of the ‘National Excellence Program’ (grant number A2-ELMH-12-0082) and supported by NTP-NFTÖ-19-B (grant number NTP-NFTÖ-19-B-0076).
Funding text 2: This work was funded, in part, by a grant from the National Research, Development and Innovation Office (grant number GINOP-2.3.2-15-2016-00039). ?va Boros was funded by the European Union and the State of Hungary, co-financed by the European Social Fund in the framework of the ?National Excellence Program? (grant number A2-ELMH-12-0082) and supported by NTP-NFT?-19-B (grant number NTP-NFT?-19-B-0076).
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Transcriptome Based Profiling of the Immune Cell Gene Signature in Rat Experimental Colitis and Human IBD Tissue Samples
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Chronic intestinal inflammation is characteristic of Inflammatory Bowel Disease (IBD) that is associated with the exaggerated infiltration of immune cells. A complex interplay of inflammatory mediators and different cell types in the colon are responsible for the maintenance of tissue homeostasis and affect pathological conditions. Gene expression alteration of colon biopsies from IBD patients and an in vivo rat model of colitis were examined by RNA-Seq and QPCR, while we used in silico methods, such as Ingenuity Pathway Analysis (IPA) application and the Immune Gene Signature (ImSig) package of R, to interpret whole transcriptome data and estimate immune cell composition of colon tissues. Transcriptome profiling of in vivo colitis model revealed the most significant activation of signaling pathways responsible for leukocyte recruitment and diapedesis. We observed significant alteration of genes related to glycosylation or sensing of danger signals and pro- and anti-inflammatory cytokines and chemokines, as well as adhesion molecules. We observed the elevated expression of genes that implies the accumulation of monocytes, macrophages, neutrophils and B cells in the inflamed colon tissue. In contrast, the rate of T-cells slightly decreased in the inflamed regions. Interestingly, natural killer and plasma cells do not show enrichment upon colon inflammation. In general, whole transcriptome analysis of the in vivo experimental model of colitis with subsequent bioinformatics analysis provided a better understanding of the dynamic changes in the colon tissue of IBD patients.
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Biokémiai Intézet (HRN SZBK); Gyermekgyógyászati Klinika és Gyermek Egészségü... (SZTE / SZAOK); I.sz. Belgyógyászati Klinika (PTE / ÁOK); Immunológiai és Biotechnológiai Intézet (PTE / ÁOK); Nyirokszövet fejlődésbiológiai kutatócsoport (PTE / SZKK); Élettani, Szervezettani és Idegtudományi Tanszék (SZTE / TTIK / BI)
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<div class="JournalArticle Publication short-list"> <div class="authors"> <span class="author-name" mtid="10059533"> <a href="/gui2/?type=authors&mode=browse&sel=10059533" target="_blank">Boros, Éva</a> </span> <span class="author-type"> </span> ; <span class="author-name" > Prontvai, Bence </span> <span class="author-type"> </span> ; <span class="author-name" mtid="10021059"> <a href="/gui2/?type=authors&mode=browse&sel=10021059" target="_blank">Kellermayer, Zoltán</a> </span> <span class="author-type"> </span> ; <span class="author-name" mtid="10000683"> <a href="/gui2/?type=authors&mode=browse&sel=10000683" target="_blank">Balogh, Péter</a> </span> <span class="author-type"> </span> ; <span class="author-name" mtid="10016599"> <a href="/gui2/?type=authors&mode=browse&sel=10016599" target="_blank">Sarlós, Patrícia</a> </span> <span class="author-type"> </span> ; <span class="author-name" mtid="10016651"> <a href="/gui2/?type=authors&mode=browse&sel=10016651" target="_blank">Vincze, Áron</a> </span> <span class="author-type"> </span> ; <span class="author-name" mtid="10011205"> <a href="/gui2/?type=authors&mode=browse&sel=10011205" target="_blank">Varga, Csaba</a> </span> <span class="author-type"> </span> ; <span class="author-name" mtid="10023912"> <a href="/gui2/?type=authors&mode=browse&sel=10023912" target="_blank">Maróti, Zoltán</a> </span> <span class="author-type"> </span> ; <span class="author-name" mtid="10024896"> <a href="/gui2/?type=authors&mode=browse&sel=10024896" target="_blank">Bálint, Balázs</a> </span> <span class="author-type"> </span> ; <span class="author-name" mtid="10026761"> <a href="/gui2/?type=authors&mode=browse&sel=10026761" target="_blank">Nagy, István ✉</a> </span> <span class="author-type"> </span> </div ><div class="title"><a href="/gui2/?mode=browse¶ms=publication;31368904" mtid="31368904" target="_blank">Transcriptome Based Profiling of the Immune Cell Gene Signature in Rat Experimental Colitis and Human IBD Tissue Samples</a></div> <div class="pub-info"> <span class="journal-title">BIOMOLECULES</span> <span class="journal-volume">10</span> : <span class="journal-issue">7</span> <span class="page"> Paper: 974 , 21 p. </span> <span class="year">(2020)</span> </div> <div class="pub-end"><div class="identifier-list"> <span class="identifiers"> <span class="id identifier oa_GOLD" title=" Gold "> <a style="color:blue" title="10.3390/biom10070974" target="_blank" href="https://doi.org/10.3390/biom10070974"> DOI </a> </span> <span class="id identifier oa_none" title="none"> <a style="color:blue" title="000556352600001" target="_blank" href="https://www.webofscience.com/wos/woscc/full-record/000556352600001"> WoS </a> </span> <span class="id identifier oa_GREEN" title=" Green "> <a style="color:black" title="117557" target="_blank" href="http://real.mtak.hu/117557"> REAL </a> </span> <span class="id identifier oa_none" title="none"> <a style="color:blue" title="85087145668" target="_blank" href="http://www.scopus.com/record/display.url?origin=inward&eid=2-s2.0-85087145668"> Scopus </a> </span> <span class="id identifier oa_none" title="none"> <a style="color:blue" title="32610492" target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=32610492&dopt=Abstract"> PubMed </a> </span> <span class="id identifier oa_GREEN" title=" Green "> <a style="color:blue" title="21039" target="_blank" href="http://publicatio.bibl.u-szeged.hu/21039"> SZTE Publicatio </a> </span> </span> </div> <div class="short-pub-prop-list"> <span class="short-pub-mtid"> Közlemény:31368904 </span> <span class="status-holder"><span class="status-data status-VALIDATED"> Egyeztetett </span></span> <span class="pub-core">Forrás Idéző </span> <span class="pub-type">Folyóiratcikk (Szakcikk ) </span> <!-- && !record.category.scientific --> <span class="pub-category">Tudományos</span> <div class="publication-citation" style="margin-left: 0.5cm;"> <span title="Nyilvános idézőközlemények összesen, említések nélkül" class="citingPub-count">Nyilvános idéző összesen: 4</span> | Független: 3 | Függő: 1 | Nem jelölt: 0 | WoS jelölt: 4 | Scopus jelölt: 3 | WoS/Scopus jelölt: 4 | DOI jelölt: 4 </div> </div> </div> </div><div class="JournalArticle Publication long-list">
<div class="authors">
<img title="Forrásközlemény" style="float: left" src="/frontend/resources/grid/publication-core-icon.png">
<img title="Idézőközlemény" style="float: left" src="/frontend/resources/grid/publication-citation-icon.png">
<div class="autype autype0"> <span class="author-name" mtid="10059533"><a
href="/gui2/?type=authors&mode=browse&sel=10059533" target="_blank">Boros Éva
(<span class="authorship-author-name">Boros Éva</span>
<span class="authorAux-mtmt"> immunológia</span>)
</a>
</span>
<span class="author-affil"><span title="Szegedi Biológiai Kutatóközpont">SZBK</span>/Biokémiai Intézet</span>
;
<span class="author-name" >Prontvai Bence
</span>
;
<span class="author-name" mtid="10021059"><a
href="/gui2/?type=authors&mode=browse&sel=10021059" target="_blank">Kellermayer Zoltán
(<span class="authorship-author-name">Kellermayer Zoltán</span>
<span class="authorAux-mtmt"> PhD Orvostudomány</span>)
</a>
</span>
<span class="author-affil"><span title="Pécsi Tudományegyetem">PTE</span>/<span title="Általános Orvostudományi Kar">ÁOK</span>/Immunológiai és Biotechnológiai Intézet; <span title="Pécsi Tudományegyetem">PTE</span>/<span title="Szentágothai János Kutatóközpont">SZKK</span>/Nyirokszövet fejlődésbiológiai kutatócsoport</span>
;
<span class="author-name" mtid="10000683"><a
href="/gui2/?type=authors&mode=browse&sel=10000683" target="_blank">Balogh Péter
(<span class="authorship-author-name">Balogh Péter</span>
<span class="authorAux-mtmt"> Immunológia</span>)
</a>
</span>
<span class="author-affil"><span title="Pécsi Tudományegyetem">PTE</span>/<span title="Általános Orvostudományi Kar">ÁOK</span>/Immunológiai és Biotechnológiai Intézet; <span title="Pécsi Tudományegyetem">PTE</span>/<span title="Szentágothai János Kutatóközpont">SZKK</span>/Nyirokszövet fejlődésbiológiai kutatócsoport</span>
;
<span class="author-name" mtid="10016599"><a
href="/gui2/?type=authors&mode=browse&sel=10016599" target="_blank">Sarlós Patrícia
(<span class="authorship-author-name">Sarlós Patrícia</span>
<span class="authorAux-mtmt"> Gasztroenterológia</span>)
</a>
</span>
<span class="author-affil"><span title="Pécsi Tudományegyetem">PTE</span>/<span title="Általános Orvostudományi Kar">ÁOK</span>/I.sz. Belgyógyászati Klinika</span>
;
<span class="author-name" mtid="10016651"><a
href="/gui2/?type=authors&mode=browse&sel=10016651" target="_blank">Vincze Áron
(<span class="authorship-author-name">Vincze Áron</span>
<span class="authorAux-mtmt"> Klinikai gasztroenterológia</span>)
</a>
</span>
<span class="author-affil"><span title="Pécsi Tudományegyetem">PTE</span>/<span title="Általános Orvostudományi Kar">ÁOK</span>/I.sz. Belgyógyászati Klinika</span>
;
<span class="author-name" mtid="10011205"><a
href="/gui2/?type=authors&mode=browse&sel=10011205" target="_blank">Varga Csaba
(<span class="authorship-author-name">Varga Csaba</span>
<span class="authorAux-mtmt"> Endokrinológia, gastroenterológia, farmakológia</span>)
</a>
</span>
<span class="author-affil"><span title="Szegedi Tudományegyetem">SZTE</span>/<span title="Természettudományi és Informatikai Kar">TTIK</span>/<span title="Biológia Intézet">BI</span>/Élettani, Szervezettani és Idegtudományi Tanszék</span>
;
<span class="author-name" mtid="10023912"><a
href="/gui2/?type=authors&mode=browse&sel=10023912" target="_blank">Maróti Zoltán
(<span class="authorship-author-name">Maróti Zoltán</span>
<span class="authorAux-mtmt"> Humán genetika, klinikai genetika</span>)
</a>
</span>
<span class="author-affil"><span title="Szegedi Tudományegyetem">SZTE</span>/<span title="Általános Orvostudományi Kar">ÁOK</span>/Gyermekgyógyászati Klinika és Gyermek Egészségügyi Központ</span>
;
<span class="author-name" mtid="10024896"><a
href="/gui2/?type=authors&mode=browse&sel=10024896" target="_blank">Bálint Balázs
(<span class="authorship-author-name">Bálint Balázs</span>
<span class="authorAux-mtmt"> biológia, bioinformatika</span>)
</a>
</span>
;
<span class="author-name" mtid="10026761"><a
href="/gui2/?type=authors&mode=browse&sel=10026761" target="_blank">Nagy István ✉
(<span class="authorship-author-name">Nagy István</span>
<span class="authorAux-mtmt"> Genomika, immunológia</span>)
</a>
</span>
<span class="author-affil"><span title="Szegedi Biológiai Kutatóközpont">SZBK</span>/Biokémiai Intézet</span>
</div>
</div>
<div class="title"><a href="/gui2/?mode=browse¶ms=publication;31368904" target="_blank">Transcriptome Based Profiling of the Immune Cell Gene Signature in Rat Experimental Colitis and Human IBD Tissue Samples</a></div> <div> <span class="journal-title">BIOMOLECULES</span>
<span class="journal-issn">(<a target="_blank" href="https://portal.issn.org/resource/ISSN/2218-273X">2218-273X</a> <a target="_blank" href="https://portal.issn.org/resource/ISSN/2218-273X">2218-273X</a>)</span>:
<span class="journal-volume">10</span> <span class="journal-issue">7</span>
<span class="page">
Paper 974.
21 p.
</span> <span class="year">(2020)</span>
</div>
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Angol
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Forrás Idéző
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<div class="funder"> (2.3.2-15-2016-00039) Támogató: GINOP </div>
<div class="lastModified">Utolsó módosítás: 2023.09.02. 17:39 Milánkovics Róbert (PTE ÁOK admin 4)
</div>
<pre class="comment" style="margin-top: 0; margin-bottom: 0;"><u>Megjegyzés</u>: Institute of Biochemistry, Biological Research Centre, Szeged, 6726, Hungary
Department of Immunology and Biotechnology, University of Pécs, Pécs, 7624, Hungary
Lymphoid Organogenesis Research Group, Szentágothai János Research Center, University of Pécs, Pécs, 7624, Hungary
1st Department of Internal Medicine, Medical Scho...</pre>
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