Publications

Selection of validated hypervariable regions is crucial in 16S-based microbiota studies of the female genital tract
Simon Graspeuntner, Nathalie Loeper, Sven Künzel, John F. Baines & Jan Rupp
(2018)
Selection of validated hypervariable regions is crucial in 16S-based microbiota studies of the female genital tract
Nature, Scientific Reports. volume 8, article number: 9678 (2018)
Pubmed - PMID
On a Western diet, APOE ε4 is associated with low innate immune sensing, but not APOE ε3
Janina Dose, Anke Schloesser, Guillermo G. Torres, Geetha Venkatesh, Robert Häsler, Friederike Flachsbart, Wolfgang Lieb, Almut Nebel, Gerald Rimbach, Patricia Huebbe
(2018)
On a Western diet, APOE ε4 is associated with low innate immune sensing, but not APOE ε3
J Allergy Clin Immunol. 2018 Jun 18. [Epub ahead of print]
Pubmed - PMID 29928926
Microbiota changes impact on sexually transmitted infections and the development of pelvic inflammatory disease
Nathalie Loeper, Simon Graspeuntner, Jan Rupp
(2018)
Microbiota changes impact on sexually transmitted infections and the development of pelvic inflammatory disease
Microbes and Infection
doi: 10.1016/j.micinf.2018.02.003:
in press, accepted manuscript
Pubmed - PMID
Microbiota-based analysis reveals specific bacterial traits and a novel strategy for the diagnosis of infectious infertility
Simon Graspeuntner, Michael K. Bohlmann, Kathrin Gillmann, Runa Speer, Sven Kuenzel, Heike Mark, Friederike Hoellen, Reinhard Lettau, Georg Griesinger, Inke R. König, John F. Baines, Jan Rupp
(2018)
Microbiota-based analysis reveals specific bacterial traits and a novel strategy for the diagnosis of infectious infertility
PLOS Biology
Jan. 9:
https://doi.org/10.1371/journal.pone.0191047
Pubmed - PMID
Gene Expression Analysis Reveals Novel Shared Gene Signatures and Candidate Molecular Mechanisms between Pemphigus and Systemic Lupus Erythematosus in CD4+ T Cells
Sezin T, Vorobyev A, Sadik C, Zillikens D, Gupta Y, Ludwig R
(2018)
Gene Expression Analysis Reveals Novel Shared Gene Signatures and Candidate Molecular Mechanisms between Pemphigus and Systemic Lupus Erythematosus in CD4+ T Cells
Front. Immunol.
17. January:
ePub 17. January 2018
Pubmed - PMID
Functional variants in the sucrase-isomaltase gene associate with increased risk of irritable bowel syndrome
Henström M, Diekmann L, Bonfiglio F, Hadizadeh F, Kuech EM, von Köckritz-Blickwede M, Thingholm LB, Zheng T, Assadi G, Dierks C, Heine M, Philipp U, Distl O, Money ME, Belheouane M, Heinsen FA, Rafter J, Nardone G, Cuomo R, Usai-Satta P, Galeazzi F, Neri M, Walter S, Simrén M, Karling P, Ohlsson B, Schmidt PT, Lindberg G, Dlugosz A, Agreus L, Andreasson A, Mayer E, Baines JF, Engstrand L, Portincasa P, Bellini M, Stanghellini V, Barbara G, Chang L, Camilleri M, Franke A, Naim HY, D'Amato M
(2016 )
Functional variants in the sucrase-isomaltase gene associate with increased risk of irritable bowel syndrome
Gut
Nov 21, epub ahead of print:
Pubmed - PMID
A GWAS meta-analysis suggests roles for xenobiotic metabolism and ion channel activity in the biology of stool frequency
Jankipersadsing SA, Hadizadeh F, Bonder MJ, Tigchelaar EF, Deelen P, Fu J, Andreasson A, Agreus L, Walter S, Wijmenga C, Hysi P, D'Amato M, Zhernakova A.
(2017)
A GWAS meta-analysis suggests roles for xenobiotic metabolism and ion channel activity in the biology of stool frequency
Gut
April, epub 2016 Jul 29:
756-758
Pubmed - PMID
Targeted Microbiome Intervention by Microencapsulated Delayed-Release Niacin Beneficially Affects Insulin Sensitivity in Humans
Fangmann D, Theismann EM, Türk K, Schulte DM, Relling I, Hartmann K, Keppler JK, Knipp JR, Rehman A, Heinsen FA, Franke A, Lenk L, Freitag-Wolf S, Appel E, Gorb S, Brenner C, Seegert D, Waetzig GH, Rosenstiel P, Schreiber S, Schwarz K, Laudes M.
(2017)
Targeted Microbiome Intervention by Microencapsulated Delayed-Release Niacin Beneficially Affects Insulin Sensitivity in Humans
Diabetes Care
epub ahead of print :
Pubmed - PMID 29212824
Identification and characterization of two functional variants in the human longevity gene FOXO3
Flachsbart F, Dose J, Gentschew L, Geismann C, Caliebe A, Knecht C, Nygaard M, Badarinarayan N, ElSharawy A, May S, Luzius A, Torres GG, Jentzsch M, Forster M, Häesler R, Pallauf K, Lieb W, Derbois C, Galan P, Drichel D, Arlt A, Andreas Till A, Krause-Kyora B, Rimbach G, Blanché H, Deleuze J-F, Christiansen L, Christensen K, Nothnagel M, Rosenstiel P, Schreiber S, Franke A, Sebens S, Nebel A.
(2017)
Identification and characterization of two functional variants in the human longevity gene FOXO3
nature
Pubmed - PMID
Genetic Factors Interact With Tobacco Smoke to Modify Risk for Inflammatory Bowel Disease in Humans and Mice.
Pankaj Yadav,* David Ellinghaus,* Gaëlle Rémy, Sandra Freitag-Wolf, Anabelle Cesaro, Frauke Degenhardt, Gabrielle Boucher, Myriam Delacre, The International IBD Genetics Consortium (IIBDGC), Laurent Peyrin-Biroulet, Muriel Pichavant, John D Rioux, Philippe Gosset, Andre Franke, L. Philip Schumm, Michael Krawczak, Mathias Chamaillard, Astrid Dempfle, and Vibeke Andersen
(2017)
Genetic Factors Interact With Tobacco Smoke to Modify Risk for Inflammatory Bowel Disease in Humans and Mice.
Gastro
153(2):
550-565
Pubmed - PMID 28506689
Thermoneutral housing exacerbates nonalcoholic fatty liver disease in mice and allows for sex-independent disease modeling.
Giles DA, Moreno-Fernandez ME, Stankiewicz TE Graspeuntner S, Cappelletti M, Wu D, Mukherjee R, Chan CC, Lawson MJ, Klarquist J, Sünderhauf A, Softic S, Kahn CR Stemmer K, Iwakura Y, Aronow BJ, Karns R, Steinbrecher KA, Karp CL, Sheridan R, Shanmukhappa SK, Reynaud D, Haslam DB, Sina C, Rupp J, Hogan SP, Divanovic S.
(2017)
Thermoneutral housing exacerbates nonalcoholic fatty liver disease in mice and allows for sex-independent disease modeling.
Nat Med.
23(7):
829-838
Pubmed - PMID 28604704
Impact of micro-environmental changes on respiratory tract infections with intracellular bacteria.
Shima K, Coopmeiners J, Graspeuntner S, Dalhoff K, Rupp J.
(2016)
Impact of micro-environmental changes on respiratory tract infections with intracellular bacteria.
FEBS Lett.
Nov/590(21):
3887-3904
Pubmed - PMID 27509029
Overview of methodologies for T-cell receptor repertoire analysis.
Rosati, E., Dowds, C.M., Liaskou, E., Henriksen, E.K.K., Karlsen, T.H., Franke, A.
(2017)
Overview of methodologies for T-cell receptor repertoire analysis.
BMC Biotechnology
Jul 10;17(1):61:
Pubmed - PMID 28693542
Hypothalamic Inflammation in Human Obesity is Mediated by Environmental and Genetic Factors.
Kreutzer C, Peters S, Schulte DM, Fangmann D, Türk K, Wolff S, van Eimeren T, Ahrens M, Beckmann J, Schafmayer C, Becker T, Kerby T, Rohr A, Riedel C, Heinsen FA, Degenhardt F, Franke A, Rosenstiel P, Zubek N, Henning C, Freitag-Wolf S, Dempfle A, Psilopanagioti A, Petrou-Papadaki H, Lenk L, Jansen O, Schreiber S, Laudes M
(2017)
Hypothalamic Inflammation in Human Obesity is Mediated by Environmental and Genetic Factors.
Diabetes
epub ahead of print:
Pubmed - PMID 28576837
Quantitative Trait Locus Analysis Implicates CD4+/CD44high Memory T Cells in the Pathogenesis of Murine Autoimmune Pancreatitis
Bischof J., Müller S., Borufka L., Asghari F., Möller S., Holzhüter SA., Nizze H., Ibrahim SM., Jaster R.
(2015)
Quantitative Trait Locus Analysis Implicates CD4+/CD44high Memory T Cells in the Pathogenesis of Murine Autoimmune Pancreatitis
PLoS One
Sept 1:
10(9)
Pubmed - PMID 26325540
Defective ATG16L1-mediated removal of IRE1α drives Crohn's disease-like ileitis.
Tschurtschenthaler M, Adolph TE, Ashcroft JW, Niederreiter L, Bharti R, Saveljeva S, Bhattacharyya J, Flak MB3, Shih DQ, Fuhler GM, Parkes M, Kohno K, Iwawaki T, Janneke van der Woude C, Harding HP, Smith AM, Peppelenbosch MP, Targan SR, Ron D, Rosenstiel P, Blumberg RS, Kaser A.
(2017)
Defective ATG16L1-mediated removal of IRE1α drives Crohn's disease-like ileitis.
J. Exp. Med.
Jan 12:
epub ahead of print
Pubmed - PMID 28082357
TRPM8 polymorphisms associated with increased risk of IBS-C and IBS-M
Henström M, Hadizadeh F, Beyder A, Bonfiglio F, Zheng T, Assadi G, Rafter J, Bujanda L, Agreus L, Andreasson A, Dlugosz A, Lindberg G, Schmidt PT7, Karling P, Ohlsson B, Talley NJ, Simren M, Walter S, Wouters M, Farrugia G, D'Amato M.
(2016)
TRPM8 polymorphisms associated with increased risk of IBS-C and IBS-M
Gut
14 Dec.:
epub ahead of print
Pubmed - PMID 27974553
Genome-wide association analysis identifies variation in vitamin D receptor and other host factors influencing the gut microbiota.
Wang J, Thingholm LB, Skiecevičienė J, Rausch P, Kummen M, Hov JR, Degenhardt F, Heinsen FA, Rühlemann MC, Szymczak S, Holm K, Esko T, Sun J, Pricop-Jeckstadt M, Al-Dury S, Bohov P, Bethune J, Sommer F, Ellinghaus D, Berge RK, Hübenthal M, Koch M, Schwarz K, Rimbach G, Hübbe P, Pan WH, Sheibani-Tezerji R, Häsler R, Rosenstiel P, D'Amato M, Cloppenborg-Schmidt K, Künzel S, Laudes M, Marschall HU, Lieb W, Nöthlings U, Karlsen TH, Baines JF, Franke A.
(2016)
Genome-wide association analysis identifies variation in vitamin D receptor and other host factors influencing the gut microbiota.
Nat Genet.
Nov;48(11):
1396-1406
Pubmed - PMID 27723756
Classic IL-6R signalling is dispensable for intestinal epithelial proliferation and repair
Aden K, Breuer A, Geese H, Tran F, Sommer J, Waetzig G, Reinheimer T, Schreiber S, Rose-John S, Scheller J, Rosenstiel P, Rehman A
(2016)
Classic IL-6R signalling is dispensable for intestinal epithelial proliferation and repair
Oncogenesis
Nov 21:
5(11):e270.
Pubmed - PMID 27869785
bcRep: R Package for Comprehensive Analysis of B Cell Receptor Repertoire Data
Bischof J, Ibrahim S.
(2016)
bcRep: R Package for Comprehensive Analysis of B Cell Receptor Repertoire Data
PLoS One
Aug 23;11(8):
:e0161569
Pubmed - PMID 27551775
Paternal chronic colitis causes epigenetic inheritance of susceptibility to colitis.
Tschurtschenthaler M, Kachroo P, Heinsen FA, Adolph TE, Rühlemann MC, Klughammer J, Offner FA, Ammerpohl O, Krueger F, Smallwood S, Szymczak S, Kaser A, Franke A.
(2016)
Paternal chronic colitis causes epigenetic inheritance of susceptibility to colitis.
Sci Rep.
6 / Aug 19:
31640
Pubmed - PMID 27538787
APOE gentotype and stress response – a mini review
Dose j, Huebbe P, Nebel A, Rimbach G.
(2016)
APOE gentotype and stress response – a mini review
Lipids in Health and Disease
Jul 25:
15:121
Pubmed - PMID 27457486
Epithelial IL-23R signaling licenses protective IL-22 responses in intestinal inflammation
Aden K, Rehman A, Falk-Paulsen M, Secher T, Kuiper J, Tran F, Pfeuffer S, Sheibani-Tezerji R, Breuer A, Luzius A, Jentzsch M, Häsler R, Billmann-Born S, Will O, Lipinski S, Bharti R, Adolph T, Iovanna JL, Kempster SL, Blumberg RS, Schreiber S, Becher b, Chamaillard M, Kaser A, Rosenstiel P.
(2016)
Epithelial IL-23R signaling licenses protective IL-22 responses in intestinal inflammation
Cell Reports
accepted, more information soon:
Pubmed - PMID
Chlamydia trachomatis as the cause of infectious infertility: acute, repetitive or persistent long-term infection?
Schuchardt L., Rupp J.
(2016)
Chlamydia trachomatis as the cause of infectious infertility: acute, repetitive or persistent long-term infection?
Current Topics in Microbiology and Immunology
02 July:
Pubmed - PMID 27370345
Phosphatidylserine exposure is required for ADAM17 sheddase function
Sommer A, Kordowski F, Büch J, Maretzky T, Evers A, Andrä J, Düsterhöft S, Michalek M, Lorenzen I, Somasundaram P, Tholey A, Sönnichsen FD, Kunzelmann K, Heinbockel L, Nehls C, Gutsmann T, Grötzinger J, Bhakdi S, Reiss K
(2016)
Phosphatidylserine exposure is required for ADAM17 sheddase function
Nature Communications
May 10;7:
article no 11523
Pubmed - PMID 27161080
Influence of the APOE genotype on hepatic stress response: Studies in APOE targeted replacement mice and human liver cells
Dose J, Nebel A, Piegholdt S, Rimbach G, Huebbe P
(2016)
Influence of the APOE genotype on hepatic stress response: Studies in APOE targeted replacement mice and human liver cells
Free Radical Biology and Medicine
April 26. pii: S0891-5849(16)30049-1. doi: 10.1016/j.freeradbiomed.2016.04.031. [Epub ahead of print]:
Pubmed - PMID
Stool frequency is associated with gut microbiota composition
Hadizadeh F, Walter S, Belheouane M, Bonfiglio F, Heinsen FA, Andreasson A
(2016)
Stool frequency is associated with gut microbiota composition
Gut
Apr 28, epub ahead of print:
Pubmed - PMID 27196592
Dissecting genetics of cutaneous miRNA in a mouse model of an autoimmune blistering disease.
Gupta Y, Möller S, Witte M, Belheouane M, Sezin T, Hirose M, Vorobyev A, Niesar F, Bischof J, Ludwig R, Zillikens D, Sadik CD, Restle T, Häsler R, Baines JF, Ibrahim SM.
(2016)
Dissecting genetics of cutaneous miRNA in a mouse model of an autoimmune blistering disease.
BMC Genomics
Feb 16;17(1):
112
Pubmed - PMID 26879236
Characteristic changes in microbial community composition and expression of innate immune genes in acute appendicitis.
Arlt A, Bharti R, Ilves I, Häsler R, Miettinen P, Paajanen H, Brunke G, Ellrichmann M, Rehman A, Hauser C, Egberts JH, Ott SJ, Schreiber S, Rosenstiel P, Herzig KH
(2013)
Characteristic changes in microbial community composition and expression of innate immune genes in acute appendicitis.
Innate Immun.
Jan 21(1):
30-41
Pubmed - PMID
Host immune responses after hypoxic reactivation of IFN-γ induced persistent Chlamydia trachomatis infection.
Jerchel S, Kaufhold I, Schuchardt L, Shima K, Rupp J
(2014)
Host immune responses after hypoxic reactivation of IFN-γ induced persistent Chlamydia trachomatis infection.
Front Cell Inf Microb
Apr 16:
4:34
Pubmed - PMID 24783060
Type I interferon signalling in the intestinal epithelium affects Paneth cells, microbial ecology and epithelial regeneration
Tschurtschenthaler M, Wang J, Fricke C, Fritz TM, Niederreiter L, Adolph TE, Sarcevic E, Künzel S, Offner FA, Kalinke U, Baines JF, Tilg H, Kaser A
(2014)
Type I interferon signalling in the intestinal epithelium affects Paneth cells, microbial ecology and epithelial regeneration
Gut
Dec;63(12):
1921-31
Pubmed - PMID 24555997
Paneth cells as a site of origin for intestinal inflammation
Adolph TE1, Tomczak MF, Niederreiter L, Ko HJ, Böck J, Martinez-Naves E, Glickman JN, Tschurtschenthaler M, Hartwig J, Hosomi S, Flak MB, Cusick JL, Kohno K, Iwawaki T, Billmann-Born S, Raine T, Bharti R, Lucius R, Kweon MN, Marciniak SJ, Choi A, Hagen SJ, Schreiber S, Rosenstiel P, Kaser A, Blumberg RS.
(2013)
Paneth cells as a site of origin for intestinal inflammation
Nature
Nov 14;503(7475):
272-6
Pubmed - PMID 24089213
Allowing for population stratification in case-only studies of gene-environment interaction, using genomic control.
Yadav P(1), Freitag-Wolf S(1), Lieb W(2), Dempfle A(1), Krawczak M(3).
(2015)
Allowing for population stratification in case-only studies of gene-environment interaction, using genomic control.
Hum Genet.
Oct;134(10)::
1117-25
Pubmed - PMID 26297539
Extracellular Juxtamembrane Segment of ADAM17 Interacts with Membranes and Is Essential for Its Shedding Activity.
Düsterhöft S, Michalek M, Kordowski F1, Oldefest M, Sommer A1, Röseler J, Reiss K1, Grötzinger J, Lorenzen I.
(2015)
Extracellular Juxtamembrane Segment of ADAM17 Interacts with Membranes and Is Essential for Its Shedding Activity.
Biochemistry
Sept 29, 54(38):
5791-801
Pubmed - PMID 26348730
Genomics and drug profiling of fatal TCF3-HLF−positive acute lymphoblastic leukemia identifies recurrent mutation patterns and therapeutic options
Fischer U, Forster M, Rinaldi A, Risch T, Sungalee S, Warnatz HJ, Bornhauser B, Gombert M, Kratsch C, Stütz A, Sultan M, Tchinda J, Worth C, Amstislavskiy V, Badarinarayan N, Baruchel A, Bartram T, Basso G, Canpolat C, Cario G, Cavé H, Dakaj D, Delorenzi M, Dobay M, Eckert C, Ellinghaus E, Eugster S, Frismantas V, Ginzel S, Haas O, Heidenreich O, Hemmrich-Stanisak G, Hezaveh K, Höll J, Hornhardt S, Husemann P, Kachroo P, Kratz C, Te Kronnie G, Marovca B, Niggli F, McHardy A, Moorman A, Panzer-Grümayer R, Petersen B, Raeder B, Ralser M, Rosenstiel P, Schäfer D, Schrappe M, Schreiber S, Schütte M, Stade B, Thiele R, von der Weid N, Vora A, Zaliova M, Zhang L, Zichner T, Zimmermann M, Lehrach H, Borkhardt A, Bourquin JP, Franke A, Korbel J, Stanulla M, Yaspo M.
(2015)
Genomics and drug profiling of fatal TCF3-HLF−positive acute lymphoblastic leukemia identifies recurrent mutation patterns and therapeutic options
Nature Genetics
online July 27, doi:10.1038/ng.3362:
47(9):1020-9
Pubmed - PMID 26214592
The anti-atherogenic effect of fish oil in male mice is associated with a diminished release of endothelial ADAM17 and ADAM10 substrates
Speck N, Brandsch C, Schmidt N, Yazdekhasti N, Hirche F, Lucius R, Rimbach G, Stangl G, Reiss K.
(2015)
The anti-atherogenic effect of fish oil in male mice is associated with a diminished release of endothelial ADAM17 and ADAM10 substrates
J Nutr.
Jun; 145(6)::
1218-26
Pubmed - PMID
Apolipoprotein E (APOE) genotype regulates body weight and fatty acid utilization-Studies in gene-targeted replacement mice.
Huebbe P1, Dose J, Schloesser A, Campbell G, Glüer CC, Gupta Y, Ibrahim S, Minihane AM, Baines JF, Nebel A, Rimbach G.
(2015)
Apolipoprotein E (APOE) genotype regulates body weight and fatty acid utilization-Studies in gene-targeted replacement mice.
Mol Nutr Food Res.
Feb;59 (2):
334-43
Pubmed - PMID 25381750
ptRNApred: computational identification and classification of post-transcriptional RNA
Gupta Y, Witte M, Möller S, Ludwig RJ, Restle T, Zillikens D and Ibrahim SM
(2014)
ptRNApred: computational identification and classification of post-transcriptional RNA
Published by Oxford University Press on behalf of Nucleic Acids Research
Dec 16;42(22):
e167
Pubmed - PMID 25303994
The role of linkage disequilibrium in case-only studies of gene-environment interactions.
Yadav P, Freitag-Wolf S, Lieb W, Krawczak M
(2015)
The role of linkage disequilibrium in case-only studies of gene-environment interactions.
Hum Genet.
2015 Jan., 134:
89-96
Pubmed - PMID 25304818
Recombinant human IgA1 and IgA2 autoantibodies to type VII collagen induce subepidermal blistering ex vivo
Recke A, Trog LM, Pas HH, Vorobyev A, Abadpour A, Jonkman MF, van Zandbergen G, Kauderer C, Zillikens D, Vidarsson G, Ludwig R
(2014)
Recombinant human IgA1 and IgA2 autoantibodies to type VII collagen induce subepidermal blistering ex vivo
J. Immunol.
Aug 14:
193(4):1600-8
Pubmed - PMID 25024393
Genetic control of psoriasis is relatively distinct from that of metabolic syndrome and coronary artery disease
Gupta Y, Möller S, Zillikens D, Boehncke W-H, Ibrahim SM and Ludwig RJ
(2013)
Genetic control of psoriasis is relatively distinct from that of metabolic syndrome and coronary artery disease
John Wiley & Sons A/S. Published by John Wiley & Sons Ltd, Experimental Dermatology
Aug; 22(8):
552-553
Pubmed - PMID 23879815