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A Systems medicine approach to chronic inflammatory disease

Total Cost €


EC-Contrib. €






 SYSCID project word cloud

Explore the words cloud of the SYSCID project. It provides you a very rough idea of what is the project "SYSCID" about.

cells    rheumatoid    map    independent    stable    joined    data    innovative    retrospective    trials    code    resolution    biomarkers    outcome    cd4    therapeutic    groups    polarization    identification    tool    prospective    comprise    diseases    alleviate    molecular    blood    layers    employs    macrophages    cid    models    indications    builds    causative    methylome    reprogramming    syscid    twinsuk    sme    patient    validate    shared    overlap    bowel    initial    systemic    gut    single    ihec    arthritis    lymphocytes    inflammatory    therapy    erythematodes    lupus    hit    variation    macrophage    guide    prediction    solid    cohorts    cell    human    15    types    therapies    biological    stratification    disease    predictive    transcriptome    fundamental    epigenome    setup    cd8    temporally    epigenetic    editing    alterations    variome    risk    tools    icgc    clinical    software    meta    purified    individual    infrastructure    deconvolution    snp    basis    algorithmic    decisions    generation    levels    temporal    microbiome    core    defects    cd14    medicine    immune    validation    signatures   

Project "SYSCID" data sheet

The following table provides information about the project.


Organization address
city: KIEL
postcode: 24118

contact info
title: n.a.
name: n.a.
surname: n.a.
function: n.a.
email: n.a.
telephone: n.a.
fax: n.a.

 Coordinator Country Germany [DE]
 Project website
 Total cost 16˙018˙111 €
 EC max contribution 14˙456˙236 € (90%)
 Programme 1. H2020-EU.3.1.1. (Understanding health, wellbeing and disease)
 Code Call H2020-SC1-2016-RTD
 Funding Scheme RIA
 Starting year 2017
 Duration (year-month-day) from 2017-01-01   to  2022-03-31


Take a look of project's partnership.

# participants  country  role  EC contrib. [€] 
3    VIB VZW BE (ZWIJNAARDE - GENT) participant 1˙181˙518.00
5    UNIVERSITE DU LUXEMBOURG LU (ESCH-SUR-ALZETTE) participant 1˙115˙040.00
7    UNIVERSITE DE LIEGE BE (LIEGE) participant 1˙016˙900.00
8    KING'S COLLEGE LONDON UK (LONDON) participant 919˙083.00
9    GENOS DOO ZA VJESTACENJE I ANALIZU HR (OSIJEK) participant 880˙050.00
12    SYDDANSK UNIVERSITET DK (ODENSE M) participant 590˙935.00
13    HUMANITAS UNIVERSITY IT (PIEVE EMANUELE) participant 411˙026.00
14    ISTITUTO EUROPEO DI ONCOLOGIA SRL IT (MILANO) participant 383˙998.00
15    COMMA SOFT AG DE (BONN) participant 348˙125.00
16    UNIVERSITE DE GENEVE CH (GENEVE) participant 0.00


 Project objective

'The SYSCID consortium aims to develop a systems medicine approach for disease prediction in CID. We will focus on three major CID indications with distinct characteristics, yet a large overlap of their molecular risk map: inflammatory bowel disease, systemic lupus erythematodes and rheumatoid arthritis. We have joined 15 partners from major cohorts and initiatives in Europe (e.g.IHEC, ICGC, TwinsUK and Meta-HIT) to investigate human data sets on three major levels of resolution: whole blood signatures, signatures from purified immune cell types (with a focus on CD14 and CD4/CD8) and selected single cell level analyses. Principle data layers will comprise SNP variome, methylome, transcriptome and gut microbiome. SYSCID employs a dedicated data management infrastructure, strong algorithmic development groups (including an SME for exploitation of innovative software tools for data deconvolution) and will validate results in independent retrospective and prospective clinical cohorts. Using this setup we will focus on three fundamental aims : (i) the identification of shared and unique 'core disease signatures” which are associated with the disease state and independent of temporal variation, (ii) the generation of 'predictive models of disease outcome'- builds on previous work that pathways/biomarkers for disease outcome are distinct from initial disease risk and may be shared across diseases to guide therapy decisions on an individual patient basis, (iii) 'reprogramming disease'- will identify and target temporally stable epigenetic alterations in macrophages and lymphocytes in epigenome editing approaches as biological validation and potential novel therapeutic tool . Thus, SYSCID will foster the development of solid biomarkers and models as stratification in future long-term systems medicine clinical trials but also investigate new causative therapies by editing the epigenome code in specific immune cells, e.g. to alleviate macrophage polarization defects.'


List of deliverables.
Public project website Websites, patent fillings, videos etc. 2020-04-08 14:24:38

Take a look to the deliverables list in detail:  detailed list of SYSCID deliverables.


year authors and title journal last update
List of publications.
2019 Nikolaos I Panousis, George K Bertsias, Halit Ongen, Irini Gergianaki, Maria G Tektonidou, Maria Trachana, Luciana Romano-Palumbo, Deborah Bielser, Cedric Howald, Cristina Pamfil, Antonis Fanouriakis, Despoina Kosmara, Argyro Repa, Prodromos Sidiropoulos, Emmanouil T Dermitzakis, Dimitrios T Boumpas
Combined genetic and transcriptome analysis of patients with SLE: distinct, targetable signatures for susceptibility and severity
published pages: 1079-1089, ISSN: 0003-4967, DOI: 10.1136/annrheumdis-2018-214379
Annals of the Rheumatic Diseases 78/8 2020-04-08
2019 Dionysis Nikolopoulos, Antonis Fanouriakis, Dimitrios T. Boumpas
Update on the pathogenesis of central nervous system lupus
published pages: 669-677, ISSN: 1040-8711, DOI: 10.1097/bor.0000000000000655
Current Opinion in Rheumatology 31/6 2020-04-08
2019 Goran Josipović, Vanja Tadić, Marija Klasić, Vladimir Zanki, Ivona Bečeheli, Felicia Chung, Akram Ghantous, Toma Keser, Josip Madunić, Maria Bošković, Gordan Lauc, Zdenko Herceg, Aleksandar Vojta, Vlatka Zoldoš
Antagonistic and synergistic epigenetic modulation using orthologous CRISPR/dCas9-based modular system
published pages: 9637-9657, ISSN: 0305-1048, DOI: 10.1093/nar/gkz709
Nucleic Acids Research 47/18 2020-04-08
2019 Mohamad Jawhara, Signe Bek Sørensen, Berit Lilienthal Heitmann, Vibeke Andersen
Biomarkers of Whole-Grain and Cereal-Fiber Intake in Human Studies: A Systematic Review of the Available Evidence and Perspectives
published pages: 2994, ISSN: 2072-6643, DOI: 10.3390/nu11122994
Nutrients 11/12 2020-04-08
2019 R. J. M. Bashford-Rogers, L. Bergamaschi, E. F. McKinney, D. C. Pombal, F. Mescia, J. C. Lee, D. C. Thomas, S. M. Flint, P. Kellam, D. R. W. Jayne, P. A. Lyons, K. G. C. Smith
Analysis of the B cell receptor repertoire in six immune-mediated diseases
published pages: 122-126, ISSN: 0028-0836, DOI: 10.1038/s41586-019-1595-3
Nature 574/7776 2020-04-08
2019 Alyce C. Russell, Agnieszka Kepka, Irena Trbojević-Akmačić, Ivo Ugrina, Manshu Song, Jennie Hui, Michael Hunter, Simon M. Laws, Gordan Lauc, Wei Wang
Increased central adiposity is associated with pro-inflammatory immunoglobulin G N-glycans
published pages: 110-115, ISSN: 0171-2985, DOI: 10.1016/j.imbio.2018.10.002
Immunobiology 224/1 2020-04-08
2019 Sander Tuit, Camilla Salvagno, Theodore S. Kapellos, Cheei-Sing Hau, Lea Seep, Marie Oestreich, Kathrin Klee, Karin E. de Visser, Thomas Ulas, Joachim L. Schultze
Transcriptional Signature Derived from Murine Tumor-Associated Macrophages Correlates with Poor Outcome in Breast Cancer Patients
published pages: 1221-1235.e5, ISSN: 2211-1247, DOI: 10.1016/j.celrep.2019.09.067
Cell Reports 29/5 2020-04-08
2020 Stefanie Warnat-Herresthal, Konstantinos Perrakis, Bernd Taschler, Matthias Becker, Kevin Baßler, Marc Beyer, Patrick Günther, Jonas Schulte-Schrepping, Lea Seep, Kathrin Klee, Thomas Ulas, Torsten Haferlach, Sach Mukherjee, Joachim L. Schultze
Scalable Prediction of Acute Myeloid Leukemia Using High-Dimensional Machine Learning and Blood Transcriptomics
published pages: 100780, ISSN: 2589-0042, DOI: 10.1016/j.isci.2019.100780
iScience 23/1 2020-04-08
2018 Yukihide Momozawa, Julia Dmitrieva, Emilie Théâtre, Valérie Deffontaine, Souad Rahmouni, Benoît Charloteaux, François Crins, Elisa Docampo, Mahmoud Elansary, Ann-Stephan Gori, Christelle Lecut, Rob Mariman, Myriam Mni, Cécile Oury, Ilya Altukhov, Dmitry Alexeev, Yuri Aulchenko, Leila Amininejad, Gerd Bouma, Frank Hoentjen, Mark Löwenberg, Bas Oldenburg, Marieke J. Pierik, Andrea E. vander Meulen-de Jong, C. Janneke van der Woude, Marijn C. Visschedijk, Mark Lathrop, Jean-Pierre Hugot, Rinse K. Weersma, Martine De Vos, Denis Franchimont, Severine Vermeire, Michiaki Kubo, Edouard Louis, Michel Georges
IBD risk loci are enriched in multigenic regulatory modules encompassing putative causative genes
published pages: , ISSN: 2041-1723, DOI: 10.1038/s41467-018-04365-8
Nature Communications 9/1 2020-04-08
2018 Christensen, Robin; Heitmann, Berit L; Andersen, Karina Winther; Nielsen, Ole Haagen; Sørensen, Signe Bek; Jawhara, Mohamad; Bygum, Anette; Hvid, Lone; Grauslund, Jakob; Wied, Jimmi; Glerup, Henning; Fredberg, Ulrich; Villadsen, Jan Alexander; Kjær, Søren Geill; Fallingborg, Jan; Moghadd, Seyed A G R; Knudsen, Torben; Brodersen, Jacob; Frøjk, Jesper; Dahlerup, Jens Frederik; Bojesen, Anders Bo; Sorensen, Grith Lykke; Thiel, Steffen; Færgeman, Nils J; Brandslund, Ivan; Bennike, Tue Bjerg; Stensballe, Allan; Schmidt, Erik Berg; Franke, Andre; Ellinghaus, David; Rosenstiel, Philip; Raes, Jeroen; Boye, Mette; Werner, Lars; Nielsen, Charlotte Lindgaard; Munk, Heidi Lausten; Nexøe, Anders Bathum; Ellingsen, Torkell; Holmskov, Uffe; Kjeldsen, Jens; Andersen, Vibeke
Impact of red and processed meat and fibre intake on treatment outcomes among patients with chronic inflammatory diseases:protocol for a prospective cohort study of prognostic factors and personalised medicine
published pages: , ISSN: 2044-6055, DOI: 10.1136/bmjopen-2017-018166
BMJ Open 1 2020-04-08
2018 Sebastian Zeissig, Elisa Rosati, C Marie Dowds, Konrad Aden, Johannes Bethge, Berenice Schulte, Wei Hung Pan, Neha Mishra, Maaz Zuhayra, Marlies Marx, Maren Paulsen, Anne Strigli, Claudio Conrad, Dörthe Schuldt, Anupam Sinha, Henriette Ebsen, Sabin-Christin Kornell, Susanna Nikolaus, Alexander Arlt, Dieter Kabelitz, Mark Ellrichmann, Ulf Lützen, Philip C Rosenstiel, Andre Franke, Stefan Schreiber
Vedolizumab is associated with changes in innate rather than adaptive immunity in patients with inflammatory bowel disease
published pages: , ISSN: 0017-5749, DOI: 10.1136/gutjnl-2018-316023
Gut 2020-04-08
2018 Morgane Sonia Thion, Donovan Low, Aymeric Silvin, Jinmiao Chen, Pauline Grisel, Jonas Schulte-Schrepping, Ronnie Blecher, Thomas Ulas, Paola Squarzoni, Guillaume Hoeffel, Fanny Coulpier, Eleni Siopi, Friederike Sophie David, Claus Scholz, Foo Shihui, Josephine Lum, Arlaine Anne Amoyo, Anis Larbi, Michael Poidinger, Anne Buttgereit, Pierre-Marie Lledo, Melanie Greter, Jerry Kok Yen Chan, Ido Amit, Marc Beyer, Joachim Ludwig Schultze, Andreas Schlitzer, Sven Pettersson, Florent Ginhoux, Sonia Garel
Microbiome Influences Prenatal and Adult Microglia in a Sex-Specific Manner
published pages: 500-516.e16, ISSN: 0092-8674, DOI: 10.1016/j.cell.2017.11.042
Cell 172/3 2020-04-08
2018 Shaza B Zaghlool, Dennis O Mook-Kanamori, Sara Kader, Nisha Stephan, Anna Halama, Rudolf Engelke, Hina Sarwath, Eman K Al-Dous, Yasmin A Mohamoud, Werner Roemisch-Margl, Jerzy Adamski, Gabi Kastenmüller, Nele Friedrich, Alessia Visconti, Pei-Chien Tsai, Tim Spector, Jordana T Bell, Mario Falchi, Annika Wahl, Melanie Waldenberger, Annette Peters, Christian Gieger, Marija Pezer, Gordan Lauc, Johannes Graumann, Joel A Malek, Karsten Suhre
Deep molecular phenotypes link complex disorders and physiological insult to CpG methylation
published pages: 1106-1121, ISSN: 0964-6906, DOI: 10.1093/hmg/ddy006
Human Molecular Genetics 27/6 2020-04-08
2018 Susanna Nikolaus, Georg H. Waetzig, Sven Butzin, Monika Ziolkiewicz, Natalie Al-Massad, Florian Thieme, Ulf Lövgren, Birgitte B. Rasmussen, Torsten M. Reinheimer, Dirk Seegert, Philip Rosenstiel, Silke Szymczak, Stefan Schreiber
Evaluation of interleukin-6 and its soluble receptor components sIL-6R and sgp130 as markers of inflammation in inflammatory bowel diseases
published pages: 927-936, ISSN: 0179-1958, DOI: 10.1007/s00384-018-3069-8
International Journal of Colorectal Disease 33/7 2020-04-08
2018 JN Liu, M Dolikun, J Štambuk, I Trbojević-Akmačić, J Zhang, H Wang, DQ Zheng, XY Zhang, HL Peng, ZY Zhao, D Liu, Y Sun, Q Sun, QH Li, JX Zhang, M Sun, WJ Cao, A Momčilović, G. Razdorov, LJ Wu, A Russell, YX Wang, MS Song, G Lauc, W Wang
The association between subclass-specific IgG Fc N-glycosylation profiles and hypertension in the Uygur, Kazak, Kirgiz, and Tajik populations
published pages: , ISSN: 0950-9240, DOI: 10.1038/s41371-018-0071-0
Journal of Human Hypertension 2020-04-08
2018 Ivan Gudelj, Perttu P. Salo, Irena Trbojević-Akmačić, Malena Albers, Dragan Primorac, Markus Perola, Gordan Lauc
Low galactosylation of IgG associates with higher risk for future diagnosis of rheumatoid arthritis during 10 years of follow-up
published pages: 2034-2039, ISSN: 0925-4439, DOI: 10.1016/j.bbadis.2018.03.018
Biochimica et Biophysica Acta (BBA) - Molecular Basis of Disease 1864/6 2020-04-08
2018 Kate Joanne Howell, Judith Kraiczy, Komal M. Nayak, Marco Gasparetto, Alexander Ross, Claire Lee, Tim N. Mak, Bon-Kyoung Koo, Nitin Kumar, Trevor Lawley, Anupam Sinha, Philip Rosenstiel, Robert Heuschkel, Oliver Stegle, Matthias Zilbauer
DNA Methylation and Transcription Patterns in Intestinal Epithelial Cells From Pediatric Patients With Inflammatory Bowel Diseases Differentiate Disease Subtypes and Associate With Outcome
published pages: 585-598, ISSN: 0016-5085, DOI: 10.1053/j.gastro.2017.10.007
Gastroenterology 154/3 2020-04-08
2018 Jasminka Krištić, Olga O. Zaytseva, Ramesh Ram, Quang Nguyen, Mislav Novokmet, Frano Vučković, Marija Vilaj, Irena Trbojević-Akmačić, Marija Pezer, Kathleen M. Davern, Grant Morahan, Gordan Lauc
Profiling and genetic control of the murine immunoglobulin G glycome
published pages: 516-524, ISSN: 1552-4450, DOI: 10.1038/s41589-018-0034-3
Nature Chemical Biology 14/5 2020-04-08
2017 Elisa Rosati, C Marie Dowds, Evaggelia Liaskou, Eva Kristine Klemsdal Henriksen, Tom H Karlsen, Andre Franke
Overview of methodologies for T-cell receptor repertoire analysis
published pages: , ISSN: 1472-6750, DOI: 10.1186/s12896-017-0379-9
BMC Biotechnology 17/1 2020-04-08
2017 Doris Vandeputte, Gunter Kathagen, Kevin D’hoe, Sara Vieira-Silva, Mireia Valles-Colomer, João Sabino, Jun Wang, Raul Y. Tito, Lindsey De Commer, Youssef Darzi, Séverine Vermeire, Gwen Falony, Jeroen Raes
Quantitative microbiome profiling links gut community variation to microbial load
published pages: 507-511, ISSN: 0028-0836, DOI: 10.1038/nature24460
Nature 551 2020-04-08
2018 Marko Kosicek, Ivan Gudelj, Anita Horvatic, Tanja Jovic, Frano Vuckovic, Gordan Lauc, Silva Hecimovic
N-glycome of the Lysosomal Glycocalyx is Altered in Niemann-Pick Type C Disease (NPC) Model Cells
published pages: 631-642, ISSN: 1535-9476, DOI: 10.1074/mcp.RA117.000129
Molecular & Cellular Proteomics 17/4 2020-04-08
2018 Mirna Šimurina, Noortje de Haan, Frano Vučković, Nicholas A. Kennedy, Jerko Štambuk, David Falck, Irena Trbojević-Akmačić, Florent Clerc, Genadij Razdorov, Anna Khon, Anna Latiano, Renata D\'Incà, Silvio Danese, Stephan Targan, Carol Landers, Marla Dubinsky, Dermot P.B. McGovern, Vito Annese, Manfred Wuhrer, Gordan Lauc, Harry Campbell, Vlatka Zoldoš, Iain K. Permberton, Daniel Kolarich, Daryl L. Fernandes, Evropi Theorodorou, Victoria Merrick, Daniel I. Spencer, Richard A. Gardner, Ray Doran, Archana Shubhakar, Ray Boyapati, Igor Rudan, Paolo Lionetti, Jasminka Krištić, Mislav Novokmet, Maja Pučić-Baković, Olga Gornik, Angelo Andriulli, Laura Cantoro, Giancarlo Sturniolo, Gionata Fiorino, Natalia Manetti, Ian D. Arnott, Colin L. Noble, Charlie W. Lees, Alan G. Shand, Gwo-Tzer Ho, Malcolm G. Dunlop, Lee Murphy, Jude Gibson, Louise Evenden, Nicola Wrobel, Tamara Gilchrist, Angie Fawkes, Guinevere S.M. Kammeijer, Aleksandar Vojta, Ivana Samaržija, Dora Markulin, Marija Klasić, Paula Dobrinić, Yurii Aulchenko, Tim van den Heuve, Daisy Jonkers, Marieke Pierik
Glycosylation of Immunoglobulin G Associates With Clinical Features of Inflammatory Bowel Diseases
published pages: 1320-1333.e10, ISSN: 0016-5085, DOI: 10.1053/j.gastro.2018.01.002
Gastroenterology 154/5 2020-04-08
2018 Joachim L. Schultze, Philip Rosenstiel
Systems Medicine in Chronic Inflammatory Diseases
published pages: 608-613, ISSN: 1074-7613, DOI: 10.1016/j.immuni.2018.03.022
Immunity 48/4 2020-04-08
2017 Felix Sommer, Jacqueline Moltzau Anderson, Richa Bharti, Jeroen Raes, Philip Rosenstiel
The resilience of the intestinal microbiota influences health and disease
published pages: 630-638, ISSN: 1740-1526, DOI: 10.1038/nrmicro.2017.58
Nature Reviews Microbiology 15/10 2020-04-08
2017 Xia Shen, Lucija Klarić, Sodbo Sharapov, Massimo Mangino, Zheng Ning, Di Wu, Irena Trbojević-Akmačić, Maja Pučić-Baković, Igor Rudan, Ozren Polašek, Caroline Hayward, Timothy D. Spector, James F. Wilson, Gordan Lauc, Yurii S. Aulchenko
Multivariate discovery and replication of five novel loci associated with Immunoglobulin G N-glycosylation
published pages: , ISSN: 2041-1723, DOI: 10.1038/s41467-017-00453-3
Nature Communications 8/1 2020-04-08
2017 Susanna Nikolaus, Berenice Schulte, Natalie Al-Massad, Florian Thieme, Dominik M. Schulte, Johannes Bethge, Ateequr Rehman, Florian Tran, Konrad Aden, Robert Häsler, Natalie Moll, Gregor Schütze, Markus J. Schwarz, Georg H. Waetzig, Philip Rosenstiel, Michael Krawczak, Silke Szymczak, Stefan Schreiber
Increased Tryptophan Metabolism Is Associated With Activity of Inflammatory Bowel Diseases
published pages: 1504-1516.e2, ISSN: 0016-5085, DOI: 10.1053/j.gastro.2017.08.028
Gastroenterology 153/6 2020-04-08
2017 Vibeke Andersen, Uffe Holmskov, Signe Sørensen, Mohamad Jawhara, Karina Andersen, Anette Bygum, Lone Hvid, Jakob Grauslund, Jimmi Wied, Henning Glerup, Ulrich Fredberg, Jan Villadsen, Søren Kjær, Jan Fallingborg, Seyed Moghadd, Torben Knudsen, Jacob Brodersen, Jesper Frøjk, Jens Dahlerup, Ole Nielsen, Robin Christensen, Anders Bojesen, Grith Sorensen, Steffen Thiel, Nils Færgeman, Ivan Brandslund, Allan Stensballe, Erik Schmidt, Andre Franke, David Ellinghaus, Philip Rosenstiel, Jeroen Raes, Berit Heitmann, Mette Boye, Charlotte Nielsen, Lars Werner, Jens Kjeldsen, Torkell Ellingsen
A Proposal for a Study on Treatment Selection and Lifestyle Recommendations in Chronic Inflammatory Diseases: A Danish Multidisciplinary Collaboration on Prognostic Factors and Personalised Medicine
published pages: 499, ISSN: 2072-6643, DOI: 10.3390/nu9050499
Nutrients 9/5 2020-04-08

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