Publications 2012

• Wilmes, Paul: Genome-based and functional differentiation: hallmarks of microbial adaptation, divergence and speciation?, Microbial Ecology Theory, in press, in press 2012, 2012
• Wegner, André; Cordes, Thekla; Michelucci, Alessandro; Hiller, Karsten: The Application of Stable Isotope Assisted Metabolomics in Biomedicine', Current Biotechnology, 2012, pp. 1-2
• Vlassis, Nikos; Ghavamzadeh, Mohammad; Mannor, Shie; Poupart, Pascal: Bayesian Reinforcement Learning. In Reinforcement Learning: State of the Art., Reinforcement Learning: State of the Art, in press, Springer, 2012
• Soldatos, T G; O’Donoghue, S I; Satagopam, V P; Barbosa-Silva, A; Pavlopoulos, G A; Wanderley-Nogueira, A C; Soares-Cavalcanti, N M; Schneider, Reinhard: Caipirini: using gene sets to rank literature, BioData Mining 2012, vol. 5, no. 1, 2012, pp. 1-2
• Skupin, Alexander; Thurley, K: Calcium signaling: from single channels to pathways, Adv Exp Med Biol. 2012, no. 740, 2012, pp. 531-551
• Secrier, M; Pavlopoulos, G; Aerts, J; Schneider, Reinhard: Arena3D: visualizing time-driven phenotypic differences in biological systems, BMC Bioinformatics, no. 13, 2012, pp. 1-2
• Ostaszewski, M; Eifes, S; del Sol, Antonio: Evolutionary conservation and network structure characterize genes of phenotypic relevance for mitosis in human, PLoS One, 2012, pp. 1-2
• Moschopoulos, C N; Pavlopoulos, G A; Iacucci, E; Aerts, J; Likothanassis, S; Schneider, Reinhard; Kossida, S: Which clustering algorithm is better for predicting protein complexes?, BMC Research Notes, vol. 4, no. 549, 2012, pp. 1-2
• Moes, M; Le Béchec, A; Crespo, Isaac; Laurini, C; Halavatyi, A; Vetter, G; del Sol, Antonio; Friederich, A: A Novel Network Integrating a miRNA-203/SNAI1 Feedback Loop which Regulates Epithelial to Mesenchymal Transition., Plos One, 2012, pp. 1-2
• Ignac, Tomasz M; Sakhanenko, N A; Galas, David J: Complexity of Networks II: 
The Set Complexity of Edge-Colored Graphs, Complexity, Wiley Online Library, 2012
• Azuaje, F J; Heymann, M; Ternes, A M; Wienecke-Baldacchino, Anke; Struck, D; Moes, D; Schneider, Reinhard: Bioinformatics as a driver, not a passenger, of translational biomedical research: Perspectives from the 6th Benelux bioinformatics conference., JOURNAL OF CLINICAL BIOINFORMATICS, vol. 2, no. 7, 2012, pp. 1-2, ISBN: 1-2

Publications 2011

• Thurley, K; Skupin, Alexander; Thul, R; Falcke, M: Fundamentalproperties of Ca2 +signals, Biochimica et Biophysica Acta (BBA) - General Subjects, 2011, pp. 1-2
• Schneider, Jochen G; Amend, S R; Weilbaecher, K N: Integrins and bone metastasis: integrating tumor cell and stromal cell interactions, Bone, vol. 48, no. 1, Elsevier, 2011, pp. 54-56
• Roach, J C; Glusman, G; Hubley, R; Montsaroff, S Z; Holloway, A K; Mauldin, D E; Srivastava, D; Garg, V; Pollard, K S; Galas, David J; Hood, Leroy; Smit, A F: Chromosomal haplotypes by genetic phasing of human families, Am J Hum Genet, vol. 89, no. 3, Cell Press, 2011, pp. 382-97
• Pavlopoulos, Georgios A; Secrier, Maria; Moschopoulos, Charalampos N; Soldatos, Theodoros G; Kossida, Sophia; Aerts, Jan; Schneider, Reinhard; Bagos, Pantelis G: Using graph theory to analyze biological networks, BioData Min, vol. 4, no. 10, BioMed Central Ltd., 2011, pp. 1-27
• Pavlopoulos, G A; Hooper, S D; Sifrim, A; Schneider, Reinhard; Aerts, J: Medusa: A tool for exploring and clustering biological networks., BMC Res Notes, Epub ahead of print, vol. 4, no. 384, BioMed Central, 2011, pp. 1-6
• Moussay, Etienne; Wang, Kai; Cho, Ji-Hoon; van Moer, Kris; Pierson, Sandrine; Paggetti, Jérôme; Nazarov, Petr V; Palissot, Valérie; Hood, Leroy E; Berchem, Guy; Galas, David J: MicroRNA as biomarkers and regulators in B-cell chronic lymphocytic leukemia, Proc Natl Acad Sci U S A, vol. 108, no. 16, PNAS, 2011, pp. 6573-8
• Moschopoulos, Charalampos N; Pavlopoulos, Georgios A; Iacucci, Ernesto; Aerts, Jan; Likothanassis, Spiridon; Schneider, Reinhard; Kossida, Sophia: Which clustering algorithm is better for predicting protein complexes?, BMC Research Notes, vol. 4, 2011, pp. 549-549
• Kolodkin, Alexey; Boogerda, Fred C; Plantb, Nick; Bruggemana, Frank J; Goncharuke, Valeri; Lunshofa, Jeantine; Moreno-Sanchezi, Rafael; Yilmaza, Nilgun; Bakkerk, Barbara M; Snoepa, Jacky L; Balling, Rudi; Westerhoff, Hans V: Emergence of the silicon human and network targeting drugs, Eur J Pharm Sci, Epub ahead of print, Elsevier, 2011
• Kartal, O; Mahlow, S; Skupin, Alexander; Ebenhöh, O: Carbohydrate-active enzymes exemplify entropic principles in metabolism, Molecular Systems Biology, vol. 7, no. 542, EMBO and Macmillan Publishers Limited, 2011, pp. 1-11
• Jurkowski, Wiktor; Roomp, K; Crespo, Isaac; Schneider, Jochen G; Del Sol, Antonio: PPARγ population shift produces disease-related changes in molecular networks associated with metabolic syndrome, Cell Death Dis, 2011
• Heller, E; Hurchla, M A; Xiang, J; Chen, S; Schneider, Jochen; Joeng, K; Vidal, M; Goldberg, L; Deng, H; Hornick, M C; Prior, J; Piwnica-Worms, D R; Long, F; Cagan, R; Weilbaecher, K: Hedgehog signaling inhibition blocks growth of resistant tumors through effects on tumor microenvironment., Cancer Res, American Association for Cancer Research, 2011
• Glaab, Enrico; Schneider, Reinhard: PathVar: analysis of gene and protein expression variance in cellular pathways using microarray data., Bioinformatics, 2011
• Freyermuth, Sylvie: Entre unité nationale et individualisme régional balance le cœur luxembourgeois, Construire des identités au Luxembourg. Appropriations subjectives, projections institutionnelles, milieux socio-culturels, Paris, Berg International Editeurs, Paris 2011, 2011, pp. 132-140, ISBN: 978-2-917191-44-6
• Fischer, C R; Wilmes, Paul; Bowen, B P; Northen, T R; Banfield, J F: Deuterium-exchange metabolomics identifies N-methyl lyso phosphatidylethanolamines as abundant lipids in acidophilic mixed microbial communities, Metabolomics, vol. in press, Springer, 2011
• Diederich, Nico J; Parent, A: Parkinson's disease: Acquired frailty of archaic neural networks?, J Neurol Sci, Elsevier, 2011
• Diederich, Nico J; McIntyre, D J: Sleep disorders in Parkinson's disease: Many causes, few therapeutic options, Journal of the Neurological Sciences, Elsevier, 2011
• Bousquet, J; Anto, J M; Sterk, P J; Adcock, I M; Chung, K F; Roca, J; Agusti, A; Brightling, C; Cambon-Thomsen, A; Cesario, A; Abdelhak, S; Antonarakis, S E; Avignon, A; Ballabio, A; Baraldi, E; Baranov, A; Bieber, T; Bockaert, J; Brahmachari, S; Brambilla, C; Bringer, J; Dauzat, M; Ernberg, I; Fabbri, L; Froguel, P; Galas, David; Gojobori, T; Hunter, P; Jorgensen, C; Kauffmann, F; Kourilsky, P; Kowalski, M L; Lancet, D; Pen, C L; Mallet, J; Mayosi, B; Mercier, J; Metspalu, A; Nadeau, J H; Ninot, G; Noble, D; Oztürk, M; Palkonen, S; Préfaut, C; Rabe, K; Renard, E; Roberts, R G; Samolinski, B; Schünemann, H J; Simon, H U; Soares, M B; Superti-Furga, G; Tegner, J; Verjovski-Almeida, S; Wellstead, P; Wolkenhauer, O; Wouters, E; Balling, Rudi; Brookes, A J; Charron, D; Pison, C; Chen, Z; Hood, L; Auffray, Charles: Systems medicine and integrated care to combat chronic noncommunicable diseases, Genome Med. [Epub ahead of print], vol. 3, no. 7, BioMed Central Ltd., 2011, pp. 43-47
• Antony, Paul M A; Diederich, Nico J; Balling, Rudi: Parkinson’s disease mouse models in translational research, Mamm Genome, vol. 22, no. 7-8, Springer, 2011, pp. 401-19
• Antony, Paul M A; Balling, Rudi; Vlassis, Nikos: From Systems Biology to Systems Biomedicine, Current Opinion in Biotechnology, vol. 23, Elsevier, 2011, pp. 1-5
• Abrahams, J P; Apweiler, R; Balling, Rudi; Bertero, M G; Bujni-cki, J M; Chayen, N E; Chène, P; Corthals, G L; Dylag, T; Förster, F; Heck, A J; Henderson, P J; Herwig, R; Jehenson, P; Kokalj, S J; Laue, E; Legrain, P; Martens, L; Migliorini, C; Musacchio, A; Podobnik, M; Schertler, G F; Schreiber, G; Sixma, T K; Smit, A B; Stuart, D; Svergun, D I; Taussig, M J: 4D Biology for health and disease, N. Biotechnol, vol. 28, no. 4, Elsevier, 2011, pp. 291-293

Publications 2010

• Smedley, D.; Schofield, P.; Chen, C. K.; Aidinis, V.; Ainali, C.; Bard, J.; Balling, Rudi; Birney, E.; Blake, A.; Bongcam-Rudloff, E.; Brookes, A. J.; Cesareni, G.; Chandras, C.; Eppig, J.; Flicek, P.; Gkoutos, G.; Greenaway, S.; Gruenberger, M.; Heriche, J. K.; Lyall, A.; Mallon, A. M.; Muddyman, D.; Reisinger, F.; Ringwald, M.; Rosenthal, N.; Schughart, K.; Swertz, M.; Thorisson, G. A.; Zouberakis, M.; Hancock, J. M.: Finding and sharing: new approaches to registries of databases and services for the biomedical sciences, Database (Oxford), vol. Jul 6, 2010, pp. 1758-0463 (Electronic)
• Schughart, K.; Arends D.; Andreux P.; Balling Rudi; Beyer A.; Bezerianos A.; Brockmann G.A.; Crusio W.E.; Campbell-Tofte J.; Denny P.; Falcon-Perez J.M.; Forejt J.; Franken P.; Hovatta I.; Iraqi F.; Jansen R.C.; Kaczmarek L.; Kas M.J.; Kashofer K.; Knapska E.; Kolisis F.; Kõks S.; Lammert F.; Möller S.; Montagutelli X.; Morahan G.; Mott R.; Pfoertner S.; Prins P.; Przewlocki R.; Ranki A.; Santos J.; Rihet P.; Schalkwyk L.; Smit A.B.; Swertz M.; Threadgill D.; Vasar E.; Zatloukal K.: SYSGENET: a meeting report from a new European network for systems genetics, Mamm Genome, vol. 21, no. 7-8, 2010, pp. 331-6, ISSN: 1432-1777 (Electronic)0938-8990 (Linking)
• Schneider, Jochen G.; Yang, Zhen; Chakravarthy, Manu V.; Lodhi, Irfan J.; Wei, Xiaochao; Turk, John; Semenkovich, Clay F.: Macrophage Fatty-acid Synthase Deficiency Decreases Diet-induced Atherosclerosis, The Journal of Biological Chemistry, vol. 285, 2010, pp. 23398-23409
• Probst-Kepper, M.; Balling, Rudi; Buer, J.: FOXP3: required but not sufficient. the role of GARP (LRRC32) as a safeguard of the regulatory phenotype., Curr Mol Med, vol. 10, no. 6, 2010, pp. 533-559
• Morgan, Elizabeth A.; Schneider, Jochen G.; Baroni, Timothy E.; Uluçkan, Özge; Heller, Emanuela; Hurchla, Michelle A.; Deng, Hongju; Floyd, Desiree; Berdy, Andrew; Prior, Julie L.; Piwnica-Worms, David; Teitelbaum, Steven L.; Ross, F. Patrick; Weilbaecher, Katherine N.: Dissection of platelet and myeloid cell defects by conditional targeting of the β3-integrin subunit, The FASEB Journal, vol. 24, no. 4, 2010, pp. 1117-1127
• del Sol, Antonio; Balling, Rudi; Hood, Lee; Galas, David: Diseases as network perturbations, Current Opinion in Biotechnology, vol. 21, no. 4, Elsevier Ltd, 2010, pp. 566-571
• Balling, Rudi; Becker, Regina: EATRIS Infrastructure Accelerates Translation, BIOforum Europe, no. 1-2, GIT VERLAG GmbH & Co. KG, Darmstadt, Germany, 2010, pp. 14-16
• Balling, Rudi: Fighting the Diseases of the Future, Our Common Future, Conference Summary Report, Volkswagen Stiftung Germany, 2010, pp. 63-65