Year Reference PMID DOI
2013 Stobbe MD, Swertz MA, Thiele I, Rengaw T, van Kampen AH, Moerland PD. (2013) Consensus and conflict cards for metabolic pathway databases. BMC Syst Biol., 26;7:50.  http://www.ncbi.nlm.nih.gov/pubmed/23803311
2013 Rienstra A, Groot PF, Spaan PE, Majoie CB, Nederveen AJ, Walstra GJ, de Jonghe JF, van Gool WA, Olabarriaga SD, Korkhov VV, Schmand B. (2012) Symptom validity testing in memory clinics: Hippocampal-memory associations and relevance for diagnosing mild cognitive impairment. Journal of Clinical and Experimental Neuropsychology, 35(1), 59  http://www.ncbi.nlm.nih.gov/pubmed/23228141
2013 Mark Santcroos, Barbera DC van Schaik, Shayan Shahand, Silvia Delgado Olabarriaga, Andre Luckow and Shantenu Jha (2013) Exploring Flexible and Dynamic Enactment of Scientific Workflows using Pilot Abstractions. CCGrid2013, the 13th IEEE/ACM International Symposium on Cluster, Cloud and Grid Computing, 13-16 May 2013, Delft, the Netherlands. (Accepted)
2013 V. Korkkov, S.D. Olabarriaga (2013) Exploring Workflow Interoperability for Neuroimage Analysis on the SHIWA Platform. Journal of Grid Computing, 11(3), 505-522 
2013 Doorenspleet ME, Klarenbeek PL, de Hair MJ, van Schaik BD, Esveldt RE, van Kampen AH, Gerlag DM, Musters A, Baas F, Tak PP, de Vries N. (2013) Rheumatoid arthritis synovial tissue harbours dominant B-cell and plasma-cell clones associated with autoreactivity. Ann Rheum Dis.  http://www.ncbi.nlm.nih.gov/pubmed/23606709 10.1136/annrheumdis-2012-202861 
2013 Kiezun A, Pulit SL, Francioli LC, van Dijk F, Swertz M, Boomsma DI, van Duijn CM, Slagboom PE, van Ommen GJ, Wijmenga C; Genome of the Netherlands Consortium, de Bakker PI, Sunyaev SR. (2013) Deleterious alleles in the human genome are on average younger than neutral alleles of the same frequency. PLoS Genetics, 9(2):e1003301 http://www.ncbi.nlm.nih.gov/pubmed/23468643 10.1371/journal.pgen.1003301
2013 Thiele I, Swainston N, Fleming RM, Hoppe A, Sahoo S, Aurich MK, Haraldsdottir H, Mo ML, Rolfsson O, Stobbe MD, Thorleifsson SG, Agren R, Bölling C, Bordel S, Chavali AK, Dobson P, Dunn WB, Endler L, Hala D, Hucka M, Hull D, Jameson D, Jamshidi N, Jonsson JJ, Juty N, Keating S, Nookaew I, Le Novère N, Malys N, Mazein A, Papin JA, Price ND, Selkov E Sr, Sigurdsson MI, Simeonidis E, Sonnenschein N, Smallbone K, Sorokin A, van Beek JH, Weichart D, Goryanin I, Nielsen J, Westerhoff HV, Kell DB, Mendes P, Palsson BØ. (2013) A community-driven global reconstruction of human metabolism. Nat Biotechnol., 31(5), 419.  http://www.ncbi.nlm.nih.gov/pubmed/23455439 10.1038/nbt.2488
2013 M. Santcroos, B. D. van Schaik, S. Shahand, S. D. Olabarriaga, A. Luckow, and S. Jha. (2013) Exploring dynamic enactment of scientific workflows using pilot-abstractions. In Cluster Computing and the Grid, IEEE International Symposium, pages 311–318.
2013 CE Kleinrouweler, M van Uitert, PD Moerland, C Ris-Stalpers, JAM van der Post, G Afink. (2013) Differentially expressed genes in the pre-eclamptic placenta: a systematic review and meta-analysis. PLoS ONE, 8(7):e68991 http://www.ncbi.nlm.nih.gov/pubmed/23874842
2013 Bergonzi S, Albani MC, Ver Loren van Themaat E, Nordström KJ, Wang R, Schneeberger K, Moerland PD, Coupland G (2013) Mechanisms of age-dependent response to winter temperature in perennial flowering of Arabis alpina. Science. 340(6136):1094 http://www.ncbi.nlm.nih.gov/pubmed/23723236
2013 de Kwaasteniet B, Ruhe E, Caan M, Rive M, Olabarriaga S, Groefsema M, Heesink L, van Wingen G, Denys D. (2013) Relation between structural and functional connectivity in major depressive disorder. Biol Psychiatry., 74(1):40-7. (IF2012: 9.247)  [AMC] http://www.ncbi.nlm.nih.gov/pubmed/23399372
2013 S. Shahand, A. Benabdelkader, J. Huguet, M. Jaghouri, M. Santcroos, M. al Mourabit, P. F. Groot, M. W. Caan, A.H. van Kampen, S.D. Olabarriaga (2013) A data-centric science gateway for computational neuroscience.()   http://ceur-ws.org/Vol-993/paper12.pdf
2013 Zoltan Farkas, Peter Kacsuk, Mark Santcroos, Silvia Olabarriaga, Akos Balasko, Krisztian Karoczkai (2013) Data Bridge: solving diverse data access in scientific applications.( http://ceur-ws.org/Vol-993/paper13.pdf
2013 Evert Mouw, Guido Van 'T Noordende, Baas Louter and Silvia Olabarriaga (2013) A Model-based Information Security Risk Assessment method for Science Gateways. http://ceur-ws.org/Vol-993/paper15.pdf
2013 Souley Madougou; Shayan Shahand; Mark Santcroos; Barbera van Schaik; Ammar Benabdelkader; Antoine van Kampen; Silvia Olabarriaga (2013) Characterizing Workflow-based Activity on a Production e-Infrastructure Using Provenance Data, Future Generation Computer Systems, 29(8), 1931–1942 
2013 Felix M Wensveen, Paul L Klarenbeek, Klaas P J M van Gisbergen, Maria F Pascutti, Ingrid A M Derks, Barbera D C van Schaik, Anja Ten Brinke, Niek de Vries, Durdica Cekinovic, Stipan Jonjic, René A W van Lier, Eric Eldering (2013)  Pro-apoptotic protein Noxa regulates memory T cell population size and protects against lethal immunopathology.   J Immunol. 190(3), 1180. (IF2012:5.520) [AMC] http://www.ncbi.nlm.nih.gov/pubmed/23277490
2013 EA McClellan, PD Moerland, PJ van der Spek, AP Stubbs (2013). NetWeAvers: an R package for integrative biological network analysis with mass spectrometry data. Bioinformatics http://www.ncbi.nlm.nih.gov/pubmed/24008417
2012 Shahand S, Caan MWA, van Kampen AHC, Olabarriaga SD (2012) Integrated Support for Neuroscience Research: from Study Design to Publication. Proceedings of HealthGrid Studies in Health Technology and Informatics. Volume 175, 2012. p.195-204. http://www.ncbi.nlm.nih.gov/pubmed/22942011
2012 Mark Santcroos, Silvia Delgado Olabarriaga, Shantenu Jha and Daniel S. Katz. (2012) Pilot Abstractions for Compute, Data, and Network. In: Proceedings of the workshop on Collaborative research using eScience infrastructure and high speed networks, eScience 2012 Workshop, 9 October 2012, Chicago.
2012 Gesing, S., Glatard, Tristan, Kruger, J, Olabarriaga, S.D., Solomonides, T, Silverstein, J., Montagnat, Johan, Gaignard, A., Krefting, D. (editors) (2012)  HealthGrid Applications and Technologies Meet Science Gateways for Life Sciences. vol 1, p. 232. Amsterdam: IOS Press. 
2012 Wortmann SB, Vaz FM, Gardeitchik T, Vissers LE, Renkema GH, Schuurs-Hoeijmakers JH, Kulik W, Lammens M, Christin C, Kluijtmans LA, Rodenburg  RJ, Nijtmans LG, Grünewald A, Klein C, Gerhold JM, Kozicz T, van Hasselt PM, Harakalova M, Kloosterman W, Barić I, Pronicka E, Ucar SK, Naess K, Singhal KK, Krumina Z, Gilissen C, van Bokhoven H, Veltman JA, Smeitink JA, Lefeber DJ, Spelbrink JN, Wevers RA, Morava E, de Brouwer AP. (2012) Mutations in the phospholipid remodeling gene SERAC1 impair mitochondrial function and intracellular cholesterol trafficking and cause dystonia and deafness. Nature Genetics, 44(7), 797-802. http://www.ncbi.nlm.nih.gov/pubmed/22683713 http://dx.doi.org/10.1038/ng.2325
2012 Schopman NC, van Montfort T, Willemsen M, Knoepfel SA, Pollakis G, van Kampen A, Sanders RW, Haasnoot J, Berkhout B. Selective packaging of cellular miRNAs in HIV-1 particles. Virus Research. 169(2):438-47. http://www.ncbi.nlm.nih.gov/pubmed/22728443
2012 EM Lodder, BP Scicluna, A Milano, AY Sun, H Tang, CA Remme, PD Moerland, MWT Tanck, GS Pitt, DA Marchuk, CR Bezzina. Dissection of a quantitative trait locus for PR interval duration identifies Tnni3k as a novel modulator of cardiac conduction. PLoS Genetics. 8(12): e1003113  http://www.ncbi.nlm.nih.gov/pubmed/23236294
2012 Andre Luckow, Mark Santcroos, Ole Weidner, Andre Merzky, Sharath Maddineni and Shantenu Jha. Towards a common model for pilot-jobs, Proceedings of the 21st international symposium on High-Performance Parallel and Distributed Computing, Delft, The Netherlands, p 123-124
2012 Andre Luckow, Mark Santcroos, Ole Weidner, Andre Merzky, Pradeep Kumar Mantha and Shantenu Jha. P*: A Model of Pilot-Abstractions. In: Proceedings of 2012 IEEE 7th International Conference on e-Science. pp.1-10
2012 Barbera D C van Schaik, Mark Santcroos, Vladimir Korkhov, Aldo Jongejan, Marcel Willemsen, Antoine H C van Kampen, Silvia D Olabarriaga (2012)  Challenges in DNA sequence analysis on a production grid   In: Proceedings of Science (EGICF12-EMITC2) 039, 1-19. [AMC] http://pos.sissa.it/archive/conferences/162/039/EGICF12-EMITC2_039.pdf
2012 Mouw, E., van `t Noordende, Guido J., van Kampen, A.H.C., Mark Santcroos, Olabarriaga, S.D.. (2012) Legal constraints on genetic data processing in European grids In Proceedings of HealthGrid, Studies in Health Technology and Informatics. Amsterdam 2012 Volume 175, p. 49-58 IOS Press, 2012 http://www.ncbi.nlm.nih.gov/pubmed/22941987
2012 Shahand S, Caan MWA, van Kampen AHC, Olabarriaga SD (2012) Integrated Support for Neuroscience Research: from Study Design to Publication. Proceedings of HealthGrid Studies in Health Technology and Informatics. Volume 175, 2012. p.195-204. http://www.ncbi.nlm.nih.gov/pubmed/22942011
2012 Peters BD, Machielsen MW, Hoen WP, Caan MW, Malhotra AK, Szeszko PR, Duran M,  Olabarriaga SD, de Haan L. (2013) Polyunsaturated fatty acid concentration predicts myelin integrity in early-phase psychosis. Schizophr Bull. , 39(4):830 http://www.ncbi.nlm.nih.gov/pubmed/22927668 10.1093/schbul/sbs089
2012 Michel De Vries, Bas B. Oude Munnink, Martin Deijs, Marta Canuti, Sylvie M. Koekkoek, Richard Molenkamp, Margreet Bakker, Suzanne Jurriaans, Barbera D. C. Van Schaik, Angela C. Luyf, Silvia D. Olabarriaga, Antoine H. C. Van Kampen, Lia Van Der Hoek .The performance of VIDISCA-454 in feces-suspensions and serum. Viruses, July 2012. http://www.ncbi.nlm.nih.gov/pubmed/23012629 10.3390/v4081328
2012 MD Stobbe, GA Jansen, PD Moerland, AHC van Kampen. Knowledge representation in metabolic pathway databases.  Briefings in Bioinformatics (0812). Accepted (IF2011: 5.202) 
2012 G Kramer, PD Moerland, RE Jeeninga, WJ Vlietstra, JH Ringrose, C Byrman, B Berkhout, D Speijer (2012). Proteomic analysis of HIV-T cell interaction: an update. Frontiers in Virology, 3:240.  http://www.ncbi.nlm.nih.gov/pubmed/22783244 10.3389/fmicb.2012.00240
2012 W Wegdam, PD Moerland, MR Buist, S de Jong, HCJ Hoefsloot, D Meijer, JMFG Aerts (2012). A critical assessment of SELDI-TOF-MS for biomarker discovery in serum and tissue of patients with an ovarian mass. Proteome Science, 10(1):45. (IF2010: 2.488)  http://www.ncbi.nlm.nih.gov/pubmed/22824475 10.1186/1477-5956-10-45
2012 C Helbig, R Gentek, RA Backer, Y de Souza, E Eldering, D Jankovic, T Gridley, P Moerland, R Flavell, D Amsen (2012). Notch controls the magnitude of CD4+ T cell responses by promoting cellular longevity. PNAS, 109(23): 9041-46. (IF2010: 9.771)  http://www.ncbi.nlm.nih.gov/pubmed/22615412 10.1073/pnas.1206044109
2012 Guido A. van Wingen, Elbert Geuze, Matthan W.A. Caan, Tamás Kozicz, Silvia D. Olabarriaga, Damiaan Denys, Eric Vermetten, Guillén Fernández. Persistent and reversible consequences of combat stress on the mesofrontal circuit and cognition. Proceedings of the National Academy of Sciences of the USA (PNAS). (IF2011: 9.681).Accepted. 
2012 Bart D. Peters, M.D., Marise Machielsen, Wendela Hoen, M.D., Matthan W. Caan, Philip R. Szeszko, Anil K. Malhotra, Silvia D. Olabarriaga, Lieuwe de Haan. Polyunsaturated Fatty Acid Concentration Predicts Myelin Integrity in Early Psychosis.. Schizophrenia Bulletin http://www.ncbi.nlm.nih.gov/pubmed/22927668 10.1093/schbul/sbs089
2012 Shahand S, Santcroos M, van Kampen AHC, Olabarriaga SD. (2012) A Grid-enabled Gateway for Biomedical Data Analysis. Journal of Grid Computing. Accepted (IF2011: 1.310)
2012 P.L. Klarenbeek 1,2*, EBM Remmerswaal 3*, IJM ten Berge 3,4, M.E.Doorenspleet1,2, B.D.C. van Schaik5, R.E.E. Esveldt1, S. Koch3, A. Ten Brinke6, A.H.C. van Kampen5, F.J. Bemelman4, P.P. Tak1, F. Baas2, N. de Vries1, R.A.W van Lier3,6.  (2012) Deep sequencing of antiviral T-cell responses to HCMV and EBV in humans reveals a stable repertoire that is maintained for many years" in PLoS Pathogens 
2012 Schopman NC, van Montfort T, Willemsen M, Knoepfel SA, Pollakis G, van Kampen A, Sanders RW, Haasnoot J, Berkhout B. Selective packaging of cellular miRNAs in HIV-1 particles. Virus Research. Accepted (IF2011: 2.951)  http://www.ncbi.nlm.nih.gov/pubmed/22728443 10.1016/j.virusres.2012.06.017
2012 Wortmann SB, Vaz FM, Gardeitchik T, Vissers LE, Renkema GH, Schuurs-Hoeijmakers JH, Kulik W, Lammens M, Christin C, Kluijtmans LA, Rodenburg  RJ, Nijtmans LG, Grünewald A, Klein C, Gerhold JM, Kozicz T, van Hasselt PM, Harakalova M, Kloosterman W, Barić I, Pronicka E, Ucar SK, Naess K, Singhal KK, Krumina Z, Gilissen C, van Bokhoven H, Veltman JA, Smeitink JA, Lefeber DJ, Spelbrink JN, Wevers RA, Morava E, de Brouwer AP. (2012) Mutations in the phospholipid remodeling gene SERAC1 impair mitochondrial function and intracellular cholesterol trafficking and cause dystonia and deafness. Nature Genetics, 44(7), 797-802. (IF2010: 36.377)  http://www.ncbi.nlm.nih.gov/pubmed/22683713 10.1038/ng.2325
2012 Stobbe MD, Houten SM, van Kampen AH, Wanders RJ, Moerland PD. (2012) Improving the description of metabolic networks: the TCA cycle as example. FASEB J.  http://www.ncbi.nlm.nih.gov/pubmed/22661004 10.1096/fj.11-203091
2012 Van Houdt JK, Nowakowska BA, Sousa SB, van Schaik BD, Seuntjens E, Avonce N, Sifrim A, Abdul-Rahman OA, van den Boogaard MJ, Bottani A, Castori M, Cormier-Daire V, Deardorff MA, Filges I, Fryer A, Fryns JP, Gana S, Garavelli L,  Gillessen-Kaesbach G, Hall BD, Horn D, Huylebroeck D, Klapecki J, Krajewska-Walasek M, Kuechler A, Lines MA, Maas S, Macdermot KD, McKee S, Magee A, de Man SA, Moreau Y, Morice-Picard F, Obersztyn E, Pilch J, Rosser E, Shannon  N, Stolte-Dijkstra I, Van Dijck P, Vilain C, Vogels A, Wakeling E, Wieczorek D, Wilson L, Zuffardi O, van Kampen AH, Devriendt K, Hennekam R, Vermeesch JR. (2012) Heterozygous missense mutations in SMARCA2 cause Nicolaides-Baraitser syndrome. Nature Genetics, 44(4), 445-9. http://www.ncbi.nlm.nih.gov/pubmed/22366787 10.1038/ng.1105
2012 Madougou S, Santcroos MA,  Benabdelkader A, Van Schaik BDC, Shahand S, Korkhov V, Van Kampen AHC, Olabariaga SD (2012) Provenance for distributed biomedical workflow execution. Proceedings of HealthGrid, Studies in Health Technology and Informatics. Volume 175, 2012. p.91-100.   10.3233/978-1-61499-054-3-91
2012 Klarenbeek PL, de Hair MJ, Doorenspleet ME, van Schaik BD, Esveldt RE, van de  Sande MG, Cantaert T, Gerlag DM, Baeten D, van Kampen AH, Baas F, Tak PP, de Vries N. (2012) Inflamed target tissue provides a specific niche for highly expanded T-cell clones in early human autoimmune disease. Annals of the Rheumatic Diseases, 71(6), 1088. http://www.ncbi.nlm.nih.gov/pubmed/22294635 10.1136/annrheumdis-2011-200612 
2012 Matthan Caan, Shayan Shahand, Frans M Vos, Antoine H van Kampen, Silvia D Olabarriaga, (2012)  Evolution of Grid -based Services for Diffusion Tensor Image Analysis. Future Generation Computer Systems. 
2012 Ammar Benabdelkader, Mark Santcroos, Souley Madougou, Antoine H.C. van Kampen, Silvia D. Olabarriaga. (2011) A Provenance approach to trace scientific experiments on a grid infrastructure. To appear in IEEE e-Science conference,  10.1016/j.future.2012.03.007
2012 Yassene Mohammed, Shayan Shahand, Vladimir Korkhov, Angela C.M. Luyf, Barbera D.C. van Schaik, Matthan W.A. Caan, Antoine H.C. van Kampen Magnus Palmblad, Silvia D. Olabarriaga (2011). Data Decomposition in Biomedical e-Science Applications, to appear in IEEE eScience conference 2011 Workshop on “Computing Advances in Life Sciences” (CALS 2011), Stockholm, Sweden  10.1109/eScience.2011.27
2011 de Vries M, Deijs M, Canuti M, van Schaik BD, Faria NR, van de Garde MD, Jachimowski LC, Jebbink MF, Jakobs M, Luyf AC, Coenjaerts FE, Claas EC, Molenkamp R, Koekkoek SM, Lammens C, Leus F, Goossens H, Ieven M, Baas F, van der Hoek L. (2011) A sensitive assay for virus discovery in respiratory clinical samples. PLoS One., 24;6(1):e16118. http://www.ncbi.nlm.nih.g=v/pubmed/21283679 10.1371/journal.pone.0=16118
2011 D. Krefting, T. Glatard, V. Korkhov, J. Montagnat, and S. Olabarriaga. (2011) Enabling Grid Interoperability at Workflow Level, Grid WorkflowWorkshop 2011, March 2011, Cologne, Germany.
2011 HMJ Sontrop, WFJ Verhaegh, MJT Reinders, PD Moerland. (2011) Evaluation strategies for subtype-specific breast cancer event prediction. PLoS ONE  http://www.ncbi.nlm.nih.g=v/pubmed/21760900 10.1371/journal.pone.0=21681
2011 SM Bol, PD Moerland, S Limou, Y van Remmerden, C Coulonges, D van Manen, JT Herbeck, J Fellay, M Sieberer, JG Sietzema, R van ’t Slot, J Martinson, J-F Zagury, H Schuitemaker, AB van ’t Wout (2011). Genome-wide association study identifies single nucleotide polymorphism in DYRK1A associated with replication of HIV-1 in monocyte-derived macrophages. PLoS ONE, 6(2): e17190.  http://www.ncbi.nlm.nih.g=v/pubmed/21364930 10.1371/journal.pone.0=17190
2011 MG Noordhuis, RSN Fehrmann, GBA Wisman, ER Nijhuis, JJ van Zanden, PD Moerland, E Ver Loren van Themaat, HH Volders, M Kok, KA ten Hoor, H Hollema, EGE de Vries, GH de Bock, AGJ van der Zee, E Schuuring (2011). Involvement of the TGF-β and β-catenin pathways in pelvic lymph node metastasis in early stage cervical cancer. Clinical Cancer Research, 17(6): 1317-30.  http://www.ncbi.nlm.nih.g=v/pubmed/21385933 10.1158/1078-0432.CCR-10-2320 
2011 Peeters A, Fraisl P, van den Berg S, Ver Loren van Themaat E, Van Kampen A, Rider MH, Takemori H, van Dijk KW, Van Veldhoven PP, Carmeliet P, Baes M. (2011) Carbohydrate metabolism is perturbed in peroxisome-deficient hepatocytes due to mitochondrial dysfunction, AMP-activated protein kinase (AMPK) activation, and peroxisome proliferator-activated receptor γ coactivator 1α (PGC-1α) suppression. Journal of Biological Chemistry, 286(49), 42162. http://www.ncbi.nlm.nih.g=v/pubmed/22002056 10.1074/jbc.M111.299727
2011 Stobbe MD, Houten SM, Jansen GA, van Kampen AH, Moerland PD (2011) Critical assessment of human metabolic pathway databases: a stepping stone for future integration. BMC Systems Biology, 5, 165.  http://www.ncbi.nlm.nih.gov/pubmed/21999653 10.1186/1752-0509-5-165
2011 Schopman NC, Willemsen M, Liu YP, Bradley T, van Kampen A, Baas F, Berkhout B, Haasnoot J. (2011) Deep sequencing of virus-infected cells reveals HIV-encoded small RNAs. Nucleic Acids Research, 40(1), 414 http://www.ncbi.nlm.nih.g=v/pubmed/21911362 10.1093/nar/gkr719
2011 Huis In 't Veld RA, Willemsen AM, van Kampen AH, Bradley EJ, Baas F, Pannekoek Y, van der Ende A. (2011) Deep Sequencing Whole Transcriptome Exploration of the σ Regulon in Neisseria meningitidis. PLoS One, 6(12):e29002. http://www.ncbi.nlm.nih.g=v/pubmed/22194974 10.1371/journal.pone.0=29002
2011 Shayan Shahand, Mark Santcroos, Yassene Mohammed, Vladimir Korkhov, Angela C. M. Luyf, Antoine Van Kampen and Silvia Olabarriaga. Front-ends to Biomedical Data Analysis on Grids.  Proceedings of HealthGrid, June 2011, Bristol. UK.  
2011 Piet JR, Huis In 't Veld RA, van Schaik BD, van Kampen AH, Baas F, van de Beek D, Pannekoek Y, van der Ende A. (2011) Genome Sequence of Neisseria meningitidis serogroup B strain H44/76. Journal of Bacteriology. 193(9), 2371. http://www.ncbi.nlm.nih.g=v/pubmed/21378179 10.1128/JB.01331-10
2011 Klarenbeek P, de Hair MJH, Doorenspleet ME, van Schaik BDC, Esveldt REE, van de Sande MGH, Cantaert d, Gerlag DM, Baeten D, van Kampen AHC, Baas F, Tak PP, de Vries N. (2011) INFLAMED TARGET TISSUE PROVIDES A SPECIFIC NICHE FOR HIGHLY EXPANDED T-CELL CLONES IN EARLY AUTOIMMUNE DISEASE. Annals of the Rheumatic Diseases.
2011 Hakvoort TB, Moerland PD, Frijters R, Sokolovic A, Labruyere WT, Vermeulen JL, Ver Loren van Themaat E, Breit TM, Wittink FR, van Kampen AH, Verhoeven AJ, Lamers WH, Sokolovic M. (2011) Interorgan coordination of the murine adaptive response to fasting. Journal of Biological Chemistry. 286(18):16332-43. http://www.ncbi.nlm.nih.g=v/pubmed/21393243 10.1074/jbc.M110.216986
2011 Ritz K, van Schaik BD, Jakobs ME, Aronica E, Tijssen MA, van Kampen AH, Baas F. (2011) Looking ultra deep: Short identical sequences and transcriptional slippage. Genomics.98(2), 90-5.  http://www.ncbi.nlm.nih.g=v/pubmed/21624457 10.1016/j.ygeno.2011.0=.005
2011 Sondermeijer BM, Bakker A, Halliani A, de Ronde MW, Marquart AA, Tijsen AJ, Mulders TA, Kok MG, Battjes S, Maiwald S, Sivapalaratnam S, Trip MD, Moerland PD, Meijers JC, Creemers EE, Pinto-Sietsma SJ. (2011) Platelets in patients with premature coronary artery disease exhibit upregulation of miRNA340* and miRNA624*. PLoS One. 6(10), e25946 http://www.ncbi.nlm.nih.g=v/pubmed/22022480 10.1371/journal.pone.0025946 
2011 Bol SM, Booiman T, Bunnik EM, Moerland PD, van Dort K, Strauss JF 3rd, Sieberer M, Schuitemaker H, Kootstra NA, van 't Wout AB. (2011) Polymorphism in HIV-1dependency factor PDE8A affects mRNA level and HIV-1 replication in primary macrophages. Virology, 420(1), 32-42 http://www.ncbi.nlm.nih.g=v/pubmed/21920574 10.1016/j.virol.2011.08.013 
2011 van Manen D, Delaneau O, Kootstra NA, Boeser-Nunnink BD, Limou S, Bol SM, Burger JA, Zwinderman AH, Moerland PD, van 't Slot R, Zagury JF, van 't Wout AB,  Schuitemaker H.  (2011) Genome-wide association scan in HIV-1-infected individuals identifying variants influencing disease course. PLoS One, 6(7), e22208  http://www.ncbi.nlm.nih.g=v/pubmed/21811574 10.1371/journal.pone.0022208 
2010 van Batenburg MF, Li H, Polman JA, Lachize S, Datson NA, Bussemaker HJ, Meijer OC. (2010) Paired hormone response elements predict caveolin-1 as a glucocorticoid target gene. PLoS One. 5(1), e8839. http://www.ncbi.nlm.nih.g=v/pubmed/20098621 10.1371/journal.pone.0=08839
2010 S.D. Olabarriaga, T. Glatard, P.T. de Boer (2010) A Virtual Laboratory for Medical Image Analysis, IEEE Transactions on Information Technology In Biomedicine (TITB), Volume 14 Issue 4, July 2010. http://www.ncbi.nlm.nih.g=v/pubmed/20371412 10.1109/TITB.2010.2046=42
2010 M.W.A. Caan, H.G. Khedoe, D.H.J. Poot, A.J. den Dekker, S.D. Olabarriaga, C.A. Grimbergen, L.J. van Vliet, F.M. Vos (2010) Estimation of diffusion properties in crossing fiber bundles, IEEE Transactions on Medical Imaging, 29(8).  http://www.ncbi.nlm.nih.g=v/pubmed/20562045 10.1109/TMI.2010.20495=7
2010 T. Glatard, R. S. Soleman, D. J. Veltman, A. Nederveen, and Silvia Olabarriaga (2010) Large scale functional MRI study on a production grid. Future Generation Computer Systems vol. 26, no. 4, pp. 685-692.  10.1016/j.future.2009.=7.014
2010 S. D. Olabarriaga and J. Montagnat (2010) Special section: Medical imaging on grids. Future Generation Computer Systems 26 (4), 678-680.  10.1016/j.future.2009.=8.015
2010 AJ Tijsen, EE Creemers, PD Moerland, LJ de Windt, AC van der Wal, WE Kok, YM Pinto (2010) MiR423-5p as a circulating biomarker for heart failure. Circulation Research, 106: 1035-9.  http://www.ncbi.nlm.nih.g=v/pubmed/20185794 10.1161/​CIRCRESAHA.110.218297
2010 KML Hertoghs*, PD Moerland*, A van Stijn, EBM Remmerswaal, SL Yong, PJEJ van de Berg, SM van Ham, IJM ten Berge and RAW van Lier (2010) Molecular profiling of cytomegalovirus induced human CD8+ T cell differentiation. Journal of Clinical Investigation, 120(11):4077-90. http://www.ncbi.nlm.nih.g=v/pubmed/20921622 10.1172/JCI42758
2010 M.W.A. Caan, F.M. Vos, L.J. van Vliet, A.H.C. van Kampen, S.D. Olabarriaga. (2010) Gridifying a Diffusion Tensor Imaging Analysis Pipeline. 10th IEEE/ACM International Conference on Cluster, Cloud and Grid Computing (CCGrid 2010) 17-20 May, Melbourne, Australia.
2010 F. Gwadry-Sridhar, S.D. Olabarriaga, A. van Kampen, Michael Bauer, Tony Solomonides. (2010) Hitting the ground running: Healthgrid deployment and adoption. Proceedings of HealthGrid 2010, Paris.
2010 Klarenbeek PL, Tak PP, van Schaik BD, Zwinderman AH, Jakobs ME, Zhang Z, van Kampen AH, van Lier RA, Baas F, de Vries N. (2010) Human T-cell memory consists mainly of unexpanded clones. Immunol Lett., ;133(1), 42-8.  http://www.ncbi.nlm.nih.g=v/pubmed/20621124 10.1016/j.imlet.2010.0=.011
2010 Luyf AC, van Schaik BD, de Vries M, Baas F, van Kampen AH, Olabarriaga SD. (2010) Initial steps towards a production platform for DNA sequence analysis on the grid. BMC Bioinformatics. 11(1), 598.  http://www.ncbi.nlm.nih.g=v/pubmed/21156038 10.1186/1471-2105-11-598
2010 Ritz K, van Schaik BD, Jakobs ME, van Kampen AH, Aronica E, Tijssen MA, Baas F. (2010) SGCE isoform characterization and expression in human brain: implications for  myoclonus-dystonia pathogenesis? Eur J Hum Genet, 19(4):438-44.  http://www.ncbi.nlm.nih.g=v/pubmed/21157498 10.1038/ejhg.2010.206
2010 H Sontrop, W Verhaegh, R van den Ham, MJT Reinders, PD Moerland. Subtype specific breast cancer event prediction. IEEE International Workshop on Genomic Signal Processing and Statistics 2010 (GENSIPS2010).  http://www.ncbi.nlm.nih.g=v/pubmed/21760900 10.1371/journal.pone.0=21681
2010 Paul Groth, Andrew Gibson, Jan Velterop (2010) The anatomy of a nano-publication. Information Services and Use, 30(1-2), 51.  10.3233/ISU-2010-0613<=td>
2010 TCTM van der Pouw Kraan, SH Schirmer, JO Fledderus, PD Moerland, JM Baggen, TA Leyen, AM van der Laan, JJ Piek, N van Royen, AJG Horrevoets (2010). The transcriptome of circulating CD34 cells reveals loss of the naïve signature in coronary artery disease patients, consistent with a retinoic acid-induced program. BMC Genomics, 11(1):388.  http://www.ncbi.nlm.nih.g=v/pubmed/20565948 10.1186/1471-2164-11-3=8
2010 Yassene Mohammed, Ulrich Sax, Frank Dickmann, Joerg Lippert, Juri Solodenko, Gabriele Von Voigt, Matthew Smith, Otto Rienhoffo (2010) Transferring the Grid Technology to the Biomedical Community.  Proceedings of HealthGrid 2010, Paris.
2009 HMJ Sontrop, PD Moerland, R van den Ham, MJ Reinders, WFJ Verhaegh (2009). A comprehensive sensitivity analysis of microarray breast cancer classification under feature variability. BMC Bioinformatics, 10:389.  http://www.ncbi.nlm.nih.g=v/pubmed/19941644 10.1186/1471-2105-10-3=9
2009 Herman Sontrop, René van den Ham, Perry Moerland, Marcel Reinders and Wim Verhaegh. (2009) A sensitivity analysis of microarray feature selection and classification under measurement noise. Genomic Signal Processing and Statistics, GENSIPS 2009. IEEE International Workshop, p. 1– 4. 10.1109/GENSIPS.2009.5=74352
2009 G. van Noordende, S.D. Olabarriaga, M. Koot, C. de Laat (2009) A Trusted Data Storage Infrastructure for Grid-Based Medical Applications. International Journal of Grid and High Performance Computing (IJGHPC) 1(2), 1-14, April-June 2009. 10.4018/jghpc.2009040101
2009 W. M. van der Flier, J. Sluimer, G.B. Karas, R. van Schijndel, J. Barnes, R. Boyes, K. Cover, S. Olabarriaga, N. C. Fox, P. Scheltens, H. Vrenken and F. Barkhof (2009) Accelerating regional atrophy rates in the progression from normal aging to Alzheimer´s disease. European Radiology, 19(12), 2826-33. http://www.ncbi.nlm.nih.gov/pubmed/IS 64
2009 Sluimer JD, van der Flier WM, Karas GB, van Schijndel R, Barnes J, Boyes RG, Cover KS, Olabarriaga SD, Fox NC, Scheltens P, Vrenken H, Barkhof F. (2009) Accelerating regional atrophy rates in the progression from normal aging to Alzheimer's disease. European Radiology., 19(12), 2826  http://www.ncbi.nlm.nih.g=v/pubmed/19618189 10.1007/s00330-009-151=-5
2009 Wegdam W*, Moerland PD*, Buist MR, Ver Loren van Themaat E, Bleijlevens B, Hoefsloot HC, de Koster CG, Aerts JM. (2009) Classification-based comparison of pre-processing methods for interpretation of mass spectrometry generated clinical datasets. Proteome Science, 14;7:19. *Contributed equally.  http://www.ncbi.nlm.nih.gov/pubmed/19442271
2009 S. Olabarriaga, T. Glatard, A. Hoheisel, A. Nederveen, D. Krefting. (2009) Crossing HealthGrid Borders: Early Results in Medical Imaging. Proceedings of Healthgrid. Studies in Health Technology and Informatics. 147:62-71. http://www.ncbi.nlm.nih.g=v/pubmed/19593045 10.3233/978-1-60750-027-8-62
2009 Stephan H. Schirmer, Niels van Royen, Perry D. Moerland, Joost O. Fledderus, José P. Henriques, René J. van der Schaaf, Marije M. Vis, Jan Baan Jr.,  Karel T. Koch, Anton J.G. Horrevoets, Jan J. Piek (2009). Local Cytokine Release is Increased in Less Mature Collateral Arteries and Reflects Collateral Arterial Oxygen Pressure in Man. Journal of the American College of Cardiology. 53(23):2141-2147.  http://www.ncbi.nlm.nih.g=v/pubmed/19497439 10.1016/j.yjmcc.2008.1=.029    
2009 Miinalainen IJ, Schmitz W, Huotari A, Autio KJ, Soininen R, Ver Loren van Themaat E, Baes M, Herzig KH, Conzelmann E, Hiltunen JK (2009). Mitochondrial 2,4-dienoyl-CoA reductase deficiency in mice results in severe hypoglycemia with stress intolerance and unimpaired ketogenesis. PLoS Genetics, 5(7):e1000453.  http://www.ncbi.nlm.nih.g=v/pubmed/19578400 10.1371/journal.pgen.1=00543
2009 Nora Bijl, Milka Sokolovic, Carlos Vrins, Mirjam Langeveld, Perry D. Moerland, Nike Claessen, Roelof Ottenhoff, Cindy van Roomen, Peter Dubbelhuis, Rolf Boot, Jan Aten, Bert Groen, Johannes M.F.G. Aerts, Marco van Eijk (2009). Modulation of Glycosphingolipid Metabolism Significantly Improves Hepatic Insulin Sensitivity and Reverses Hepatic Steatosis in Mice. Hepatology, 50(5):1431-41  http://www.ncbi.nlm.nih.g=v/pubmed/19731235 10.1002/hep.23175
2009 BC van Munster, MJ van Breemen, PD Moerland, D Speijer, SE de Rooij, CJG Pfrommer, M Levi, MW Hollmann, JM Aerts, AH Zwinderman, JC Korevaar (2009). Proteomic Profiling of Plasma and Serum of Elderly Patients with Postoperative Delirium. Journal of Neuropsychiatry and Clinical Neuroscience. 21:284-91. http://www.ncbi.nlm.nih.gov/pubmed/19776308
2009 van Hooff SR, Koster J, Hulsen T, van Schaik BD, Roos M, van Batenburg MF, Versteeg R, van Kampen AH. (2009) The construction of genome-based transcriptional units. OMICS, 13(2), 105.  http://www.ncbi.nlm.nih.g=v/pubmed/19320556 10.1089/omi.2008.0036
2009 Roos M, Marshall MS, Gibson AP, Schuemie M, Meij E, Katrenko S, van Hage WR, Krommydas K, Adriaans PW (2009) Structuring and extracting knowledge for the support of hypothesis generation in molecular biology. BMC Bioinformatics 2009, 10(Suppl 10):S9  http://www.ncbi.nlm.nih.g=v/pubmed/19796406 10.1186/1471-2105-10-S=0-S9
2009 Stephan H. Schirmer, Joost O. Fledderus, Anja M. van der Laan, Tineke C.T.M. van der Pouw-Kraan,  Perry D. Moerland, Oscar L. Volger, Josefien M. Baggen,  Michael Böhm, Jan J. Piek, Anton J.G. Horrevoets, Niels van Royen (2009). Suppression of Inflammatory Signaling in Monocytes from Patients with Coronary Artery Disease. Journal of Molecular and Cellular Cardiology, 46(2):177-85.  http://www.ncbi.nlm.nih.g=v/pubmed/19059264 10.1016/j.yjmcc.2008.1=.029
2008 J. A. Ferreira and S. O. Nyangoma (2008) A multivariate version of the Benjamini-Hochberg, Journal of Multivariate Analysis, 99 (9),  2108-2124. 10.1016/j.jmva.2008.02.013
2008 S.D. Olabarriaga, T. Glatard, K. Boulebiar, and P. de Boer (2008) From 'low-hanging' to 'user-ready': initial steps into a healthgrid, Healthgrid, Chicago, p. 70-79. http://www.ncbi.nlm.nih.gov/pubmed/18560109
2008 M. M. L. de Win, G. Jager, J. Booij, L. Reneman, T. Schilt, C. Lavini, S. D. Olabarriaga, G. J. den Heeten and W. van den Brink (2008) Sustained effects of ecstasy on the human brain: a prospective neuroimaging study in novel users, Brain, 131(Pt 11):2936-45. http://www.ncbi.nlm.nih.g=v/pubmed/18842607 10.1093/brain/awn255
2008 G. van Noordende, S.D. Olabarriaga, M. Koot, C. de Laat (2008) A Trusted Data Storage Infrastructure for Grid-Based Medical Applications. International Journal of Grid and High Performance Computing (IJGHPC) 10.1109/CCGRID.2008.84=/td>
2008 S. van der Laan, RA Sarabdjitsingh, MF van Batenburg, SB Lachize, H Li, TF Dijkmans, E Vreugdenhil, ER de Kloet and OC Meijer (2008) Chromatin immunoprecipitation (ChIP) scanning identifies glucocorticoid receptor binding regions in the proximal of a ubiquitously expressed glucocorticoid target gene in brain. Journal of Neurochemistry,106(6), 2515-2523. http://www.ncbi.nlm.nih.g=v/pubmed/18643788 10.1111/j.1471-4159.2008.05575.x
2008 Judith E. van de Mortel, Henk Schat, Perry D. Moerland, Emiel Ver Loren van Themaat, and Mark G. M. Aarts (2008) Expression differences for genes involved in lignin-, glutathione-, sulfate- and nitrate metabolism in response to cadmium in Arabidposis thaliana and the related Zn/Cd hyperaccumulator Thlaspi caerulescens. Plant, Cell & Environment, 31(3), 301-24.  http://www.ncbi.nlm.nih.g=v/pubmed/18088336 10.1111/j.1365-3040.2007.01764.x
2008 T. Glatard, S. Olabarriaga (2008). From gridified scripts to workflows: the FSL Feat case.  Proceedings of the MICCAI Workshop on Medical imaging on grids: achievements and perspectives (MICCAI-Grid), New-York, p. 33-42. =0.1.1.159.3933
2008 Stephan H Schirmer, Joost O Fledderus, Pieter TG Bot, Perry D Moerland, Imo E Hoefer, Jan Baan, José PS Henriques, René J van der Schaaf, Marije M Vis, Anton JG Horrevoets, Jan J Piek, and Niels van Royen (2008) Interferon-beta signaling is enhanced in patients with insufficient coronary collateral artery development and inhibits arteriogenesis in mice. Circulation Research, 102(10), 1286-94.  http://www.ncbi.nlm.nih.g=v/pubmed/18420941 10.1161/​CIRCRESAHA.108.171827 
2008 Lagarde SM*, Ver Loren van Themaat PE*, Moerland PD, Gilhuijs-Pederson LA, ten Kate FJW, Reitsma PH, van Kampen AHC, Zwinderman AH, Baas F, van Lanschot JJB. (2008) Analysis of gene expression identifies differentially expressed genes and pathways associated with lymphatic dissemination in patients with adenocarcinoma of the esophagus. Annals of Surgical Oncology, 15(12), 3459-70.  http://www.ncbi.nlm.nih.g=v/pubmed/18825457 10.1245/s10434-008-0165-y
2008 R.S. Soleman, T. Glatard, D.J. Veltman, A. Nederveen, S. Olabarriaga (2008). Large scale fMRI parameter study on a production grid. Proceedings of the MICCAI Workshop on Medical imaging on grids: achievements and perspectives (MICCAI-Grid), New-York, p.65-74.  10.1016/j.future.2009.=7.014
2008 Martens K, Ver Loren van Themaat E, van Batenburg MF, Heinäniemi M, Huyghe S, Van Hummelen P, Carlberg C, Van Veldhoven PP, Van Kampen A, Baes M. (2008) Coordinate Induction of PPAR alpha and SREBP2 in multifunctional protein 2 deficient mice. Biochim Biophys Acta, 1781(11-12), 694-702 http://www.ncbi.nlm.nih.g=v/pubmed/18773970 10.1016/j.bbalip.2008.=7.010
2008 Petra Biewenga, Marrije R. Buist, Perry D. Moerland, Emiel Ver Loren van Themaat, van Kampen, Fiebo J. ten Kate, Frank Baas (2008) Gene expression in early stage cervical cancer. Gynaecologic Oncology, 108(3), 520-6.  http://www.ncbi.nlm.nih.g=v/pubmed/18191186 10.1016/j.ygyno.2007.1=.024
2008 Willemsen AM, Jansen GA, Komen JC, van Hooff S, Waterham HR, Brites PM, Wanders RJ, van Kampen AH (2008) Organization and integration of biomedical knowledge with concept maps for key peroxisomal pathways.Bioinformatics. 24(16), i21-7.  http://www.ncbi.nlm.nih.g=v/pubmed/18689827 10.1093/bioinformatics/btn274
2008 Buimer M, Keijser R, Jebbink JM, Wehkamp D, van Kampen AH, Boer K, van der Post JA, Ris-Stalpers C. (2008)  Seven placental transcripts characterize HELLP-syndrome. Placenta, 29(5):444-53.  http://www.ncbi.nlm.nih.g=v/pubmed/18374411 10.1016/j.placenta.200=.02.007  
2008 Zuzana Zelinkova, Astrid J. van Beelen, Floor de Kort, Perry D. Moerland, P.E. Ver Loren van Themaat, Anje A.te Velde, Sander J. Van Deventer, Esther C. de Jong, Daniel W. Hommes (2008) Muramyl Dipeptide-Induced Differential Gene Expression in NOD2 Mutant and Wild Type Crohn`s Disease Patients-Derived Dendritic Cells. Inflamm. Bowel. Dis. 14(2):186-94.  http://www.ncbi.nlm.nih.g=v/pubmed/17941075 10.1002/ibd.20308
2008 M. M. L. de Win, G. Jager, J. Booij, L. Reneman, T. Schilt, C. Lavini, S. D. Olabarriaga, N. F. Ramsey, G. J. den Heeten and W. van den Brink (2008) Neurotoxic effects of ecstasy on the thalamus. British Journal of Psychiatry, 193(4), 289-96.  http://www.ncbi.nlm.nih.g=v/pubmed/18827290 10.1192/bjp.bp.106.035089 
2008 Inda MA, van Batenburg MF, Roos M, Belloum AS, Vasunin D, Wibisono A, van Kampen AH, Breit TM. (2008) SigWin-detector: a Grid-enabled workflow for discovering enriched windows of genomic features related to DNA sequences.BMC Res Notes. 8;1(1), 63.  http://www.ncbi.nlm.nih.g=v/pubmed/18710516 doi:10.1186/1756-0500-1-63
2008 Schaaf GJ, van Ruissen F, van Kampen A, Kool M, Ruijter JM. (2008) Statistical comparison of two or more SAGE libraries: one tag at a time. Methods Mol Biol. 387, 151-68. http://www.ncbi.nlm.nih.gov/pubmed/18287630
2008 Sokolović M, Sokolović A, Wehkamp D, Ver Loren van Themaat E, de Waart DR, Gilhuijs-Pederson LA, Nikolsky Y, van Kampen AH, Hakvoort TB, Lamers WH (2008). The transcriptomic signature of fasting murine liver. BMC Genomics, 9, 528.  http://www.ncbi.nlm.nih.g=v/pubmed/18990241 10.1186/1471-2164-9-528
2008 T. Glatard, S. Olabarriaga (2008). "User friendly management of workflow results: from provenance information to grid logical file names". Proceedings of the 4th IEEE International Conference on e-Science (eScience'08), Indianapolis.  10.1109/eScience.2008.=1
2008 T. Glatard, K. Boulebiar and S. D. Olabarriaga. (2008) Workflow integration in VL-e medical, in Proceedings of the 21st IEEE International Symposium on Computer-Based Medical Systems (CBMS'08), Jyväskylä, Finland, 17-19. 10.1.1.159.3933
2007 Jose A. Ferreira and Stephen O. Nyangoma (2007) A multivariate version of the Benjamini-Hochberg method. COBRA Preprint Series. Article 24. 10.1016/j.jmva.2008.02=013
2007 Oscar L Volger, Joost O Fledderus, Natasja Kisters, Ruud D Fontijn, Perry D Moerland, Johan Kuiper, Theo J van Berkel, Ann-Pascale JJ Bijnens, Mat JAP Daemen, Hans Pannekoek, Anton JG Horrevoets (2007) Distinctive expression of chemokines and Transforming Growth Factor- β signaling in human arterial endothelium during  atherosclerosis. American Journal of Pathology, 171(1), 326-37.  http://www.ncbi.nlm.nih.g=v/pubmed/17591977 10.2353/ajpath.2007.06=196
2007 Sokolovic M, Wehkamp D, Sokolovic A, Vermeulen J, Gilhuijs-Pederson LA, van Haaften RI, Nikolsky Y, Evelo CT, van Kampen AH, Hakvoort TB, Lamers WH (2007) Fasting induces a biphasic adaptive metabolic response in murine small intestine. BMC Genomics, 8(1), 361  http://www.ncbi.nlm.nih.g=v/pubmed/17925015 10.1186/1471-2164-8-36=
2007 Nyangoma SO, van Kampen AA, Reijmers TH, Govorukhina NI, van der Zee AG, Billingham LJ, Bischoff R, Jansen RC (2007) Multiple testing issues in discriminating compound-related peaks and chromatograms from high frequency noise, spikes and solvent-based noise in LC-MS data sets. Stat Appl Genet Mol Biol. 6, Article23.  http://www.ncbi.nlm.nih.gov/pubmed/17910529
2007 Gerben J. Schaaf, Fred van Ruissen, Antoine van Kampen, Marcel Kool and Jan M. Ruijter (2007) Statistical Comparison of Two or More SAGE Libraries: One Tag at the Time. In Serial Analysis of Gene Expression. Methods and Protocols. Nielsen, Kåre Lehmann (Ed.). Humana Press.  10.1007/978-1-59745-454-4_12
2007 Soufan AT, Van den Berg G, Moerland PD, Massink MM, Van den Hoff MJ, Moorman AF, Ruijter JM (2007) Three-dimensional measurement and visualization of morphogenesis applied to cardiac embryology. Journal of Microscopy, 225 (Pt 3), 268-73.  http://www.ncbi.nlm.nih.g=v/pubmed/17371450 10.1111/j.1365-2818.2007.01742.x
2006 Jansen GA, Wanders RJ (2006) Alpha Oxidation. Biochim Biophys Acta. - Molecular Cell Research, 1763(12),1403-12  http://www.ncbi.nlm.nih.g=v/pubmed/16934890 10.1016/j.bbamcr.2006.=7.012
2006 Vos JB, Datson NA, van Kampen AHC, AC Luyf, Verhoosel RM, Zeeuwen PLMJ, Olthuis D, Rabe KF, Schalkwijk J, Hiemstra PS (2006) A molecular signature of epitheial inflammation: a comparative gene expression analysis of cultured bronchial epithelial cels and keratinocytes. BMC Genomics, 7(1), 9.  http://www.ncbi.nlm.nih.g=v/pubmed/16420688 10.1186/1471-2164-7-9<=td>
2006 MWJ van Passel, A Bart, ACM Luyf, AHC van Kampen, A van der Ende (2006) compositional discordance between prokaryotic plasmids and host chromosomes. BMC Genomics, 7(1), 26.  http://www.ncbi.nlm.nih.g=v/pubmed/16480495 10.1186/1471-2164-7-26=/td>
2006 MWJ van Passel, A Bart, ACM Luyf, AHC van Kampen, A van der Ende (2006) Identification of acquired DNA in Neisseria Lactamica. FEMS Microbiology Letters, 262, 77-84  http://www.ncbi.nlm.nih.g=v/pubmed/16907742 10.1111/j.1574-6968.2006.00366.x
2006 Zelinkova Z, Derijks LJ, Stokkers PC, Vogels EW, van Kampen AH, Curvers WL, Cohn D, van Deventer SJ, Hommes DW. (2006) Inosine triphosphate pyrophosphatase and thiopurine s-methyltransferase genotypes relationship to azathioprine-induced myelosuppression. Clinical Gastroenterology and Hepatology, 4(1), 44-9.  http://www.ncbi.nlm.nih.g=v/pubmed/16431304 10.1016/j.cgh.2005.10.=19
2006 van de Mortel JE, Almar Villanueva L, Schat H, Kwekkeboom J, Coughlan S, Moerland PD, Ver Loren van Themaat E, Koornneef M, Aarts MG. (2006) Large Expression Differences in Genes for Iron and Zinc Homeostasis, Stress Response and Lignin Biosynthesis Distinguish Arabidopsis thaliana and the Related Metal Hyperaccumulator Thlaspi caerulescens. Plant Physiol. 142, 1127-1147.  http://www.ncbi.nlm.nih.g=v/pubmed/16998091 10.1104/pp.106.082073<=td>
2006 MW van Passel, EE Kuramae, AC Luyf, A Bart, T Boekhout (2006) The reach of the genome signature in prokaryotes. BMC Evol Biol. 6(1), 84  http://www.ncbi.nlm.nih.g=v/pubmed/17040564 10.1186/1471-2148-6-84=/td>
2006 Halasz G, van Batenburg MF, Perusse J, Hua S, Lu XJ, White KP, Bussemaker HJ. (2006) Detecting transcriptionally active regions using genomic tiling arrays. Genome Biology, 7(7), R59.  http://www.ncbi.nlm.nih.g=v/pubmed/16859498 10.1186/gb-2006-7-7-r5=
2005 MWJ van Passel, A Bart, HH Thygesen, ACM Luyf, AHC van Kampen, A van der Ende (2005) An acquisition account of genomic islands based on genome signature comparisons. BMC genomics. 6(1), 163.  http://www.ncbi.nlm.nih.g=v/pubmed/16297239 10.1186/1471-2164-6-16=
2005 Braat H, Stokkers P, Hommes T, Cohn D, Vogels E, Pronk I, Spek A, van Kampen A, van Deventer S, Peppelenbosch M, Hommes D. (2005) Consequence of functional Nod2 and Tlr4 mutations on gene transcription in Crohn's disease patients. Journal of Molecular Medicine, 83(8), 601-9. http://www.ncbi.nlm.nih.g=v/pubmed/16010583 10.1007/s00109-005-0685-x
2005 MWJ. van Passel, A Bart, ACM, Luyf, AHC van Kampen, A van der Ende (2005) Delta-Rho-Web: an application for the detection of anomylous DNA. Bioinformatics, 21(13), 3053.  http://www.ncbi.nlm.nih.g=v/pubmed/15855249 10.1093/bioinformatics/bti460
2005 Schaaf, GJ, Ruijter JM, van Ruissen F, Zwijnenburg DA, Waaijer R, van Kampen AHC, Valentijn L, Benit-Deekman J, Baas F, Kool M (2005) Full transcriptome analysis of rhabdomyosarcoma, normal and fetal skeletal muscle: statistical comparison of multiple SAGE libraries. FASEB J, 19(3), 404-406  http://www.ncbi.nlm.nih.g=v/pubmed/15629888 10.1096/fj.04-2104fje
2005 van Kampen AHC, Horrevoets A (2005) The role of bioinformatics in genomic medicine. Chapter 6, page 103-120. In Gene Therapy (series Cardiovascular research: new technologies, methods & applications). Pasterkamp G and de Kleijn, DPV (Eds), Springer, New York.  ISBN: 0-387-23328-8 10.1007/0-387-23329-6_6
2004 MWJ van Passel, A Bart, RJA Waaijer, ACM Luyf, AHC van Kampen, A van der Ende (2004) An in vitro strategy for the selective isolation of anomylous DNA from prokaryotic genomics. Nucleic Acids Research, 32(14), e114. http://www.ncbi.nlm.nih.g=v/pubmed/15304543 10.1093/nar/gnh115
2003 van Kampen AHC, Ruijter JM, van Schaik BDC, Caron HN, Versteeg, R (2003) Gene expression informatics and analysis. In Bioinformatics for geneticists. Barnes MR, Gray IC (Eds), Chapter 15, page 319-344 John Wiley & Sons, Chichester.  10.1002/0470867302.ch15
2003 Versteeg R, van Schaik BDC, van Batenburg MF, Roos M, Monajemi R, Caron HN, Bussemaker HJ, van Kampen AHC (2003) The Human Transcriptome Map reveals extremes in gene density, intron length, GC content and repeat pattern for domains of highly and weakly expressed genes. Genome Research, 13, 1998-2004.  http://www.ncbi.nlm.nih.g=v/pubmed/12915492 http://dx.doi.org/10.1101/gr.1649303
2003 de Jonge RR, Vreijling JP, Meintjes A, Kwa MS, van Kampen AHC, van Schaik IN, Baas F. (2003) Transcriptional profile of the human peripheral nervous system by serial analysis of gene expression. Genomics, 82(20), 97-108.  http://www.ncbi.nlm.nih.g=v/pubmed/12837261 10.1016/S0888-7543(03)=0124-1
2002 Ruijter JM, van Kampen AHC and Baas F (2002) Statistical evaluation of Serial Analysis of Gene Expression (SAGE) libraries: consequences for experimental design. Physiological Genomics, 11(2), 37-44.  http://www.ncbi.nlm.nih.gov/pubmed/12407185
2002 Godfried MB, Veenstra M, v Sluis P, Boon K, v Asperen R, Hermus MC, v Schaik BD, Voûte TP, Schwab M, Versteeg R, Caron HN. (2002) The N-myc and c-myc downstream pathways include the chromosome 17q genes nm23-H1 and nm23-H2. Oncogene. 27;21(13):2097-101. http://dx.doi.org/10.1038/sj.onc.1205259
2002 Luyf ACM, de Gast J, van Kampen AHC (2002) Visualizing metabolic activity on a genome-wide scale Bioinformatics,18(6), 813-818.  http://www.ncbi.nlm.nih.g=v/pubmed/12075016 10.1093/bioinformatics/18.6.813
2001 Moreno JC, Pauws E, van Kampen AHC, Jedlickova M, de Vijlder JJM, Ris-Stalpers C(2001) Cloning of tissue-specific genes using serial analysis of gene expression and a novel computational substraction method, Genomics,75,70-76.  http://www.ncbi.nlm.nih.g=v/pubmed/11472069 10.1006/geno.2001.6586=/td>
2001 Pauws E, van Kampen AHC, van de Graaf SAR, de Vijlder JJM, Ris-Stalpers C (2001) Heterogeneity in polyadenylation cleavage sites in mammalian mRNA sequences: implications for SAGE analysis, Nucleic Acids Research, 29(8), 1690-1694. http://www.ncbi.nlm.nih.gov/pubmed/11292841
2001 Caron HN, van Schaik BDC, van der Mee M, van Sluis P, Hermus M-C, van Asperen R, Riggins G, Heisterkamp SH, Baas F, Boon K, Voûte PA, van Kampen AHC and Versteeg R (2001) The Human Transcriptome Map reveals a clustering of highly expressed genes in chromosomal domains, Science, 291, 1289-1292.  http://www.ncbi.nlm.nih.g=v/pubmed/11181992 10.1126/science.1056794 
2001 Spieker N, van Sluis P, Beitsma M, Boon K, van Schaik BDC, van Kampen AHC, Caron H and Versteeg R (2001) The MEIS1 Oncogene Is Highly Expressed in Neuroblastoma and Amplified in Cell Line IMR32. Genomics 71(2), 214-221.  http://www.ncbi.nlm.nih.g=v/pubmed/11161815 10.1006/geno.2000.6408
2000 van Kampen AHC, van Schaik BDC, Pauws E, Michiels EMC, Ruijter JM, Caron HN, Versteeg R, Heisterkamp SH, Leunissen JAM, Baas F and van der Mee M (2000) USAGE: a web-based approach for the analysis of SAGE data. Bioinformatics, 16(10), 899-905.  http://www.ncbi.nlm.nih.gov/pubmed/11120679 10.1093/bioinformatics/16.10.899
1997 van Kampen, A. H. C., Beckers, M. L. M., and Buydens, L. M. C. (1997) A Comparative Study of the Dg-Omega (DGW), DGII, and Gat Method for the Structure Elucidation of a Methylene-Acetal Linked Thymine Dinucleotide. Computers & Chemistry 21(5), 281-97
1997 van Kampen, A. H. C., Ramadan, Z., Mulholland, M., Hibbert, D. B., and Buydens, L. M. C. (1997) Learning Classification Rules from an Ion Chromatography Database Using a Genetic Algorithm Based Classifier System. Analytica Chimica Acta 344, 1-15
1997 van Kampen, A. H. C., and Buydens, L. M. C. (1997) Reinvestigation of a Genetic Based Classifier System. The Effectiveness of Recombination. Computers & Chemistry 21(3), 153-60 http://www.ncbi.nlm.nih.gov/pubmed/9149380 10.1016/S0097-8485(96)=0030-7
1997 van Kampen, A. H. C., and Buydens, L. M. C. (1997) The Ineffectiveness of Recombination in a Genetic Algorithm for the Structure Elucidation of a Heptapeptide in Torsion Angle Space. A Comparison to Simulated Annealing. Chemometrics and Intelligent Laboratory Systems 36, 141-52
1996 van Kampen, A. H. C., Strom, C. S., and Buydens, L. M. C. (1996) Lethalization, Penalty and Repair Functions for Constraint Handling in the Genetic Algorithm Methodology. Chemometrics and Intelligent Laboratory Systems 34(1), 55-68 10.1016/0169-7439(96)0=010-X
1996 van Kampen, A. H. C., Buydens, L. M. C., Lucasius, C. B., and Blommers, M. J. J. (1996) Optimisation of Metric Matrix Embedding by Genetic Algorithms. Journal of Biomolecular NMR 7(3), 214-24 http://www.ncbi.nlm.nih.gov/pubmed/8785497
1996 van Kampen, A. H. C., and Buydens, L. M. C. (1996) The Effectiveness of Recombination in the Genetic Algorithm Methodology. A Comparison to Simulated Annealing in Proceedings of the Second Nordic Workshop on Genetic Algorithms and Their Applications, pp. 115-30, University of Vaasa, Finland
1994 van Kampen, A. H. C. (1994) Genetic Algorithms and Structure Analysis of Biomolecules by Nmr in Chemometrics. Exploring and Exploiting Chemical Information (Buydens, L. M. C., and Melssen, W. J. M., eds), pp. 145-57, Katholieke Universiteit Nijmegen, Nijmegen