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Reinhard Schneider

Reinhard Schneider

Head of bioinformatics core facility

Fakultät oder Zentrum Luxembourg Centre for Systems Biomedicine
Postadresse Campus Belval, Université du Luxembourg
7, Avenue des Hauts Fourneaux
L-4362 BELVAL
Büroadresse Dexia building
Email
Telefon (+352) 46 66 44 6170
Video Dr. Reinhard Schneider (LCSB)
Dr. Reinhard Schneider (LCSB)
An der Universität seit 2011
 
Dr. Reinhard Schneider (LCSB)

Dr. Reinhard Schneider is the Head of the Bioinformatics Core facility at the Luxembourg Centre for Systems Biomedicine (LCSB) at the University of Luxembourg. Between 1994-2010 he worked as a Team Leader at the European Molecular Biology Laboratory (EMBL) in Heidelberg, Germany, where he led the “Data Integration and Knowledge Management”.

Before joining the EMBL he was co-founder of LION bioscience AG, Heidelberg where he served as Chief Information Officer being responsible for the worldwide software development. He was also the CEO of LION bioscience Research Inc., Cambridge, Massachusetts, when he established an IT-based knowledge management system for Bayers gene-based research and development efforts.

Prior to founding LION bioscience, he worked as a scientist in the biocomputing department at the EMBL, Heidelberg, where he studied various aspects of protein structures. He co-developed a large-scale automated sequence analysis system which became the foundation of LION’s software offering and is an expert in the use of massive parallel computers in biology. Dr. Schneider received his Ph.D. in biology at the University of Heidelberg, Germany and has over 90 research papers published.

He is a member of the executive committee of the International Society for Computational Biology where he serves as the treasurer and chairs the Governance, Fundraising and Finance Committee. Besides his academic career, he is involved in several start-up projects in Germany and Luxembourg.

Last updated on: Mittwoch, den 23. Juli 2014

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Degrees

1990 - 1994: PhD thesis at the EMBL-Heidelberg

1988 - 1989: Diploma thesis (master equivalent) at the EMBL-Heidelberg

Membership

Member of the Scientific & technology advisory board of Appistry

Co-Founder of LuxFold, S.A., Luxembourg

Editorial board member: Journal Bio-Algorithms and Med-Systems

Member of the Scientific Advisory board of BioBase GmbH

Treasurer of the International Society for Computational Biology (ISCB)

Prizes and Honors

Elsevier Grand Challenge winner, 2009



Last updated on: 24 Jul 2014

PhD and Master students supervised

10 PhD students supervised, 10 PhD students co-supervised, >25 Master and Bachelor students

Publicly funded projects

AETIONOMY: 

Organising Knowledge about Neurodegenerative Disease Mechanisms for the Improvement of Drug Development and Therapy, IMI, 2014-2018

bioCOG:

Biomarker Development for Postoperative Cognitive Impairment in the Elderly, FP7, 2014-2017

eTRIKS:

A Proposal for Developing and Deploying a European Translation Information & Knowledge Management Service Infrastructure, 2012-2017

EpiPGX:

Epilepsy Pharmacogenomics: delivering biomarkers for clinical use, 2011-2015

coGIE:

Complex genetics of idiopathic epilepsies, (EUROEPINOMICS), 2010-2015

betaJUDO:

Beta-cell function in juvenile diabetes and obesity, 2011-2016

eTRIKS:

A Proposal for Developing and Deploying a European Translation Information & Knowledge Management Service Infrastructure, 2011-2016

TAMAHUD:

Identification of early disease markers, novel pharmacologically tractable targets and small molecule phenotypic modulators in Huntington's disease, 2007-2010

FANCI:

Functional analysis of non-coding RNAs in living cells, 2009-2011

VIROQUANT:

Systems Biology of Virus-Cell Interactions, 2007-2011

SIMDAT:

Grids for Industrial Product Development, 2004-2008

TTA:

Technologies for Target Assessment, ATP-NIST, 2002

EUROPORT:

ESPRIT European Porting Projects, 1994-1996

ZEUS:

Massively Parallel Computing, 1992-1993

Organizer and Co-Organizer (>30) conferences and lecture series, selected list:

BeNeLux Bioinformatics Conference, Luxembourg 2014

ISMB 2007 – 2014: Vienna, Austria; Toronto, Canada; Stockholm, Sweden; Boston, USA; Vienna, Austria; Long Beach, USA; Berlin, Germany; Boston, USA

ISCB-Asia/SCCG 2012: Shenzen, China

ISCB Latin America 2012:Santiago, Chile

VizBi 2012: Visualizing Biological Data, EMBL-Heidelberg, Germany

BBC 2011: BeNeLux Bioinformatics conference, Luxembourg

ISCB Asia 2011: Kuala Lumpur, Malaysia

VizBi 2010: EMBO workshop, Heidelberg, Germany

ISCB Latin-America 2009: Montevideo, Uruguay

ISCB Africa ASBCB 2009: Bioinformatics of Infectious Diseases, Bamako, Mali,

ISMB 1999: Heidelberg, Germany

Reviewer

Over 200 referee reports for peer-reviewed journals (including JMB, Bioinformatics, PLOS Comp.Bio., Nature Methods)



Last updated on: 24 Jul 2014

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2014

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See detailPredictProtein--an open resource for online prediction of protein structural and functional features
Yachdav, Guy; Kloppman; Kajan; Hecht; Goldberg; Hamp; Honigschmid; Schafferhans; Roos; Bernhofer; Richter; Ashkenazy; Punta; Schlessinger; Bromberg; Schneider, Reinhard; Vriend; Sander; Ben-Tal; Rost

in Nucleic Acid Research (2014), 42(8),

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2013

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See detailGenome-wide identification and functional analyses of microRNA signatures associated with cancer pain.
Bali, Kiran Kumar; Selvaraj, Deepitha; Satagopam, Venkata; Lu, Jianning; Schneider, Reinhard; Kuner, Rohini

in EMBO molecular medicine (2013), 5(11), 1740-58

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See detailTranscriptional mechanisms underlying sensitization of peripheral sensory neurons by Granulocyte-/Granulocyte-macrophage colony stimulating factors.
Bali, Kiran Kumar; Venkataramani, Varun; Satagopam, Venkata; Gupta, Pooja; Schneider, Reinhard; Kuner, Rohini

in Molecular pain (2013), 9(1), 48

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See detailFunctional genomics and bioinformatics for systems biology
Ballereau, S.; Glaab, Enrico; Kolodkin, Alexey; Chaiboonchoe, A.; Biryukov, Maria; Vlassis, Nikos; Ahmed, H.; Pellet, J.; Baliga, N.; Hood, Leroy; Schneider, Reinhard; Balling, Rudi; Auffray, C.

in Prokop, Ales; Csukás, Bela (Eds.) Systems Biology: Integrative Biology and Simulation Tools (2013)

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See detailSignaling in Insulin-Secreting MIN6 Pseudoislets and Monolayer Cells.
Chowdhury, Azazul; Satagopam, Venkata; Manukyan, Levon; Artemenko, Konstantin A.; Fung, Yi Man Eva; Schneider, Reinhard; Bergquist, Jonas; Bergsten, Peter

in Journal of proteome research (2013)

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See detailIntegrating Pathways of Parkinson's Disease in a Molecular Interaction Map
Fujita, Kazuhiro A.; Ostaszewski, Marek; Matsuoka, Yukiko; Ghosh, Samik; Glaab, Enrico; Trefois, Christophe; Crespo, Isaac; Perumal, Thanneer Malai; Jurkowski, Wiktor; Antony, Paul; Diederich, Nico; Buttini, Manuel; Kodama, Akihiko; Satagopam, Venkata; Eifes, Serge; del Sol Mesa, Antonio; Schneider, Reinhard; Kitano, Hiroaki; Balling, Rudi

in Molecular Neurobiology (2013)

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See detailComputational infrastructures for data and knowledge management in systems biology
Georgatos, Fotis; Ballereau, S.; Pellet, J.; Ghanem, M.; Price, N.; Hood, Leroy; Guo, Y. K.; Boutigny, D.; Auffray, C.; Balling, Rudi; Schneider, Reinhard

in Prokop, Ales; Csukás, Bela (Eds.) Systems Biology: Integrative Biology and Simulation Tools (2013)

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See detailThe Parkinson's Disease Map: A Framework for Integration, Curation and Exploration of Disease-related Pathways
Ostaszewski, Marek; Fujita, Kazuhiro; Matsuoka, Yukiko; Ghosh, Samik; Glaab, Enrico; Trefois, Christophe; Crespo, Isaac; Perumal, Thanneer Malai; Jurkowski, Wiktor; Antony, Paul; Diederich, Nico; Buttini, Manuel; Kolodkin, Alexey; Kodama, Akihiko; Satagopam, Venkata; Biryukov, Maria; Eifes, Serge; del Sol Mesa, Antonio; Schneider, Reinhard; Kitano, Hiroaki; Balling, Rudi

Poster (2013, March 09)

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See detailVisualizing time-related data in biology, a review
Secrier, Maria; Schneider, Reinhard

in Briefings in Bioinformatics (2013)

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2012

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See detailBioinformatics as a driver, not a passenger, of translational biomedical research: Perspectives from the 6th Benelux bioinformatics conference.
Azuaje, F. J.; Heymann, M.; Ternes, A. M.; Wienecke-Baldacchino, Anke; Struck, D.; Moes, D.; Schneider, Reinhard

in Journal of Clinical Bioinformatics (2012), 2(7),

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See detailHow Not to Be a Bioinformatician
Corpas, Manuel; Fatumo, Segun; Schneider, Reinhard

in Source Code for Biology and Medicine (2012)

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See detailEnrichNet: network-based gene set enrichment analysis
Glaab, Enrico; Baudot, A.; Krasnogor, N.; Schneider, Reinhard; Valencia, A.

in Bioinformatics (2012), 28(18), 451-457

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See detailReLiance: a machine learning and literature-based prioritization of receptor—ligand pairings.
Iacucci, Ernesto; Tranchevent, L. C.; Popovic, D.; Pavlopoulos, Georgios A.; De Moor, B.; Schneider, Reinhard; Moreau, Y.

in Bioinformatics (2012), 28(18), 569-574

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See detailPaving the future: finding suitable ISMB venues
Rost, B.; Gaasterland, T.; Lengauer, T.; Linial, M.; Markel, S.; McKay, B. J. M.; Schneider, Reinhard; Horton, P.; Kelso, J.

in Bioinformatics (2012), 28(19), 2556-9

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See detailArena3D: visualizing time-driven phenotypic differences in biological systems
Secrier, Maria; Pavlopoulos, Georgios A.; Aerts, J.; Schneider, Reinhard

in BMC Bioinformatics (2012), (13), 45

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See detailCaipirini: using gene sets to rank literature
Soldatos, T. G.; O’Donoghue, S. I.; Satagopam, V. P.; Barbosa-Silva, A.; Pavlopoulos, Georgios A.; Wanderley-Nogueira, A. C.; Soares-Cavalcanti, N. M.; Schneider, Reinhard

in BioData Mining (2012), 5(1),

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2011

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See detailWhich clustering algorithm is better for predicting protein complexes?
Moschopoulos, Charalampos N.; Pavlopoulos, Georgios A.; Iacucci, Ernesto; Aerts, Jan; Likothanassis, Spiridon; Schneider, Reinhard; Kossida, Sophia

in BMC Research Notes (2011), (4), 549

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See detailMedusa: A tool for exploring and clustering biological networks.
Pavlopoulos, Georgios A.; Hooper, S. D.; Sifrim, A.; Schneider, Reinhard; Aerts, Jan

in BMC Resarch Notes (2011), 4(1), 384

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See detailUsing graph theory to analyze biological networks
Pavlopoulos, Georgios A.; Secrier, Maria; Moschopoulos, Charalampos N.; Soldatos, Theodoros G.; Kossida, Sophia; Aerts, Jan; Schneider, Reinhard; Bagos, Pantelis G.

in BioData Mining (2011), 4(10), 1-27

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2010

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See detailLAITOR--Literature Assistant for Identification of Terms co-Occurrences and Relationships.
Barbosa Da Silva, Adriano; Soldatos, Theodoros G.; Magalhaes, Ivan L. F.; Pavlopoulos, Georgios A.; Fontaine, Jean-Fred; Andrade-Navarro, Miguel A.; Schneider, Reinhard; Ortega, J. Miguel

in BMC bioinformatics (2010), 11

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See detailLAITOR - Literature Assistant for Identification of Terms co-Occurrences and Relationships
Barbosa-Silva, Adriano; Soldatos, Theodoros G.; Magalhaes, Ivan L. F.; Pavlopoulos, Georgios A.; Fontaine, Jean-Fred; Andrade-Navarro, Miguel A.; Schneider, Reinhard; Ortega, J. Miguel

in BMC Bioinformatics (2010), 11(70),

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See detailFrom experimental setup to bioinformatics: An RNAi screening platform to identify host factors involved in HIV-1 replication
Boerner, Kathleen; Hermle, Johannes; Sommer, Christoph; Brown, Nigel P.; Knapp, Bettina; Glass, Baerbel; Kunkel, Julian; Torralba, Gloria; Reymann, Juergen; Beil, Nina; Beneke, Juergen; Pepperkok, Rainer; Schneider, Reinhard; Ludwig, Thomas; Hausmann, Michael; Hamprecht, Fred; Erfle, Holger; Kaderali, Lars; Kraeusslich, Hans-Georg; Lehmann, Maik J.

in Biotechnology Journal (2010), 5(1), 39-49

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See detailVisualization of omics data for systems biology
Gehlenborg, Nils; O'Donoghue, Sean I.; Baliga, Nitin S.; Goesmann, Alexander; Hibbs, Matthew A.; Kitano, Hiroaki; Kohlbacher, Oliver; Neuweger, Heiko; Schneider, Reinhard; Tenenbaum, Dan; Gavin, Anne-Claude

in Nature Methods (2010), 7(3), 56-68

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See detailA series of PDB related databases for everyday needs
Joosten, R.; Beek, T.; Krieger, E.; Hekkelman, M.; Hooft, R.; Schneider, Reinhard; Sander, S.; Vriend, G.

in Nucleic Acids Research (2010), 39(1), 411-419

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See detailLive Coverage of Intelligent Systems for Molecular Biology
Lister, Allyson L.; Datta, Ruchira S.; Hofmann, Oliver; Krause, Roland; Kuhn, Michael; Roth, Bettina; Schneider, Reinhard

in PLoS Computational Biology (2010), 6

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See detailLive Coverage of Scientific Conferences Using Web Technologies
Lister, Allyson L.; Datta, Ruchira S.; Hofmann, Oliver; Krause, Roland; Kuhn, Michael; Roth, Bettina; Schneider, Reinhard

in PLoS Computational Biology (2010), 6(1), 1-2

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See detailDefective Lamin A-Rb Signaling in Hutchinson-Gilford Progeria Syndrome and Reversal by Farnesyltransferase Inhibition
Marji, Jackleen; O'Donoghue, Sean I.; McClintock, Dayle; Satagopam, Venkata P.; Schneider, Reinhard; Ratner, Desiree; Worman, Howard J.; Gordon, Leslie B.; Djabali, Karima

in PLoS ONE (2010), 5(6),

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See detailPhenotypic profiling of the human genome by time-lapse microscopy reveals cell division genes
Neumann, Beate; Walter, Thomas; Heriche, Jean-Karim; Bulkescher, Jutta; Erfle, Holger; Conrad, Christian; Rogers, Phill; Poser, Ina; Held, Michael; Liebel, Urban; Cetin, Cihan; Sieckmann, Frank; Pau, Gregoire; Kabbe, Rolf; Wuensche, Annelie; Satagopam, Venkata; Schmitz, Michael H. A.; Chapuis, Catherine; Gerlich, Daniel W.; Schneider, Reinhard; Eils, Roland; Huber, Wolfgang; Peters, Jan-Michael; Hyman, Anthony A.; Durbin, Richard; Pepperkok, Rainer; Ellenberg, Jan

in Nature (2010), 464(7289), 721-727

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See detailReflect: A practical approach to web semantics
O'Donoghue, Sean I.; Horn, Heiko; Pafilis, Evangelos; Haag, Sven; Kuhn, Michael; Satagopam, Venkata P.; Schneider, Reinhard; Jensen, Lars J.

in Journal of Web Semantics (2010), 8(2-3), 182-189

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See detailA reference guide for tree analysis and visualization
Pavlopoulos, Georgios A.; Soldatos, Theodoros G.; Barbosa Da Silva, Adriano; Schneider, Reinhard

in BioData Mining (2010), 3

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See detailA reference guide for tree analysis and visualization.
Pavlopoulos, Georgios A.; Soldatos, Theodoros G.; Barbosa Da Silva, Adriano; Schneider, Reinhard

in BioData mining (2010), 3(1), 1

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See detailGPCRs, G-proteins, Effectors and their interactions: Human-gpDB, a database employing advanced visualization tools and data integration techniques
Satagopam, Venkata P.; Theodoropoulou, Margarita C.; Christos, Stampolakis K.; Pavlopoulos, Georgios A.; Papandreou, Nikolaos C.; Bagos, Pantelis G.; Schneider, Reinhard; Hamodrakas, Stavros J.

in Database (2010)

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See detailGPCRs, G-proteins, effectors and their interactions: human-gpDB, a database employing visualization tools and data integration techniques.
Satagopam, Venkata; Theodoropoulou, Margarita C.; Stampolakis, Christos K.; Pavlopoulos, Georgios A.; Papandreou, Nikolaos C.; Bagos, Pantelis G.; Schneider, Reinhard; Hamodrakas, Stavros J.

in Database : the journal of biological databases and curation (2010), 2010

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See detailMartini: using literature keywords to compare gene sets
Soldatos, Theodoros G.; O'Donoghue, Sean I.; Satagopam, Venkata P.; Jensen, Lars J.; Brown, Nigel P.; Barbosa-Silva, Adriano; Schneider, Reinhard

in Nucleic Acids Research (2010), 38(1), 26-38

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2009

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See detailNew in protein structure and function annotation: Hotspots, single nucleotide polymorphisms and the 'Deep Web'
Bromberg, Yana; Yachdav, Guy; Ofran, Yanay; Schneider, Reinhard; Rost, Burkhard

in Current Opinion in Drug Discovery & Development (2009), 12(3), 408-419

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See detailGIBA: a clustering tool for detecting protein complexes
Moschopoulos, Charalampos N.; Pavlopoulos, Georgios A.; Schneider, Reinhard; Likothanassis, Spiridon D.; Kossida, Sophia

in BMC Bioinformatics (2009), 10

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See detailReflect: augmented browsing for the life scientist
Pafilis, Evangelos; O'Donoghue, Sean I.; Jensen, Lars J.; Horn, Heiko; Kuhn, Michael; Brown, Nigel P.; Schneider, Reinhard

in Nature Biotechnology (2009), 27(6), 508-510

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See detailjClust: a clustering and visualization toolbox
Pavlopoulos, Georgios A.; Moschopoulos, Charalampos N.; Hooper, Sean D.; Schneider, Reinhard; Kossida, Sophia

in Bioinformatics (2009), 25(15), 1994-1996

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See detailOnTheFly: a tool for automated document-based text annotation, data linking and network generation
Pavlopoulos, Georgios A.; Pafilis, Evangelos; Kuhn, M.; Hooper, Sean D.; Schneider, Reinhard

in Bioinformatics (2009), 25(7), 977-978

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2008

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See detailClustering of cognate proteins among distinct proteomes derived from multiple links to a single seed sequence
Barbosa-Silva, Adriano; Satagopam, Venkata P.; Schneider, Reinhard; Ortega, J. Miguel

in BMC Bioinformatics (2008), 9

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See detailSuperTarget and Matador: resources for exploring drug-target relationships
Guenther, Stefan; Kuhn, Michael; Dunkel, Mathias; Campillos, Monica; Senger, Christian; Petsalaki, Evangelia; Ahmed, Jessica; Urdiales, Eduardo Garcia; Gewiess, Andreas; Jensen, Lars Juhl; Schneider, Reinhard; Skoblo, Roman; Russell, Robert B.; Bourne, Philip E.; Bork, Peer; Preissner, Robert

in Nucleic Acids Research (2008), 36(SI), 919-922

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See detailArena3D: visualization of biological networks in 3D
Pavlopoulos, Georgios A.; O'Donoghue, Sean I.; Satagopam, Venkata P.; Soldatos, Theodoros G.; Pafilis, Evangelos; Schneider, Reinhard

in BMC Systems Biology (2008), 2

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See detailA survey of visualization tools for biological network analysis.
Pavlopoulos, Georgios A.; Wegener, A. L.; Schneider, Reinhard

in BioData Mining (2008)

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2007

See detailDevelopmental of SRS.php, a Simple Object Access Protocol-based library for data acquisition from integrated biological databases
Barbosa-Silva, A.; Pafilis, E.; Ortega, J. M.; Schneider, Reinhard

in Genetics & Molecular Research [=GMR] (2007), 6(4), 1142-1150

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2006

See detailStatus of text-mining techniques applied to biomedical text
Erhardt, R. A. A.; Schneider, Reinhard; Blaschke, C.

in Drug Discovery Today (2006), 11(7-8), 315-325

See detailForeword
Schneider, Reinhard; Voss, H.

in In Silico Technologies in Drug Target Identification and Validation (2006)

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2005

See detailBeyond annotation transfer by homology: novel protein-function prediction methods to assist drug discovery
Ofran, Y.; Punta, M.; Schneider, Reinhard; Rost, B.

in Drug Discovery Today (2005), 10(21), 1475-1482

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1997

See detailPedestrian guide to analyzing sequence databases
Rost, B.; Schneider, Reinhard; Sander, C.

in WWW-publication (1997)

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1996

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See detailGeneCrunch and Europort, examples for Hierarchical Supercomputing at Silicon Graphics
Schneider, Reinhard; Schlenkrich, M.

in WWW-publication (1996)

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1994

See detailCorrelated mutations and residue contacts in proteins
Göbel, U.; Sander, C.; Schneider, Reinhard; Valencia, A.

in Proteins (1994), 18

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See detailPHD - AN AUTOMATIC MAIL SERVER FOR PROTEIN SECONDARY STRUCTURE PREDICTION
ROST, B.; SANDER, C.; Schneider, Reinhard

in Computer Applications in the Biosciences [=CABIOS] (1994), 10(1), 53-60

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1992

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See detailSELECTION OF REPRESENTATIVE PROTEIN DATA SETS
HOBOHM, U.; SCHARF, M.; Schneider, Reinhard; SANDER, C.

in Protein Science : A Publication of the Protein Society (1992), 1(3), 409-417

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1991

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