Papers 2009

Bindea G, Mlecnik B, Hackl H, Charoentong P, Tosolini M, Kirilovsky A et al. ClueGO: a Cytoscape plug-in to decipher functionally grouped gene ontology and pathway annotation networks. Bioinformatics 25(8):1091-1093, 2009 (5.039)

Camus M, Tosolini M, Mlecnik B, Pages F, Kirilovsky A, Berger A et al. Coordination of intratumoral immune reaction and human colorectal cancer recurrence. Cancer Res 69(6):2685-2693, 2009 (7.672)

Cerqueira FR, Morandell S, Ascher S, Mechtler K, Huber LA, Pfeifer B et al. Improving Phosphopeptide/protein Identification using a New Data Mining Framework for MS/MS Spectra Preprocessing. J Proteomics Bioinform 2(3):150-164, 2009 (0.000)

Geigl JB, Obenauf AC, Waldispuehl-Geigl J, Hoffmann EM, Auer M, Hormann M et al. Identification of small gains and losses in single cells after whole genome amplification on tiling oligo arrays. Nucleic Acids Res 37(15):e105, 2009 (6.878)

Hanada R, Leibbrandt A, Hanada T, Kitaoka S, Furuyashiki T, Fujihara H et al. Central control of fever and female body temperature by RANKL/RANK. Nature 462(7272):505-509, 2009 (31.434)

Kirillova S, Kumar S, and Carugo O. Protein Domain Boundary Predictions: A Structural Biology Perspective. Open Biochem J 3(1):1-8, 2009 (0.000)

Leparc GG, Tüchler T, Striedner G, Bayer K, Sykacek P, Hofacker IL et al. Model-based probe set optimization for high-performance microarrays. Nucleic Acids Res 37(3):e18, 2009 (6.954)

Lorenz R, Flamm C, and Hofacker IL. 2D projections of RNA folding landscapes. German Conference on Bioinformatics 2009 157:11-20, 2009

Meireles-Filho AC and Stark A. Comparative genomics of gene regulation-conservation and divergence of cis-regulatory information. Curr Opin Genet Dev 19(6):565-570, 2009 (9.677)

Netzer M, Seger M, Visvanathan M, Lushington GH, Pfeifer B, and Baumgartner C. Filter based approaches for selecting significant genes between various cancer types in lung. Proceedings of the World Academy of Science, Engineering and Technology 58:1102-1106, 2009

Niault T, Sobcak I, Meissl K, Piazzolla D, Maurer G, Kern F et al. From autoinhibition to inhibition in trans: the Raf-1 regulatory domain inhibits Rok-alpha kinase activity. J Cell Biol 187(3):335-342, 2009 (9.120)

Ooi HS, Kwo CY, Wildpaner M, Sirota FL, Eisenhaber B, Maurer-Stroh S et al. ANNIE: integrated de novo protein sequence annotation. Nucleic Acids Res 37(Web server issue):W435-W440, 2009 (6.878)

Osl M, Baumgartner C, and Dreiseitl S. Classifier Combination. In: Biomedical and Environmental Sensing. (Eds. Agbinya JI, Lal SK) River Publishers, Aalborg, Denmark, 2009

Osl M, Dreiseitl S, Cerqueira F, Netzer M, Pfeifer B, and Baumgartner C. Demoting redundant features to improve the discriminatory ability in cancer data. J Biomed Inform 42(4):721-725, 2009 (1.924)

Pabinger S, Thallinger GG, Snajder R, Eichhorn H, Rader R, and Trajanoski Z. QPCR: Application for real-time PCR data management and analysis. BMC Bioinformatics 10(1):268, 2009 (3.470)

Pages F, Kirilovsky A, Mlecnik B, Asslaber M, Tosolini M, Bindea G et al. In situ cytotoxic and memory T cells predict outcome in patients with early-stage colorectal cancer. J Clin Oncol 27(35):5944-5951, 2009 (17.157)

Pirnia F, Pawlak M, Thallinger GG, Gierke B, Templin MF, Kappeler A et al. Novel functional profiling approach combining reverse phase protein microarrays and human 3-D ex vivo tissue cultures: expression of apoptosis-related proteins in human colon cancer. Proteomics 9(13):3535-3548, 2009 (4.586)

Prokesch A, Hackl H, Hakim-Weber R, Bornstein SR, and Trajanoski Z. Novel insights into adipogenesis from omics data. Curr Med Chem 16(23):2952-2964, 2009 (4.823)

Querol-Audi J, Konecsni T, Pous J, Carugo O, Fita I, Verdaguer N et al. Minor group human rhinovirus-receptor interactions: geometry of multimodular attachment and basis of recognition. FEBS Lett 583(1):235-240, 2009 (3.263)

Schloss PD, Westcott SL, Ryabin T, Hall JR, Hartmann M, Hollister EB et al. Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol 75(23):7537-7541, 2009 (3.801)

Sikic K and Carugo O. CARON - Average RMSD of NMR structure ensembles. Bioinformation 4(3):132-133, 2009 (0.000)

Steinkellner G, Rader R, Thallinger GG, Kratky C, and Gruber K. VASCo: computation and visualization of annotated protein surface contacts. BMC Bioinformatics 10(1):32, 2009 (3.470)

Stocker G, Fischer M, Rieder D, Bindea G, Kainz S, Oberstolz M et al. iLAP: a workflow-driven software for experimental protocol development, data acquisition and analysis. BMC Bioinformatics 10(1):390, 2009 (3.781)

Tian S. A 20 Residues Motif Delineates the Furin Cleavage Site and its Physical Properties May Influence Viral Fusion. Biochemistry Insights 2:9-20, 2009 (0.000)

Visvanathan M, Netzer M, Seger M, Adagarla BS, Baumgartner C, Sittampalam S et al. Oncogenes and pathway identification using filter-based approaches between various carcinoma types in lung. International Journal of Computational Biology and Drug Design 2(3):236-251, 2009 (0.000)

Weber C, Pickl-Herk A, Khan AG, Strauss S, Carugo O, and Blaas D. Predictive bioinformatic identification of minor receptor group human rhinoviruses. FEBS Lett 583(15):2547-2551, 2009 (3.139)