Publications

research enabled with Geniom Technology

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The publications are sorted by topic:

  • HybSelect Sequence Capture
  • small non-coding RNA
  • miRNA expression profiling
  • Gene expression profiling
  • Synthetic biology
  • Genotyping
  • rRNA hybridization
  • Epigenetic profiling
  • Review
  • Geniom Technology
  • others
  • Microarray-based multicycle-enrichment of genomic subsets for targeted next-generation sequencing

    HybSelect

    Daniel Summerer, Haiguo Wu, Bettina Haase, et al. (2009)
    Genome Res., 10.1101/gr.091942.109

  • Specific sequence selection and next generation re-sequencing of 68 E. coli genes using HybSelect

    HybSelect

    Schracke N, Kornmeyer T, Kränzle M, Stähler PF, Summerer D, Beier M (2009)
    New Biotechnology, 2009 September

  • Enabling Technologies of Genomic-Scale Sequence Enrichment for Targeted High-Throughput-Sequencing

    HybSelect

    Daniel Summerer (2009)
    Genomics, August 2009

  • HybSelect: high-throughput access to genomic regions of interest for targeted next-generation sequencing

    HybSelect

    Daniel Summerer (2009)
    Nature Methods, September 2009

  • Spezifische Genselektion durch mikrofluidische Biochips

    HybSelect

    Schracke N., Kränzle M., Stähler P. F., Beier M. and Summerer D. (2009)
    BioSpektrum, 01 Februar 2009

  • Targeted next-generation sequencing by specific capture of multiple genomic loci using low-volume microfluidic DNA arrays

    HybSelect

    Bau S., Schracke N., Kränzle M., Wu H., Stähler P. F., Hoheisel J. D., Beier M. and Summerer D. (2008)
    Analytical Bioanalytical Chemistry, doi:10.1007/s00216-008-2460-7

  • HT Sequencing in Biomedicine – new approaches in preparing samples

    HybSelect

    Beier M., Nyakatura G., Radlwimmer B., Brückner B., Pfeuer A., Weichenhahn D., Strom T. and Korn B. (2008)
    Laborwelt 1/2008

  • HybSelect Sequence Capture for Targeted Resequencing on the SOLiD System

    HybSelect

    Lange, Julia (2009)
    White Paper, 2009 October

  • A good match for sequencing

    HybSelect

    Jeffrey Bouley (2009)
    Drug Discovery News, 2009 November

  • Targeted high throughput sequencing of a cancer-related exome subset by specific sequence capture with a fully automated microarray platform

    HybSelect

    Summerer D, Schracke N, Wu H, Cheng Y, Bau S, Stähler CF, Stähler PF, Beier M. (2010)
    Genomics. 2010 Feb 6. [Epub ahead of print]

  • Comparative genome-wide analysis of small RNAs of major Gram-positive pathogens: from identification to application

    Small non-coding RNA

    Mobarak A. Mraheil, André Billion, Carsten Kuenne, Jordan Pischimarov, Bernd Kreikemeyer, Susanne Engelmann, Axel Hartke, Jean-Christophe Giard, Maja Rupnik, Sonja Vorwerk, Markus Beier, Julia Retey, Thomas Hartsch, Anette Jacob, Franz Cemic , Jürgen Hemberger, Trinad Chakraborty, Torsten Hain (2010)
    Microbial Biotechnology, 2010 February

  • NcRNA-microchip analysis identifies differential expression of non-coding RNAs in Epstein-Barr virus infected B cells

    Small non-coding RNAs

    Roland Hutzinger, Jan Mrázek, Sonja Vorwerk and Alexander Huettenhofer (2010)
  • A flexible and fully integrated system for amplification, detection and genotyping of genomic DNA targets based on microfluidic oligonucleotide arrays

    Genotyping

    Daniel Summerer, Dona Hevroni, Amit Jain, Olga Oldenburger, Jefferson Parker, Anthony Caruso, Cord F. Stähler, Peer F. Stähler and Markus Beier
    New Biotechnology, 30 March 2010

  • miRNAs in lung cancer - Studying complex fingerprints in patient's blood cells by microarray experiments

    miRNA expression profiling

    Andreas Keller, Petra Leidinger, Anne Borries, Anke Wendschlag, Frank Wucherpfennig, Matthias Scheffler, Hanno Huwer, Hans-Peter Lenhof and Eckart Meese (2009)
    BMC Cancer 2009, 9:353doi:10.1186/1471-2407-9-353

  • Genome-wide profiling of histone h3 lysine 4 and lysine 27 trimethylation reveals an epigenetic signature in prostate carcinogenesis

    miRNA expression profiling

    Ke XS, Qu Y, Rostad K, Li WC, Lin B, Halvorsen OJ, Haukaas SA, Jonassen I, Petersen K, Goldfinger N, Rotter V, Akslen LA, Oyan AM, Kalland KH (2009)
    PLoS One, 2009;4(3):e4687. Epub 2009 Mar 5.

  • Small Molecules with Big Impact in Cancer

    miRNA expression profiling

    Beier V., Hoheisel J. (2008)
    BIOforum Europe 12/2008

  • Impact of MicroRNAs in Cancer Research

    miRNA expression profiling

    Beier V., Stähler P. F. (2008)

  • Microfluidic-based enzymatic on-chip labeling of miRNAs

    miRNA expression profiling

    Vorwerk S., Ganter K., Cheng Y., Hoheisel J., Stähler P. F. and Beier M. (2008)
    New Biotechnology, doi:10.1016/j.nbt.2008.08.005

  • A dictionary on microRNAs and their putative target pathways

    miRNA expression profiling

    Christina Backes, Eckart Meese, Hans-Peter Lenhof and Andreas Keller (2010)
    Nucleic Acids Research,doi:10.1093

  • Multiple Sclerosis - MicroRNA Expression Profiles Accurately Differentiate Patients with Relapsing-Remitting Disease from Healthy Controls

    miRNA expression profiling

    Andreas Keller, Petra Leidinger, Julia Lange1, Anne Borries, Hannah Schroers, Matthias Scheffler, Hans-Peter Lenhof, Klemens Ruprecht, Eckart Meese (2009)
    PLoS ONE, 2009 October

  • Deciphering the porcine intestinal microRNA transcriptome

    miRNA expression profiling

    Soroush Sharbati, Marc R Friedländer, Jutta Sharbati, Lena Hoeke, Wei Chen, Andreas Keller, Peer F Stähler, Nikolaus Rajewsky, Ralf Einspanier (2010)
    Biomed Central, 2010 April

  • High-throughput miRNA profiling of human melanoma blood samples

    miRNA expression Profiling

    Petra Leidinger, Andreas Keller, Anne Borries, Jorg Reichrath, Knuth Rass, Sven U Jager, Hans-Peter Lenhof and Eckart Meese (2010)
    BMC Cancer, 2010 June

  • Pharmaceutical Industry Effluent Diluted 1:500 Affects Global Gene Expression, Cytochrome P4501A Activity and Plasma Phosphate in Fish

    Gene expression profiling

    Gunnarsson L, Kristiansson E, Rutgersson C, Sturve J, Fick J, Förlin L, Larsson DG (2009)
    Environ Toxicol Chem., 2009 Jul 17:1.

  • Gene expression in Fusarium graminearum grown on plant cell wall

    Gene expression profiling

    Carapito R., Hatsch D., Vorwerk S., Petkovski E., Jeltsch J. M. and Phalip V. (2008)
    Fungal Genet. Biol. 45(5): 738-748

  • Transcription analysis using high-density micro-arrays of Aspergillus nidulans wild-type and creA mutant during growth on glucose or ethanol

    Gene expression profiling

    Mogensen J., Nielsen H. B., Hofmann G. and Nielsen J. (2006)
    Fungal Genet. Biol. 43(8): 593-603

  • OligoWiz 2.0 – integrating sequence feature annotation into the design of microarray probes

    Gene expression profiling

    Wernersson R. and Nielsen H. B. (2005)
    Nucleic Acids Res. 33: W611-615

  • New weakly expressed cell cycle-regulated genes in yeast

    Gene expression profiling

    de Lichtenberg U., Wernersson R., Jensen T. S., Nielsen H. B., Fausbøll A., Schmidt P., Hansen F. B., Knudsen S. and Brunak S. (2005)
    Yeast 22(15): 1191-1201

  • Alternative splicing microarrays reveal functional expression of neuron-specific regulators in Hodkin lymphoma cells

    Gene expression profiling

    Relógio A., Ben-Dov C., Baum M., Ruggiu M., Gemund C., Benes V., Darnell R. B. and Valcárcel J. (2005)
    J. Biol. Chem. 280(6): 4779-4784

  • Characterization of an Escherichia coli elaC deletion mutant

    Gene expression profiling

    Schilling O., Rüggeberg S., Vogel A., Rittner N., Weichert S., Schmidt S., Doig S., Franz T., Benes V., Andrews S. C., Baum M. and Meyer-Klaucke W. (2004)
    Biochem. Biophys. Res. Comm. 320(4): 1365-1373

  • Validation of a novel, fully integrated and flexible microarray benchtop facility for gene expression profiling

    Gene expression profiling

    Baum M., Bielau S., Rittner N., Schmid K., Eggelbusch K., Dahms M., Schlauersbach A., Tahedl H., Beier M., Güimil R. et al. (2003)
    Nucleic Acids Res. 31: e151

  • Characterization of the Zoarces viviparus liver transcriptome using massively parallel pyrosequencing.

    Gene Expression Profiling

    Kristiansson E, Asker N, Forlin L, Larsson DG. (2009)
    BMC Genomics.2009 Jul 31;10(1):345.

  • A novel algorithm for detecting differentially regulated paths based on gene set enrichment analysis

    Gene Expression Profiling

    Andreas K., Christina B., Andreas G., Michael K., Oliver K., Eckart M., Hans-Peter L. (2009)
    Bioinformatics, 2009 25(21):2787-2794; doi:10.1093/bioinformatics/btp510

  • Heptahelical receptors GprC and GprD of Aspergillus fumigatus are essential regulators of colony growth, hyphal morphogenesis and virulence

    Gene Expression Profiling

    Alexander Gehrke, Thorsten Heinekamp, Ilse D. Jacobsen, and Axel A. Brakhage (2009)
    Appl. Envir. Microbiol., 23 April 2010

  • ArcS is the cognate sensor kinase in an atypical Arc system of Shewanella oneidensis MR-1

    Gene Expression Profiling

    Jürgen Lassak, Anna-Lena Henche, Lucas Binnenkade, Kai M. Thormann (2010)
    Appl. Envir. Microbiol., 26 March 2010

  • Intimate bacterial–fungal interaction triggers biosynthesis of archetypal polyketides in Aspergillus nidulans

    Gene Expression Profiling

    Volker Schroeckha, Kirstin Scherlachb, Hans-Wilhelm Nützmanna, Ekaterina Shelestd, Wolfgang Schmidt-Heckd, Julia Schuemannb, Karin Martine, Christian Hertweckb, Axel A. Brakhagea (2009)
    PNAS, 2009 June

  • Another side of genomics: Synthetic biology as a mean for the exploitation of whole-genome sequence information

    Synthetic biology

    Stähler P., Beier M., Gao X. and Hoheisel J. D. (2006)
    J. Biotechnol. 124: 206-212

  • Mit der Geniom-Microarray-Technologie HPV-Genotypen auf der Spur

    Genotyping

    Schliwka J., Pullat J., Devilliers E.-M., Hoheisel J. D. and Beier M. (2007)
    BIOspektrum 01.07

  • Optimization of candidate-gene SNP-genotyping by flexible oligonucleotide microarrays; analyzing variations in immune regulator genes of hay-fever samples

    Genotyping

    Pullat J., Fleischer R., Becker N., Beier M., Metspalu A. and Hoheisel J. D. (2007)
    BMC Genomics 8: 282

  • Arrayed primer extension on in situ synthesized 5´-3´- oligonucleotides in microchannels

    Genotyping

    Pullat J., Kusnezow W., Jaakson K., Beier M., Hoheisel J. D. and Metspalu A. (2008)
    New Biotechnology, doi:10.1016/j.nbt.2008.08.001

  • Tests of rRNA hybridization to microarrays suggest that hybridization characteristics of oligonucleotide probes for species discrimination cannot be predicted

    rRNA hybridization

    Pozhitkoy A., Noble P. A., Domazet-Lošo T., Nolte A. W., Sonnenberg R., Stähler P., Beier M. and Tautz D. (2006)
    Nucleic Acids Res. 34: e66

  • Array-based analysis of genomic DNA methylation patterns of the tumor suppressor gene p16INK4A promoter in colon carcinoma cell lines

    Epigenetic profiling

    Mund C., Beier V., Bewerunge P., Dahms M., Lyko F. and Hoheisel J.D. (2005)
    Nucleic Acids Res. 33(8): e73

  • Methods to find out the expression of activated genes

    Review

    Cekan S.Z. (2004)
    Reprod. Biol. Endocrinol. 2: 68

  • DNA chip technology in brain banks: confronting a degrading world

    Review

    Buesa C., Maes T., Subirada F., Barrachina M. and Ferrer I. (2004)
    J. Neuropathol. Exp. Neurol. 63(10): 1003-1014

  • Geniom Technology – the benchtop array facility

    Geniom Technology

    Güimil R., Beier M., Scheffler M., Rebscher H., Funk J., Wixmerten A., Baum M., Hermann C., Tahedl H., Moschel E. et al. (2003)
    Nucleosides Nucleotides Nucleic Acids 22(5-8): 1721-1723

  • Exploring nature´s plasticity with a flexible probing tool, and finding new ways for its electronic distribution

    Geniom Technology

    Beier M., Baum M., Rebscher H., Mauritz R., Wixmerten A., Stähler C.F., Müller M. and Stähler P.F. (2002)
    Biochem. Soc. Trans. 30(2): 78-82

  • Geniom Technology: The First Automated Solution for DNA Microarrays

    Geniom Technology

    Beier M. et al. (2002)
    Chemistry Today 7-8
  • Geniom Technology: The First Automated Genomic Solution

    Geniom Technology

    Beier M. et al. (2002)
    New Drugs 6