Christina Backes

Summary

Affiliation: Saarland University
Country: Germany

Publications

  1. pmc GeneTrail--advanced gene set enrichment analysis
    Christina Backes
    Center for Bioinformatics, Saarland University, Building E1 1, 66041 Saarbrucken, Germany
    Nucleic Acids Res 35:W186-92. 2007
  2. pmc Computation of significance scores of unweighted Gene Set Enrichment Analyses
    Andreas Keller
    Center for Bioinformatics, Saarland University, Building E1 1, 66804 Saarbrücken, Germany
    BMC Bioinformatics 8:290. 2007
  3. pmc An integer linear programming approach for finding deregulated subgraphs in regulatory networks
    Christina Backes
    Department of Human Genetics, Saarland University, 66421 Homburg Saar, Germany
    Nucleic Acids Res 40:e43. 2012
  4. pmc Transcriptome analysis by GeneTrail revealed regulation of functional categories in response to alterations of iron homeostasis in Arabidopsis thaliana
    Mara Schuler
    Dept of Biosciences Botany, Campus A2, 4 Saarland University, D 66123 Saarbrucken, Germany
    BMC Plant Biol 11:87. 2011
  5. pmc Immunogenicity of autoantigens
    Christina Backes
    Center for Bioinformatics, Saarland University, 66041 Saarbrucken, Germany
    BMC Genomics 12:340. 2011
  6. doi request reprint NetworkTrail--a web service for identifying and visualizing deregulated subnetworks
    Daniel Stöckel
    Center for Bioinformatics, Saarland University, 66041 Saarbrucken, Germany
    Bioinformatics 29:1702-3. 2013
  7. doi request reprint Genome wide expression profiling identifies specific deregulated pathways in meningioma
    Andreas Keller
    Center for Bioinformatics, Saarland University, Building E 1 1, Saarbrücken 66041, Germany
    Int J Cancer 124:346-51. 2009
  8. pmc GeneTrailExpress: a web-based pipeline for the statistical evaluation of microarray experiments
    Andreas Keller
    Center for Bioinformatics, Saarland University, Saarbrucken, Germany
    BMC Bioinformatics 9:552. 2008
  9. pmc A novel algorithm for detecting differentially regulated paths based on gene set enrichment analysis
    Andreas Keller
    Center for Bioinformatics, Saarland University, Building E 1 1, Saarbrucken, Germany
    Bioinformatics 25:2787-94. 2009
  10. pmc BNDB - the Biochemical Network Database
    Jan Küntzer
    Center for Bioinformatics, Saarland University, 66041 Saarbrucken, Germany
    BMC Bioinformatics 8:367. 2007

Detail Information

Publications29

  1. pmc GeneTrail--advanced gene set enrichment analysis
    Christina Backes
    Center for Bioinformatics, Saarland University, Building E1 1, 66041 Saarbrucken, Germany
    Nucleic Acids Res 35:W186-92. 2007
    ..GeneTrail is freely accessible at http://genetrail.bioinf.uni-sb.de...
  2. pmc Computation of significance scores of unweighted Gene Set Enrichment Analyses
    Andreas Keller
    Center for Bioinformatics, Saarland University, Building E1 1, 66804 Saarbrücken, Germany
    BMC Bioinformatics 8:290. 2007
    ..Usually, significance scores (p-values) of GSEA are computed by nonparametric permutation tests, a time consuming procedure that yields only estimates of the p-values...
  3. pmc An integer linear programming approach for finding deregulated subgraphs in regulatory networks
    Christina Backes
    Department of Human Genetics, Saarland University, 66421 Homburg Saar, Germany
    Nucleic Acids Res 40:e43. 2012
    ..In summary, our approach opens new avenues for the elucidation of pathogenic mechanisms and for the detection of molecular key players...
  4. pmc Transcriptome analysis by GeneTrail revealed regulation of functional categories in response to alterations of iron homeostasis in Arabidopsis thaliana
    Mara Schuler
    Dept of Biosciences Botany, Campus A2, 4 Saarland University, D 66123 Saarbrucken, Germany
    BMC Plant Biol 11:87. 2011
    ..Additionally, GeneTrail offers a feature that allows screening of individually defined biological categories that are relevant for the respective research topic...
  5. pmc Immunogenicity of autoantigens
    Christina Backes
    Center for Bioinformatics, Saarland University, 66041 Saarbrucken, Germany
    BMC Genomics 12:340. 2011
    ..To this end, we have carried out the most comprehensive in-silicio study of different groups of autoantigens including large antigen sets identified by our groups combined with publicly available antigen sets...
  6. doi request reprint NetworkTrail--a web service for identifying and visualizing deregulated subnetworks
    Daniel Stöckel
    Center for Bioinformatics, Saarland University, 66041 Saarbrucken, Germany
    Bioinformatics 29:1702-3. 2013
    ..Availability and implementation: NetworkTrail is a JavaServer Pages-based web service. The algorithm for finding deregulated subnetworks has been implemented in C++. NetworkTrail is available at http://networktrail.bioinf.uni-sb.de/...
  7. doi request reprint Genome wide expression profiling identifies specific deregulated pathways in meningioma
    Andreas Keller
    Center for Bioinformatics, Saarland University, Building E 1 1, Saarbrücken 66041, Germany
    Int J Cancer 124:346-51. 2009
    ..0001). Pathways with increased expression included several metabolic pathways. Extended expression profiling by a novel statistical gene set enrichment identified pathways that have previously not been associated with meningioma...
  8. pmc GeneTrailExpress: a web-based pipeline for the statistical evaluation of microarray experiments
    Andreas Keller
    Center for Bioinformatics, Saarland University, Saarbrucken, Germany
    BMC Bioinformatics 9:552. 2008
    ..While a variety of tools for normalizing, analysing, or visualizing expression profiles has been developed in the last years, most of these tools offer only functionality for accomplishing certain steps of the evaluation pipeline...
  9. pmc A novel algorithm for detecting differentially regulated paths based on gene set enrichment analysis
    Andreas Keller
    Center for Bioinformatics, Saarland University, Building E 1 1, Saarbrucken, Germany
    Bioinformatics 25:2787-94. 2009
    ....
  10. pmc BNDB - the Biochemical Network Database
    Jan Küntzer
    Center for Bioinformatics, Saarland University, 66041 Saarbrucken, Germany
    BMC Bioinformatics 8:367. 2007
    ..The standardization and virtual consolidation of the databases is a major challenge resulting in a unified access to a variety of data sources...
  11. doi request reprint MicroRNA expression changes after lung cancer resection: a follow-up study
    Petra Leidinger
    Institute of Human Genetics, Saarland University, Medical School, Homburg, Germany
    RNA Biol 9:900-10. 2012
    ..Our data underline the importance of studies that follow the fate of miRNAs over time, both to further our understanding of the biology of miRNA signatures and to establish these signatures as biomarkers...
  12. doi request reprint MicroRNA expression profiles in human testicular tissues of infertile men with different histopathologic patterns
    Masood Abu-Halima
    Department of Human Genetics, Saarland University, Saar, Germany Department of Obstetrics and Gynecology, IVF and Andrology Laboratory, Saarland University, Saar, Germany Electronic address
    Fertil Steril 101:78-86.e2. 2014
    ..To investigate the expression profiles of microRNA (miRNA) in human testes showing different histopathological patterns...
  13. pmc GraBCas: a bioinformatics tool for score-based prediction of Caspase- and Granzyme B-cleavage sites in protein sequences
    Christina Backes
    Department of Human Genetics Building 60 Medical School, University of Saarland, 66421 Homburg Saar, Germany
    Nucleic Acids Res 33:W208-13. 2005
    ..We tested GraBCas on already known substrates and showed its usefulness for protein sequence analysis. GraBCas is available at http://wwwalt.med-rz.uniklinik-saarland.de/med_fak/humangenetik/software/index.html...
  14. doi request reprint Is there a general autoantibody signature for cancer?
    Nicole Ludwig
    Department of Human Genetics, Medical School, Saarland University, Building 60, 66421 Homburg Saar, Germany
    Eur J Cancer 48:2451-61. 2012
    ..Here we address the question whether cancer specific signatures exist...
  15. pmc miRTrail--a comprehensive webserver for analyzing gene and miRNA patterns to enhance the understanding of regulatory mechanisms in diseases
    Cedric Laczny
    Center for Bioinformatics, Saarland University, Campus E2 1, 66041 Saarbrucken, Germany
    BMC Bioinformatics 13:36. 2012
    ..To understand the regulatory processes of miRNAs on genes, integrative computer-aided approaches are essential, especially in the light of complex human diseases as cancer...
  16. pmc Treatment-independent miRNA signature in blood of Wilms tumor patients
    Jana Schmitt
    Department of Human Genetics, Saarland University, 66421 Homburg Saar, Germany
    BMC Genomics 13:379. 2012
    ..Blood-born miRNA signatures have recently been reported for various tumor diseases. Here, we compared the miRNA signature in Wilms tumor patients prior and after preoperative chemotherapy according to SIOP protocol 2001...
  17. doi request reprint GAS41 amplification results in overexpression of a new spindle pole protein
    Jana Schmitt
    Department of Human Genetics, Saarland University, Medical School, Homburg, Germany
    Genes Chromosomes Cancer 51:868-80. 2012
    ..We propose that GAS41 amplification may have an effect on the highly altered karyotype of glioblastoma via its role during spindle pole formation...
  18. pmc A dictionary on microRNAs and their putative target pathways
    Christina Backes
    Center for Bioinformatics, Saarland University, Germany
    Nucleic Acids Res 38:4476-86. 2010
    ..Our target pathways analysis provides a 'miRNA-target pathway' dictionary, which enables researchers to identify target pathways of differentially regulated miRNAs...
  19. ncbi request reprint Evidence for the mode of action of the highly cytotoxic Streptomyces polyketide kendomycin
    Yasser A Elnakady
    Department of Pharmaceutical Biotechnology, Saarland University, P O Box 151150, 66041 Saarbrucken, Germany
    Chembiochem 8:1261-72. 2007
    ..This study therefore provides evidence that kendomycin mediates its cytotoxic effects, at least in part, through proteasome inhibition...
  20. doi request reprint Altered microRNA expression profiles of human spermatozoa in patients with different spermatogenic impairments
    Masood Abu-Halima
    Department of Human Genetics, Saarland University, Homburg Saar, Germany
    Fertil Steril 99:1249-1255.e16. 2013
    ..To determine whether microRNAs are differentially expressed in men with normal versus impaired spermatogenesis, and to find a biomarker for accurate diagnosis of male infertility...
  21. pmc The human miRNA repertoire of different blood compounds
    Petra Leidinger
    Chair for Clinical Bioinformatics, Saarland University, Saarbrucken, Germany
    BMC Genomics 15:474. 2014
    ..In this study we provide insights into the human miRNome of different compounds of the blood including CD3, CD14, CD15, CD19, CD56 positive cells as well as exosomes...
  22. ncbi request reprint Integrative analysis of cancer-related data using CAP
    Pierre Dönnes
    Center for Bioinformatics, Saarland University, Saarbrucken, Germany
    FASEB J 18:1465-7. 2004
    ..CAP is freely available at the following web site: http://www.bioinf.uni-sb.de/CAP/...
  23. doi request reprint Toward the blood-borne miRNome of human diseases
    Andreas Keller
    Biomarker Discovery Center, Heidelberg, Germany
    Nat Methods 8:841-3. 2011
    ..We observed significant correlations (P = 0.004) between the genomic location of disease-associated genetic variants and deregulated microRNAs...
  24. ncbi request reprint Blood Born miRNAs Signatures that Can Serve as Disease Specific Biomarkers Are Not Significantly Affected by Overall Fitness and Exercise
    Christina Backes
    Department of Human Genetics, Medical School, Saarland University, Homburg Saar, Germany
    PLoS ONE 9:e102183. 2014
    ..These data support the idea of disease associated miRNA patterns useful as biomarkers that are not readily altered by physiological conditions. ..
  25. doi request reprint A set of specific miRNAs is connected with murine and human gastric cancer
    Aftab Ali Shah
    Division of Molecular Genetics, Institute of Human Genetics, University of Tubingen, Germany
    Genes Chromosomes Cancer 52:237-49. 2013
    ..If confirmed in a larger patient pool, these miRNAs could constitute appropriate blood-born biomarkers for GC...
  26. pmc Genome-wide gene amplification during differentiation of neural progenitor cells in vitro
    Ulrike Fischer
    Department of Human Genetics, Saarland University, Homburg Saar, Germany
    PLoS ONE 7:e37422. 2012
    ..Gene amplifications in normal human cells as physiological process has not been reported yet and may bear resemblance to developmental gene amplifications in amphibians and insects...
  27. pmc Complex humoral immune response against a benign tumor: frequent antibody response against specific antigens as diagnostic targets
    Nicole Comtesse
    Department of Human Genetics, Medical School, University of Saarland, Building 60, 66421 Homburg Saar, Germany
    Proc Natl Acad Sci U S A 102:9601-6. 2005
    ..The frequent antibody response against specific antigens offers new diagnostic and therapeutic targets for meningioma. We developed a statistical learning method to differentiate sera of meningioma patients from sera of healthy donors...
  28. doi request reprint New insights into the Tyrolean Iceman's origin and phenotype as inferred by whole-genome sequencing
    Andreas Keller
    Department of Human Genetics, Saarland University, 66421 Homburg, Saar, Germany
    Nat Commun 3:698. 2012
    ..Sequences corresponding to ~60% of the genome of Borrelia burgdorferi are indicative of the earliest human case of infection with the pathogen for Lyme borreliosis...
  29. doi request reprint Comprehensive analysis of microRNA profiles in multiple sclerosis including next-generation sequencing
    Andreas Keller
    Department of Human Genetics, Saarland University, Germany
    Mult Scler 20:295-303. 2014
    ..MicroRNAs (miRNAs) are short, noncoding RNAs with gene regulatory functions whose expression profiles may serve as disease biomarkers...