Molecular phenotypic portraits - Exploring the 'OMES' with individual resolution

Proceedings of the 6th International Symposium on Health Informatics and Bioinformatics, HIBIT 2011

Volumn , Issue , 2011, Pages 99-107

  Binder, Hans ^a   Hopp, Lydia ^a   Cakir, Volkan ^a   Fasold, Mario ^a   Von Bergen, Martin ^b   Wirth, Henry ^a,b  

^a UNIVERSITY OF LEIPZIG   (Germany)

^b HELMHOLTZ CENTRE FOR ENVIRONMENTAL RESEARCH UFZ   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

CANCER SUBTYPES; MOLECULAR PHENOTYPES; SELF ORGANIZING MAPS(SOMS);

GENE EXPRESSION; RNA; SELF ORGANIZING MAPS; STEM CELLS; TISSUE;

BIOINFORMATICS;

EID: 84874480485     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1109/HIBIT.2011.6450817     Document Type: Conference Paper

References (17)

1. Tsigelny IF, Kouznetsova VL et al: Analysis of Metagene Portraits Reveals Distinct Transitions During Kidney Organogenesis. Sci Signal 2008, 1(49):ra16
2. Huang S, Eichler G et al: Cell Fates as High-Dimensional Attractor States of a Complex Gene Regulatory Network. Phys Rev Lett J1-PRL 2005, 94(12):128701
3. Mar JC, Quackenbush J: Decomposition of Gene Expression State Space Trajectories. PLoS Comput Biol 2009, 5(12):e1000626
4. Bishop CM, Svensén M et al: GTM: The Generative Topographic Mapping. Neural Computation 1998, 10(1):215-234
5. Kohonen T: Self-organized formation of topologically correct feature maps. Biological Cybernetics 1982, 43(1):59-69
6. Wirth H, Loeffler M et al: Expression cartography of human tissues using self organizing maps. BMC Bioinformatics 2011, 12:306
7. Wirth H, von Bergen M et al: Mining SOM expression portraits: Feature selection and integrating concepts of molecular function BioData Mining 2012, in press:see preprint: http://precedings. nature. com/documents/6666/version/6661
8. Hummel M, Bentink S et al: A Biologic Definition of Burkitt's Lymphoma from Transcriptional and Genomic Profiling. N Engl J Med 2006, 354(23):2419-2430
9. Tomlins SA, Mehra R et al: Integrative molecular concept modeling of prostate cancer progression. Nat Genet 2007, 39(1):41-51
10. Hopp L, Wirth H et al: Portraying the expression landscapes of cancer subtypes: A glioblastoma multiforme and prostate cancer case study. Nature Preceedings 2012, preprint
11. Ko K, Arauzo-Bravo MJ et al: Human adult germline stem cells in question. Nature 2010, 465(7301):E1-E1
12. Conrad S, Renninger M et al: Generation of pluripotent stem cells from adult human testis. Nature 2008, 456(7220):344-349
13. Wilson KD, Venkatasubrahmanyam S et al: MicroRNA Profiling of Human-Induced Pluripotent Stem Cells. Stem Cells and Development 2009, 18(5):749-757
14. Cakir V, Wirth H et al: Portraying miRNA expression landscapes using machine learning. Methods of Molecular Biology 2012, in press
15. Bergen Mv, Eidner A et al: Identification of harmless and pathogenic algae of the genus Prototheca by MALDI-MS. PROTEOMICS-CLINICAL APPLICATIONS 2009, 3(7):774-784
16. Wirth H, von Bergen M et al: MALDI-typing of infectious algae of the genus Prototheca using SOM portraits. Journal of Microbiological Methods 2012, 88(1):83-97
17. Li JZ, Absher DM et al: Worldwide Human Relationships Inferred from Genome-Wide Patterns of Variation. Science 2008, 319(5866):1100-1104.