OposSOM: R-package for high-dimensional portraying of genome-wide expression landscapes on bioconductor

Bioinformatics

Volumn 31, Issue 19, 2015, Pages 3225-3227

  Löffler Wirth, Henry ^a   Kalcher, Martin ^a   Binder, Hans ^a  

^a UNIVERSITY OF LEIPZIG   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

TUMOR MARKER;

ALGORITHM; B CELL LYMPHOMA; COMPUTER GRAPHICS; COMPUTER PROGRAM; DNA SEQUENCE; GENOMICS; HUMAN; HUMAN GENOME; METABOLISM; PROCEDURES;

ALGORITHMS; BIOMARKERS, TUMOR; COMPUTER GRAPHICS; GENOME, HUMAN; GENOMICS; HUMANS; LYMPHOMA, B-CELL; SEQUENCE ANALYSIS, DNA; SOFTWARE;

EID: 84943388769     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/btv342     Document Type: Article

References (12)

1. Binder, H. and Wirth, H. (2015) Analysis of Large-Scale OMIC Data Using Self Organizing Maps. In: Khosrow-Pour, M. (ed.) Encyclopedia of Information Science and Technology, 3rd edn. IGI global, Hershey, PA, USA, pp. 1642-1654
2. Cakir, M.V. et al. (2014) MicroRNA expression landscapes in stem cells, tissues, and cancer. Methods Mol. Biol., 1107, 279-302
3. Charbord, P. et al. (2014) A systems biology approach for defining the molecular framework of the hematopoietic stem cell niche. Cell Stem Cell, 15, 376-391
4. Eichler, G.S. et al. (2003) Gene expression dynamics inspector (GEDI): for integrative analysis of expression profiles. Bioinformatics, 19, 2321-2322
5. Hopp, L. et al. (2013) Portraying the expression landscapes of B-cell lymphoma- intuitive detection of outlier samples and of molecular subtypes. Biology (Basel)., 2, 1411-1437
6. Hopp, L. et al. (2013) Portraying the expression landscapes of cancer subtypes: a glioblastoma multiforme and prostate cancer case study. Syst. Biomed., 1, 1-23
7. Reifenberger, G. et al. (2014) Molecular characterization of long-term survivors of glioblastoma using genome- and transcriptome-wide profiling. Int. J. Cancer, 135, 1822-1831
8. Steiner, L. et al. (2012) A global genome segmentation method for exploration of epigenetic patterns. PLoS One, 7, e46811
9. Wirth, H. et al. (2011) Expression cartography of human tissues using self organizing maps. BMC Bioinformatics, 12, 306-352
10. Wirth, H. (2012) Analysis of large-scale molecular biological data using selforganizing maps. Dissertation thesis, University of Leipzig.
11. Wirth, H. et al. (2012) MALDI-typing of infectious algae of the genus Prototheca using SOM portraits. J. Microbiol. Methods, 88, 83-97
12. Wirth, H. et al. (2012) Mining SOM expression portraits: feature selection and integrating concepts of molecular function. BioData Min., 5, 18-63