Publications

 Books and Monographs

 Current Projects (in Progress)

 Research Articles and Book Chapters

1. Complexity Reduction in Context-dependent DNA Substitution Models (2008) Majoros WH, Ohler U. Bioinformatics (in press).
2. Gene Prediction Methods (2008) Majoros WH, Korf I, Ohler U. In: Bioinformatics: Tools and Applications, edited by D. Edwards, J. Stajich, D. Hansen. Springer-Verlag, in press.
   
3. A viral microRNA functions as an ortholog of cellular miR-155 (2007) Gottwein et al. Nature 450:1096-1099.
   
4. Spatial preferences of microRNA targets in 3' untranslated regions (2007) Majoros W and Ohler U. BMC Genomics 8:152 (pdf).
5. Advancing the State of the Art in Computational Gene Prediction (2007) Majoros W and Ohler U. Proceedings of KDECB / Benelearn '06, Springer-Verlag.
   
6. JIGSAW, GeneZilla, and GlimmerHMM: puzzling out the features of human genes in the ENCODE regions (2006) Allen J, Majoros W, Pertea M, Salzberg S. Genome Biology.
   
7. Macronuclear genome sequence of the ciliate Tetrahymena thermophila, a model eukaryote. (2006) Eisen, J et al. PLoS Biology. 4(9).
   
8. Genomic sequence of the pathogenic and allergenic filamentous fungus Aspergillus fumigatus. (2005)  Neirman, W et al. Nature 438:1151-1156.
   
9. Efficient implementation of a generalized pair hidden Markov model for comparative gene finding. (2005). Majoros W, Pertea M, Salzberg L.  Bioinformatics 21, 1782-1788. (pdf)
10. Efficient decoding algorithms for generalized hidden Markov model gene finders. (2005). Majoros W, Pertea M, Delcher A, Salzberg S.  BMC Bioinformatics 6:16.  (pdf).
11. Gene discovery in the Acanthamoeba castellanii genome. (2005).  Anderson IJ et al. (2005). Protist.
    
12. Dynamic programming for gene finders. (2005). Majoros, W. Encyclopedia of Genetics, Genomics, Proteomics, and Bioinformatics.  Wiley. 
13. Automatic concept identification in biomedical literature. (2005). Majoros, W. Encyclopedia of Genetics, Genomics, Proteomics, and Bioinformatics.  Wiley. 
14. An empirical analysis of training protocols for probabilistic gene finders. (2004). Majoros W, Salzberg S.  BMC Bioinformatics 5:206. (original: pdf) (erratum: pdf) (corrected: pdf)
    
15. TIGRscan and GlimmerHMM : two open source ab initio eukaryotic gene finders. (2004). Majoros W, Pertea M, Salzberg S.  Bioinformatics 20, 2878-2879. (pdf)
16. The ENCODE (ENCyclopedia Of DNA Elements) Project. (2004). The ENCODE Project Consortium. Science 306, 636-640.
    
17. GlimmerM, Exonomy, and Unveil: Three ab initio Eukaryotic Genefinders. (2003). Majoros W,Pertea M,Antonescu C,Salzberg S. Nucleic Acids Research 31, 3601-3604. (pdf)
18. Assessment of genome-wide protein function classification for Drosophila melanogaster. (2003). Mi H, Vandergriff J, Campbell M, Marechania A, Majoros W, Lewis S, Thomas PD, Ashburner M. Genome Research 13, 2118-2128. (pdf)
19. Identification of Key Concepts in Biomedical Literature using a Modified Markov Heuristic. (2002). Majoros WH, Subramanian M, Yandell MD. Bioinformatics 19, 402-407. (pdf)
20. Genomics and Natural Language Processing. (2002). Yandell MD and Majoros WH. Nature Reviews Genetics 3, 601. (pdf)
21. The Genome Sequence of the Malaria Mosquito Anopheles gambiae. (2002). Holt et al., Science 298, 129-149.
    
22. A Comparison of Whole-Genome Shotgun-Derived Mouse Chromosome 16 and the Human Genome. (2002). Mural et al., Science 296, 1661-1671.
23. Syntactic Structure in Birdsong: Memetic Evolution of Songs or Grammars? (2002). Majoros W, Journal of Memetics, vol 6. (html)
24. The sequence of the human genome. (2001). Venter et al.,  Science 291, 1304-1351. (html) (pdf)