- MicroRNA Target Site Identification by Integrating Sequence
and Binding Information (2013) Majoros WH, Lekprasert P, Ohler U, et al. Nature Methods. (In press)
- Automatic Annotation of Gene Expression Image Sequences via
Nonparametric Factor Analysis and Conditional Random Fields (2013)
Pruteanu-Malinici I, Majoros WH, Ohler U. ISMB 2013. (In press)
- Modeling the Evolution of Regulatory Elements by
Simultaneous Detection and Alignment with Phylogenetic Pair HMMs (2010)
Majoros WH & Ohler U. PLoS
Computational Biology 6(12):e1001037.
- Motif composition, conservation and condition-specificity
of single and alternative transcription start sites in the Drosophila
genome (2009). Rach EA, Yuan HY, Majoros WH, Tomancak P, Ohler U. Genome Biology 10:R73.
- Complexity Reduction in Context-dependent DNA Substitution
Models (2008) Majoros WH, Ohler U. Bioinformatics 25:185-82.
- 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.
- A viral microRNA functions as an ortholog of
cellular miR-155 (2007) Gottwein et al. Nature 450:1096-1099.
- Spatial preferences of microRNA targets in 3' untranslated
regions (2007) Majoros W and Ohler U. BMC Genomics 8:152 (pdf).
- Advancing the State of the Art in Computational Gene
Prediction (2007) Majoros W and Ohler U. Proceedings of KDECB /
Benelearn '06, Springer-Verlag.
- 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.
- Macronuclear genome sequence of the ciliate Tetrahymena thermophila, a model
eukaryote. (2006) Eisen, J et al.
PLoS Biology. 4(9).
- Genomic sequence of the pathogenic and allergenic
filamentous fungus Aspergillus fumigatus. (2005) Neirman, W et al. Nature 438:1151-1156.
- 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)
- Efficient decoding algorithms for generalized hidden Markov
model gene finders. (2005). Majoros W, Pertea M, Delcher A, Salzberg
S. BMC Bioinformatics
6:16. (pdf).
- Gene discovery in the Acanthamoeba
castellanii genome. (2005). Anderson IJ et al. (2005). Protist.
- Dynamic programming for gene finders. (2005). Majoros, W. Encyclopedia of Genetics, Genomics,
Proteomics, and Bioinformatics. Wiley.
- Automatic concept identification in biomedical literature.
(2005). Majoros, W. Encyclopedia of
Genetics, Genomics, Proteomics, and Bioinformatics.
Wiley.
- 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)
- TIGRscan and GlimmerHMM : two open source ab initio
eukaryotic gene finders. (2004). Majoros W, Pertea M, Salzberg S.
Bioinformatics 20,
2878-2879. (pdf)
- The ENCODE (ENCyclopedia Of DNA Elements) Project. (2004).
The ENCODE Project Consortium. Science
306, 636-640.
- 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)
- 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)
- Identification of Key Concepts in Biomedical Literature
using a
Modified Markov Heuristic. (2002). Majoros WH, Subramanian M, Yandell
MD. Bioinformatics 19, 402-407. (pdf)
- Genomics and Natural Language Processing. (2002). Yandell
MD and Majoros WH. Nature
Reviews Genetics 3, 601. (pdf)
- The Genome Sequence of the Malaria Mosquito Anopheles
gambiae. (2002). Holt et al.,
Science 298, 129-149.
- A Comparison of Whole-Genome Shotgun-Derived Mouse
Chromosome 16
and the Human Genome. (2002). Mural et
al., Science 296, 1661-1671.
- Syntactic
Structure in Birdsong: Memetic Evolution of Songs or Grammars? (2002).
Majoros W, Journal
of Memetics, vol 6. (html)
- The
sequence of the human genome. (2001). Venter et al., Science 291,
1304-1351. (html)
(pdf)
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