Publications

2011
28. Rose D, Hiller M, Schutt K, Hackermuller J, Backofen R, and Stadler PF. Computational discovery of human coding and non-coding transcripts with conserved splice sites. Bioinformatics, 27(14), 1894-1900, 2011
2010
27. McLean CY, Bristor D, Hiller M, Clarke SL, Schaar BT, Lowe CB, Wenger AM, and Bejerano G. GREAT improves functional interpretation of cis-regulatory regions. Nature Biotechnol. 28(5), 495-501, 2010. [Website]
26. Sinha R, Lenser T, Jahn N, Gausmann U, Friedel S, Szafranski K, Huse K, Rosenstiel P, Hampe J, Schuster S, Hiller M, Backofen R, and Platzer M. TassDB2 - A comprehensive database of subtle alternative splicing events. BMC Bioinformatics 11(1), 216, 2010
25. Zhang Z, Theler D, Kaminska KH, Hiller M, Grange PD, Pudimat R, Rafalska I, Heinrich B, Bujnicki JM, Allain FH, and Stamm S. The YTH domain is a novel RNA binding domain. J Biol Chem. 285(19), 14701-10, 2010
2009
24. Hiller M, Findeiss S, Lein S, Marz M, Nickel C, Rose D, Schulz C, Backofen R, Prohaska SJ, Reuter G, and Stadler PF. Conserved Introns Reveal Novel Transcripts in Drosophila melanogaster. Genome Res. 19(7), 1289-1300, 2009
23. Sinha R, Nikolajewa S, Szafranski K, Hiller M, Jahn N, Huse K, Platzer M, and Backofen R. Accurate prediction of NAGNAG alternative splicing. Nucleic Acids Res. 37(11), 3569-79, 2009
22. Heinrich B, Zhang Z, Raitskin O, Hiller M, Benderska N, Hartmann AM, Bracco L, Elliott D, Ben-Ari S, Soreq H, Sperling J, Sperling R, and Stamm S. Heterogeneous nuclear ribonucleoprotein G regulates splice site selection by binding to CC(A/C)-rich regions in pre-mRNA. J Biol Chem. 284(21), 14303-15, 2009
2008
21. Sinha R, Hiller M, Pudimat R, Gausmann U, Platzer M, and Backofen R. Improved identification of conserved cassette exons using Bayesian networks. BMC Bioinformatics 9, 477, 2008
20. Huse K, Taudien S, Groth M, Rosenstiel P, Szafranski K, Hiller M, Hampe J, Junker K, Schubert J, Schreiber S, Birkenmeier G, Krawczak M, and Platzer M. Genetic variants of the copy number polymorphic beta-defensin locus are associated with sporadic prostate cancer. Tumour Biol. 29(2), 83-92, 2008
19. Schindler S, Szafranski K, Hiller M, Ali GS, Palusa SG, Backofen R, Platzer M, and Reddy ASN. Alternative splicing at NAGNAG acceptors in Arabidopsis thaliana SR and SR-related protein-coding genes. BMC Genomics 9, 159, 2008
18. Hiller M and Platzer M. Widespread and subtle: alternative splicing at short-distance tandem sites. Trends Genet. 24(5), 249-258, 2008
17. Hiller M, Szafranski S, Huse K, Backofen R, and Platzer M. Selection against tandem splice sites affecting structured protein regions. BMC Evol Bio. 8, 89, 2008
16. Hiller M, Szafranski S, Sinha R, Huse K, Nikolajewa S, Rosenstiel P, Schreiber S, Backofen R, and Platzer M. Assessing the fraction of short-distance tandem splice sites under purifying selection. RNA 14(4), 616-29, 2008
2007
15. Hiller M, Zhang Z, Backofen R, and Stamm S. Pre-mRNA secondary structures influence exon recognition. PLoS Genet. 3(11), e204, 2007
14. Szafranski K, Schindler S, Taudien S, Hiller M, Huse K, Jahn N, Schreiber S, Backofen R, and Platzer M. Violating the splicing rules: TG dinucleotides function as alternative 3' splice sites in U2-dependent introns. Genome Biol. 8(8), R154, 2007
13. Nikolajewa S, Pudimat R, Hiller M, Platzer M, and Backofen R. BioBayesNet: a web server for feature extraction and Bayesian network modeling of biological sequence data. Nucleic Acids Res. 35(Web Server issue), W688-93, 2007
12. Hiller M, Nikolajewa S, Huse K, Szafranski K, Rosenstiel P, Schuster S, Backofen R, and Platzer M. TassDB: a database of alternative tandem splice sites. Nucleic Acids Res. 35(Database issue), D188-92, 2007
2006
11. Hiller M, Szafranski K, Backofen R, and Platzer M. Alternative splicing at NAGNAG acceptors: Simply noise or noise and more? PLoS Genet. 2(11), e207, 2006
10. Platzer M, Hiller M, Szafranski K, Jahn N, Hampe J, Schreiber S, Backofen R, and Huse K. Sequencing errors or SNPs at splice-acceptor guanines in dbSNP? Nature Biotechnol. 24(9),1068-70, 2006
9. Hiller M, Pudimat R, Busch A, and Backofen R. Using RNA secondary structures to guide sequence motif finding towards single-stranded regions. Nucleic Acids Res. 34(17), e117, 2006
8. Hiller M, Huse K, Szafranski K, Rosenstiel P, Schreiber S, Backofen R, and Platzer M. Phylogenetically widespread alternative splicing at unusual GYNGYN donors. Genome Biol. 7(7):R65, 2006
7. Hiller M*, Huse K*, Szafranski K, Jahn N, Hampe J, Schreiber S, Backofen R, and Platzer M. Single-Nucleotide Polymorphisms in NAGNAG acceptors are highly predictive for variations of alternative splicing. Am J Hum Genet. 78(2), 291-302, 2006
2005
6. Hiller M, Huse K, Platzer M, and Backofen R. Non-EST based prediction of exon skipping and intron retention events using Pfam information. Nucleic Acids Res. 33(17), 5611-21, 2005
5. Hiller M, Huse K, Platzer M, and Backofen R. Creation and disruption of protein features by alternative splicing - a novel mechanism to modulate function. Genome Biol. 6(7):R58, 2005
2004
4. Hiller M*, Huse K*, Szafranski K, Jahn N, Hampe J, Schreiber S, Backofen R, and Platzer M. Widespread occurrence of alternative splicing at NAGNAG acceptors contributes to proteome plasticity. Nature Genet. 36(12), 1255-7, 2004
3. Hiller M*, Backofen R*, Heymann S*, Busch A, Glaesser TM, and Freytag JC. Efficient prediction of alternative splice forms using protein domain homology. In Silico Biol. 4(2), 195-208, 2004
before 2004
2. Hamzaoui R, Saupe D, and Hiller M. Distortion minimization with fast local search for fractal image compression. Journal of Visual Communication and Image Representation (Academic Press), 12, 450-468, 2001
1. Hamzaoui R, Saupe D, and Hiller M. Fast code enhancement with local search for fractal image compression. In Proc. of IEEE International Conference on Image Processing Vancouver, 2000
* equal contribution