List of Publications
| 2011 |
| Journal Articles (6) |
| Shao XM, Iskar M, Zeller G, Kuhn M, van Noort V, Bork P.
Prediction of drug combinations by integrating molecular and pharmacological data. PLoS Comput Biol, 7(12):e1002323, 2011. DOI: 10.1371/journal.pcbi.1002323 PMID: 22219721 [ abstract | bibtex | pdf ] |
Arumugam M*, Raes J*, Pelletier E, Le Paslier D, Yamada T, Mende DR, Fernandes GR, Tap J, Bruls T, Batto JM, Bertalan M, Borruel N, Casellas F, Fernandez L, Gautier L et al. [70 add. authors].
Enterotypes of the human gut microbiome. Nature, 473(7346):174-80, 2011. DOI: 10.1038/nature09944 PMID: 21508958 [ abstract | bibtex | pdf ] |
| Eichner J, Zeller G, Laubinger S and Rätsch G.
Support vector machines-based identification of alternative splicing in Arabidopsis thaliana from whole-genome tiling arrays. BMC Bioinformatics, 12:55, 2011. DOI: 10.1186/1471-2105-12-55 PMID: 21324185 [ abstract | bibtex | pdf ] |
| Spencer WC*, Zeller G*, Watson JD, Henz SR, Watkins KL, McWhirter RD, Petersen S, Sreedharan VT, Widmer C, Jo J, Reinke V, Petrella L, Strome S, Von Stetina SE, Katz M et al. [3 add. authors].
A spatial and temporal map of C. elegans gene expression. Genome Res, 21(2):325-41, 2011. DOI: 10.1101/gr.114595.110 PMID: 21177967 [ abstract | bibtex | pdf ] |
| Hallem EA, Spencer WC, McWhirter RD, Zeller G, Henz SR, Rätsch G, Miller DM 3rd, Horvitz HR, Sternberg PW and Ringstad N.
Receptor-type guanylate cyclase is required for carbon dioxide sensation by Caenorhabditis elegans. Proc Natl Acad Sci U S A, 108(1):254-9, 2011. DOI: 10.1073/pnas.1017354108 PMID: 21173231 [ abstract | bibtex | pdf ] |
| Brouwers L, Iskar M, Zeller G, van Noort V and Bork P.
Network neighbors of drug targets contribute to drug side-effect similarity. PLoS One, 6(7):e22187, 2011. DOI: 10.1371/journal.pone.0022187 PMID: 21765950 [ abstract | bibtex | pdf ] |
| Conference Proceedings (1) |
| Görnitz N*, Widmer CK*, Zeller G, Kahles A, Sonnenburg S, Rätsch G.
Hierarchical multitask structured output learning for large-scale sequence segmentation. Advances in Neural Information Processing Systems (NIPS), 24:2690-2698, 2011. link to NIPS proceedings [ abstract | bibtex | pdf ] |
| Invited Reviews (1) |
| Iskar M*, Zeller G*, Shao XM, van Noort V, Bork P.
Drug discovery in the age of systems biology: The rise of computational approaches for data integration. Curr Opinion Biotechnol, 2011. DOI: 10.1016/j.copbio.2011.11.010 PMID: 22153034 [ abstract | bibtex | pdf ] |
| Other Invited Publications (1) |
| Zeller G.
Maschinelle Lernmethoden zur Analyse von Tiling-Array-Daten. [summary of my PhD Thesis in German] GI-Edition - Lecture Notes in Informatics, D-11 (Ausgezeichnete Informatikdissertationen 2010), pp. 371-380, 2011. link to GI-Edition - LNI, D-11 [ abstract | pdf ] |
| 2010 |
| Journal Articles (3) |
| Gerstein MB*, Lu ZJ*, Van Nostrand EL*, Cheng C*, Arshinoff BI*, Liu T*, Yip KY*, Robilotto R*, Rechtsteiner A*, Ikegami K*, Alves P*, Chateigner A*, Perry M*, Morris M*, Auerbach RK* et al. [117 add. authors].
Integrative analysis of the Caenorhabditis elegans genome by the modENCODE project. Science, 330(6012):1775-87, 2010. DOI: 10.1126/science.1196914 PMID: 21177976 [ abstract | bibtex | pdf ] |
| Laubinger S*, Zeller G*, Henz SR, Buechel S, Sachsenberg T, Wang JW, Rätsch G and Weigel D.
Global effects of the small RNA biogenesis machinery on the Arabidopsis thaliana transcriptome. Proc Natl Acad Sci U S A, 107(41):17466-73, 2010. DOI: 10.1073/pnas.1012891107 PMID: 20870966 [ abstract | bibtex | pdf ] |
| Rehrauer H, Aquino C, Gruissem W, Henz SR, Hilson P, Laubinger S, Naouar N, Patrignani A, Rombauts S, Shu H, Van de Peer Y, Vuylsteke M, Weigel D, Zeller G and Hennig L.
AGRONOMICS1: a new resource for Arabidopsis transcriptome profiling. Plant Physiol, 152(2):487-99, 2010. DOI: 10.1104/pp.109.150185 PMID: 20032078 [ abstract | bibtex | pdf ] |
| Thesis (1) |
| Zeller G.
Machine learning algorithms for the analysis of data from whole-genome tiling microarrays. PhD Thesis, University of Tübingen, 2010. link to electronic library [ abstract | bibtex | pdf ] |
| 2009 |
| Journal Articles (6) |
| Schweikert G, Zien A*, Zeller G*, Behr J, Dieterich C, Ong CS, Philips P, De Bona F, Hartmann L, Bohlen A, Krüger N, Sonnenburg S and Rätsch G.
mGene: accurate SVM-based gene finding with an application to nematode genomes. Genome Res, 19(11):2133-43, 2009. DOI: 10.1101/gr.090597.108 PMID: 19564452 [ abstract | bibtex | pdf ] |
| McNally KL, Childs KL, Bohnert R, Davidson RM, Zhao K, Ulat VJ, Zeller G, Clark RM, Hoen DR, Bureau TE, Stokowski R, Ballinger DG, Frazer KA, Cox DR, Padhukasahasram B et al. [8 add. authors].
Genomewide SNP variation reveals relationships among landraces and modern varieties of rice. Proc Natl Acad Sci U S A, 106(30):12273-8, 2009. DOI: 10.1073/pnas.0900992106 PMID: 19597147 [ abstract | bibtex | pdf ] |
| Schweikert G, Behr J, Zien A, Zeller G, Ong CS, Sonnenburg S and Rätsch G.
mGene.web: a web service for accurate computational gene finding. Nucleic Acids Res, 37(Web Server issue):W312-6, 2009. DOI: 10.1093/nar/gkp479 PMID: 19494180 [ abstract | bibtex | pdf ] |
| Zeller G*, Henz SR*, Widmer CK, Sachsenberg T, Rätsch G, Weigel D and Laubinger S.
Stress-induced changes in the Arabidopsis thaliana transcriptome analyzed using whole-genome tiling arrays. Plant J, 58(6):1068-82, 2009. DOI: 10.1111/j.1365-313X.2009.03835.x PMID: 19222804 [ abstract | bibtex | pdf ] |
| Plantegenet S, Weber J, Goldstein DR, Zeller G, Nussbaumer C, Thomas J, Weigel D, Harshman K and Hardtke CS.
Comprehensive analysis of Arabidopsis expression level polymorphisms with simple inheritance. Mol Syst Biol, 5:242, 2009. DOI: 10.1038/msb.2008.79 PMID: 19225455 [ abstract | bibtex | pdf ] |
| Naouar N, Vandepoele K, Lammens T, Casneuf T, Zeller G, van Hummelen P, Weigel D, Rätsch G, Inzé D, Kuiper M, De Veylder L and Vuylsteke M.
Quantitative RNA expression analysis with Affymetrix Tiling 1.0R arrays identifies new E2F target genes. Plant J, 57(1):184-94, 2009. DOI: 10.1111/j.1365-313X.2008.03662.x PMID: 18764924 [ abstract | bibtex | pdf ] |
| 2008 |
| Journal Articles (3) |
| Laubinger S, Sachsenberg T, Zeller G, Busch W, Lohmann JU, Rätsch G and Weigel D.
Dual roles of the nuclear cap-binding complex and SERRATE in pre-mRNA splicing and microRNA processing in Arabidopsis thaliana. Proc Natl Acad Sci U S A, 105(25):8795-800, 2008. DOI: 10.1073/pnas.0802493105 PMID: 18550839 [ abstract | bibtex | pdf ] |
| Zeller G, Clark RM*, Schneeberger K*, Bohlen A, Weigel D and Rätsch G.
Detecting polymorphic regions in Arabidopsis thaliana with resequencing microarrays. Genome Res, 18(6):918-29, 2008. DOI: 10.1101/gr.070169.107 PMID: 18323538 [ abstract | bibtex | pdf ] |
| Laubinger S, Zeller G, Henz SR, Sachsenberg T, Widmer CK, Naouar N, Vuylsteke M, Schölkopf B, Rätsch G and Weigel D.
At-TAX: a whole genome tiling array resource for developmental expression analysis and transcript identification in Arabidopsis thaliana. Genome Biol, 9(7):R112, 2008. DOI: 10.1186/gb-2008-9-7-r112 PMID: 18613972 [ abstract | bibtex | pdf ] |
| Conference Proceedings (1) |
| Zeller G, Henz SR, Laubinger S, Weigel D and Rätsch G.
Transcript normalization and segmentation of tiling array data. Pac Symp Biocomput, :527-38, 2008. PMID: 18229713 [ abstract | bibtex | pdf ] |
| Before 2008 |
| Journal Articles (1) |
| Clark RM, Schweikert G*, Toomajian C*, Ossowski S*, Zeller G*, Shinn P, Warthmann N, Hu TT, Fu G, Hinds DA, Chen H, Frazer KA, Huson DH, Schölkopf B, Nordborg M et al. [3 add. authors].
Common sequence polymorphisms shaping genetic diversity in Arabidopsis thaliana. Science, 317(5836):338-42, 2007. DOI: 10.1126/science.1138632 PMID: 17641193 [ abstract | bibtex | pdf ] |
| Thesis (1) |
| Zeller G.
Resequencing data of 20 Arabidopsis ecotypes. Diplom Thesis (Master's equivalent), University of Tübingen, 2005. [ abstract | bibtex | pdf ] |
* these authors contributed equally.
Updated on 01 January 2012