EMBL Heidelberg, Meyerhofstraße 1, 69117 Heidelberg, Germany

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Publications

Total: 15 publication(s)

2014

Anders S, Pyl PT, Huber W. (2014)

HTSeq - A Python framework to work with high-throughput sequencing data

Bioinformatics doi:10.1093/bioinformatics/btu638
Europe PMC | doi

Wilkening S, Lin G, Fritsch ES, Tekkedil MM, Anders S, Kuehn R, Nguyen M, Aiyar RS, Proctor M, Sakhanenko NA, Galas DJ, Gagneur J, Deutschbauer A, Steinmetz LM. (2014)

An evaluation of high-throughput approaches to QTL mapping in Saccharomyces cerevisiae

Genetics 196(3):853-865. doi:10.1534/genetics.113.160291
Europe PMC | doi


2013

Brennecke P, Anders S, Kim JK, Kołodziejczyk AA, Zhang X, Proserpio V, Baying B, Benes V, Teichmann SA, Marioni JC, Heisler MG. (2013)

Accounting for technical noise in single-cell RNA-seq experiments

Nat. Methods 10(11):1093-1095. doi:10.1038/nmeth.2645
Europe PMC | doi

Anders S, McCarthy DJ, Chen Y, Okoniewski M, Smyth GK, Huber W, Robinson MD. (2013)

Count-based differential expression analysis of RNA sequencing data using R and Bioconductor

Nat Protoc 8(9):1765-1786. doi:10.1038/nprot.2013.099
Europe PMC | doi

Reyes A, Anders S, Weatheritt RJ, Gibson TJ, Steinmetz LM, Huber W. (2013)

Drift and conservation of differential exon usage across tissues in primate species

Proc. Natl. Acad. Sci. U.S.A. 110(38):15377-15382. doi:10.1073/pnas.1307202110
Europe PMC | doi

Wilkening S, Pelechano V, Jarvelin AI, Tekkedil MM, Anders S, Benes V, Steinmetz LM. (2013)

An efficient method for genome-wide polyadenylation site mapping and RNA quantification (vol 41, pg e65, 2013)

Nucleic Acids Res 41(12):6370. doi:10.1093/nar/gkt364
doi

Wilkening S, Pelechano V, Järvelin AI, Tekkedil MM, Anders S, Benes V, Steinmetz LM. (2013)

An efficient method for genome-wide polyadenylation site mapping and RNA quantification

Nucleic Acids Res. 41(12):6370. doi:10.1093/nar/gks1249
Europe PMC | doi

Zarnack K, König J, Tajnik M, Martincorena I, Eustermann S, Stévant I, Reyes A, Anders S, Luscombe NM, Ule J. (2013)

Direct competition between hnRNP C and U2AF65 protects the transcriptome from the exonization of Alu elements

Cell 152(3):453-466. doi:10.1016/j.cell.2012.12.023
Europe PMC | doi


2012

Anders S, Reyes A, Huber W. (2012)

Detecting differential usage of exons from RNA-seq data

Genome Res. 22(10):2008-2017. doi:10.1101/gr.133744.111
Europe PMC | doi


2011

Schlattl A, Anders S, Waszak SM, Huber W, Korbel JO. (2011)

Relating CNVs to transcriptome data at fine resolution: assessment of the effect of variant size, type, and overlap with functional regions

Genome Res. 21(12):2004-2013. doi:10.1101/gr.122614.111
Europe PMC | doi


2010

Anders S, Huber W. (2010)

Differential expression analysis for sequence count data

Genome Biol. 11(10):R106. doi:10.1186/gb-2010-11-10-r106
Europe PMC | doi

Thomsen S, Anders S, Janga SC, Huber W, Alonso CR. (2010)

Genome-wide analysis of mRNA decay patterns during early Drosophila development

Genome Biol. 11(9):R93. doi:10.1186/gb-2010-11-9-r93
Europe PMC | doi


2009

Morgan M, Anders S, Lawrence M, Aboyoun P, Pagès H, Gentleman R. (2009)

ShortRead: a bioconductor package for input, quality assessment and exploration of high-throughput sequence data

Bioinformatics 25(19):2607-2608. doi:10.1093/bioinformatics/btp450
Europe PMC | doi

Anders S. (2009)

Visualization of genomic data with the Hilbert curve

Bioinformatics 25(10):1231-1235. doi:10.1093/bioinformatics/btp152
Europe PMC | doi


2006

Anders S, Plenio MB, Dür W, Verstraete F, Briegel HJ. (2006)

Ground-state approximation for strongly interacting spin systems in arbitrary spatial dimension

Phys. Rev. Lett. 97(10):107206. doi:10.1103/physrevlett.97.107206
Europe PMC | doi