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Berger, Severin and Pachkov, Mikhail and Arnold, Phil and Omidi, Saeed and Kelley, Nicholas and Salatino, Silvia and van Nimwegen, Erik. (2019) Crunch: integrated processing and modeling of ChIP-seq data in terms of regulatory motifs. Genome Research, 29 (7). pp. 1164-1177.

Omidi, Saeed and Zavolan, Mihaela and Pachkov, Mikhail and Breda, Jeremie and Berger, Severin and van Nimwegen, Erik. (2017) Automated incorporation of pairwise dependency in transcription factor binding site prediction using dinucleotide weight tensors. PLoS Computational Biology, 13 (7). e1005176.

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