List of publications
Journal Article (183)
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1.Journal ArticleFunctional dissection of the Sox9-Kcnj2 locus identifies nonessential and instructive roles of TAD architecture. Nature Genetics 51 (8), pp. 1263 - 1271 (2019)
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2.Journal ArticlePreformed Chromatin Topology Assists Transcriptional Robustness of Shh during Limb Development. bioRxiv (Preprint Server) 2019, 528877 (2019)
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3.Journal ArticlePredicting enhancers in mammalian genomes using supervised hidden Markov models. BMC Bioinformatics 20 (2019)
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4.Journal ArticleThe Distance Precision Matrix: computing networks from non-linear relationships. Bioinformatics 35 (6), pp. 1009 - 1017 (2019)
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5.Journal ArticleSerial genomic inversions induce tissue-specific architectural stripes, gene misexpression and congenital malformations. Nature Cell Biology 21 (3), pp. 305 - 310 (2019)
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6.Journal ArticleEsrrb Unlocks Silenced Enhancers for Reprogramming to Naive Pluripotency - Correction. Cell Stem Cell 23 (6), pp. 900 - 904 (2018)
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7.Journal ArticleClassifying human promoters by occupancy patterns identifies recurring sequence elements, combinatorial binding, and spatial interactions. BMC Biology 16 (1) (2018)
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8.Journal ArticleSynthetic STARR-seq reveals how DNA shape and sequence modulate transcriptional output and noise. PLoS Genetics 14 (11) (2018)
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9.Journal ArticleDynamic 3D chromatin architecture determines enhancer specificity and morphogenetic identity in limb development. Nature Genetics 50 (10), pp. 1463 - 1473 (2018)
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10.Journal ArticleDynamics of Transcription Regulation in Human Bone Marrow Myeloid Differentiation to Mature Blood Neutrophils. Cell Reports 24 (10) (2018)
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11.Journal ArticlecoTRaCTE predicts co-occurring transcription factors within cell-type specific enhancers. PLoS Computational Biology 14 (8) (2018)
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12.Journal ArticleEsrrb Unlocks Silenced Enhancers for Reprogramming to Naive Pluripotency. Cell Stem Cell 23 (2), pp. 266 - 275 (2018)
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13.Journal ArticleEpigenomic profiling of non-small cell lung cancer xenografts uncover LRP12 DNA methylation as predictive biomarker for carboplatin resistance. Genome Medicine 10 (1) (2018)
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14.Journal ArticlePolymer physics predicts the effects of structural variants on chromatin architecture. Nature Genetics 50 (5), pp. 662 - 667 (2018)
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15.Journal ArticleGenomic dissection of enhancers uncovers principles of combinatorial regulation and dynamic wiring of enhancer-promoter contacts. Nucleic Acids Research (London) 46 (6), pp. 2868 - 2882 (2018)
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16.Journal ArticleIntegrative genomic profiling of large-cell neuroendocrine carcinomas reveals distinct subtypes of high-grade neuroendocrine lung tumors. Nature Communications 9 (1) (2018)
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17.Journal ArticleAn improved compound Poisson model for the number of motif hits in DNA sequences. Bioinformatics 33 (24), pp. 3929 - 3937 (2017)
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18.Journal ArticlessHMM: extracting intuitive sequence-structure motifs from high-throughput RNA-binding protein data. Nucleic Acids Research (London) 45 (19), pp. 11004 - 11018 (2017)
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19.Journal ArticleStochastics of Cellular Differentiation Explained by Epigenetics: The Case of T-Cell Differentiation and Functional Plasticity. Scand J Immunol 86 (4), pp. 184 - 195 (2017)
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20.Journal ArticleComposition and dosage of a multipartite enhancer cluster control developmental expression of Ihh (Indian hedgehog). Nature Genetics 49 (10), pp. 1539 - 1545 (2017)