Hjem
Vitenskapelig artikkel
  • 2019. Transcription start site mapping using super-low input carrier-CAGE. Journal of Visualized Experiments.
  • 2019. Saccharomyces cerevisiae displays a stable transcription start site landscape in multiple conditions. FEMS Yeast Research. 1-10.
  • 2019. JASPAR 2020: update of the open-access database of transcription factor binding profiles. Nucleic Acids Research. 87-92.
  • 2019. Feedforward regulation of Myc coordinates lineage-specific with housekeeping gene expression during B cell progenitor cell differentiation. PLoS Biology. 1-28.
  • 2019. DNA stretching induces Cas9 off-target activity. Nature Structural & Molecular Biology. 185-192.
  • 2019. CNEr: A toolkit for exploring extreme noncoding conservation. PLoS Computational Biology. 1-16.
  • 2019. A novel measure of non-coding genome conservation identifies genomic regulatory blocks within primates. Bioinformatics. 2354-2361.
  • 2018. SLIC-CAGE: high-resolution transcription start site mapping using nanogram-levels of total RNA. Genome Research. 1943-1956.
  • 2018. Integrated analysis sheds light on evolutionary trajectories of young transcription start sites in the human genome. Genome Research. 676-688.
  • 2018. Distinct core promoter codes drive transcription initiation at key developmental transitions in a marine chordate. BMC Genomics. 12 sider.
  • 2018. Amphioxus functional genomics and the origins of vertebrate gene regulation. Nature. 64-70.
  • 2017. Transcriptional memory of cells of origin overrides β‐catenin requirement of MLL cancer stem cells. EMBO Journal. 3139-3155.
  • 2017. Topologically associating domains are ancient features that coincide with Metazoan clusters of extreme noncoding conservation. Nature Communications. 1-13.
  • 2015. Transcriptional, post-transcriptional and chromatin-associated regulation of pri-miRNAs, pre-miRNAs and moRNAs. Nucleic Acids Research. 3070-3081.
  • 2015. Trans-splicing and operons in metazoans: Translational control in maternally regulated development and recovery from growth arrest. Molecular biology and evolution. 585-599.
  • 2015. Long-range evolutionary constraints reveal cis-regulatory interactions on the human X chromosome. Nature Communications.
  • 2015. Copy number variants in patients with intellectual disability affect the regulation of ARX transcription factor gene. Human Genetics. 1163-1182.
  • 2015. CAGEr: Precise TSS data retrieval and high-resolution promoterome mining for integrative analyses. Nucleic Acids Research.
  • 2014. Two independent transcription initiation codes overlap on vertebrate core promoters. Nature. 381-385.
  • 2014. NanoCAGE analysis of the mouse olfactory epithelium identifies the expression of vomeronasal receptors and of proximal LINE elements. Frontiers in Cellular Neuroscience.
  • 2014. JASPAR 2014: An extensively expanded and updated open-access database of transcription factor binding profiles. Nucleic Acids Research. D142-D147.
  • 2014. HBS1L-MYB intergenic variants modulate fetal hemoglobin via long-range MYB enhancers. Journal of Clinical Investigation. 1699-1710.
  • 2014. Computational characterization of modes of transcriptional regulation of nuclear receptor genes. PLOS ONE.
  • 2014. A promoter-level mammalian expression atlas. Nature. 462-470.
  • 2014. A cohesin-independent role for NIPBL at promoters provides insights in CdLS. PLoS Genetics.
  • 2013. r3Cseq: an R/Bioconductor package for the discovery of long-range genomic interactions from chromosome conformation capture and next-generation sequencing data. Nucleic Acids Research. 12 sider.
  • 2013. The Aurora B Kinase and the Polycomb Protein Ring1B Combine to Regulate Active Promoters in Quiescent Lymphocytes. Molecular Cell. 647-661.
  • 2013. Patterns of regulatory activity across diverse human cell types predict tissue identity, transcription factor binding, and long-range interactions. Genome Research. 777-788.
  • 2013. OikoBase: a genomics and developmental transcriptomics resource for the urochordate Oikopleura dioica. Nucleic Acids Research. D845-D853.
  • 2013. In vivo live imaging of RNA polymerase II transcription factories in primary cells. Genes & Development. 767-777.
  • 2013. Genomewide DNA Methylation Analysis Identifies Novel Methylated Genes in Non-Small-Cell Lung Carcinomas. Journal of Thoracic Oncology. 562-573.
  • 2013. Genome-wide, whole mount in situ analysis of transcriptional regulators in zebrafish embryos. Developmental Biology. 351-362.
  • 2013. Genome-wide analysis shows that Ldb1 controls essential hematopoietic genes/pathways in mouse early development and reveals novel players in hematopoiesis. Blood. 2902-2913.
  • 2013. Dynamic regulation of the transcription initiation landscape at single nucleotide resolution during vertebrate embryogenesis. Genome Research. 1938-1950.
  • 2013. Chromatin and epigenetic features of long-range gene regulation. Nucleic Acids Research. 7185-7199.
  • 2012. The male germ cell gene regulator CTCFL is functionally different from CTCF and binds CTCF-like consensus sites in a nucleosome composition-dependent manner. Epigenetics & Chromatin. 21 sider.
  • 2012. The accessible chromatin landscape of the human genome. Nature. 75-82.
  • 2012. Promoter architecture of mouse olfactory receptor genes. Genome Research. 486-497.
  • 2012. Genome-wide DNA methylation profiling of non-small cell lung carcinomas. Epigenetics & Chromatin. 18 sider.
  • 2012. Dynamic long-range chromatin interactions control Myb proto-oncogene transcription during erythroid development. EMBO Journal. 986-999.
  • 2012. A novel complex, RUNX1-MYEF2, represses hematopoietic genes in erythroid cells. Molecular and Cellular Biology. 3814-3822.
  • 2011. The DNA-binding protein CTCF limits proximal V kappa recombination and restricts kappa enhancer interactions to the immunoglobulin kappa light chain locus. Immunity. 501-513.
  • 2011. Sox2 cooperates with Chd7 to regulate genes that are mutated in human syndromes. Nature Genetics. 607-U153.
  • 2011. Making enhancers from spare parts of the genome. Genome Biology. 4 sider.
  • 2011. Dissecting the Transcriptional Regulatory Properties of Human Chromosome 16 Highly Conserved Non-Coding Regions. PLOS ONE. 9 sider.
  • 2010. Translog, a web browser for studying the expression divergence of homologous genes. BMC Bioinformatics. 7 sider.
  • 2010. The genome-wide dynamics of the binding of Ldb1 complexes during erythroid differentiation. Genes & Development. 277-289.
  • 2010. Regulatory divergence of the duplicated chromosomal loci sox11a/b by subpartitioning and sequence evolution of enhancers in zebrafish. Molecular Genetics and Genomics. 171-184.
  • 2010. Plasticity of Animal Genome Architecture Unmasked by Rapid Evolution of a Pelagic Tunicate. Science. 1381-1385.
  • 2010. Long-range gene regulation links genomic type 2 diabetes and obesity risk regions to HHEX, SOX4, and IRX3. Proceedings of the National Academy of Sciences of the United States of America. 775-780.
  • 2010. JASPAR 2010: the greatly expanded open-access database of transcription factor binding profiles. Nucleic Acids Research. D105-D110.
  • 2010. Exonic remnants of whole-genome duplication reveal cis-regulatory function of coding exons. Nucleic Acids Research. 1071-1085.
  • 2010. An Atlas of Combinatorial Transcriptional Regulation in Mouse and Man. Cell. 744-752.
  • 2009. Zebrafish enhancer detection (ZED) vector: A new tool to facilitate transgenesis and the functional analysis of cis-regulatory regions in zebrafish. Developmental Dynamics. 2409-2417.
  • 2009. Transcriptional features of genomic regulatory blocks. Genome Biology. 13 sider.
  • 2009. The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line. Nature Genetics. 553-562.
  • 2009. Systematic human/zebrafish comparative identification of cis-regulatory activity around vertebrate developmental transcription factor genes. Developmental Biology. 526-540.
  • 2009. Synorth: exploring the evolution of synteny and long-range regulatory interactions in vertebrate genomes. Genome Biology. 36 sider.
  • 2009. Regulatory divergence of the duplicated chromosomal loci sox11a/b by subpartitioning and sequence evolution of enhancers in zebrafish. Molecular Genetics and Genomics. 171-184.
  • 2009. CpG-depleted promoters harbor tissue-specific transcription factor binding signals-implications for motif overrepresentation analyses. Nucleic Acids Research. 6305-6315.
  • 2008. JASPAR, the open access database of transcription factor-binding profiles: new content and tools in the 2008 update. Nucleic Acids Research. D102-D106.
  • 2008. In silico detection of sequence variations modifying transcriptional regulation. PLoS Computational Biology. 12 sider.
  • 2008. Ancora: a web resource for exploring highly conserved noncoding elements and their association with developmental regulatory genes. Genome Biology.
  • 2007. RNAdb 2.0-an expanded database of mammalian non-coding RNAs. Nucleic Acids Research. D178-D182.
  • 2007. In vivo transcript profiling and phylogenetic analysis identifies suppressor of cytokine signaling 2 as a direct signal transducer and activator of transcription 5b target in liver. Molecular Endocrinology. 293-311.
  • 2007. Genomic regulatory blocks underlie extensive microsynteny conservation in insects. Genome Research. 1898-1908.
  • 2007. Genomic regulatory blocks encompass multiple neighboring genes and maintain conserved synteny in vertebrates. Genome Research. 545-555.
  • 2006. Transcriptional and structural impact of TATA-initiation site spacing in mammalian core promoters. Genome Biology. 78.
  • 2006. Complex loci in human and mouse genomes. PLoS Genetics.
  • 2006. A new generation of JASPAR, the open-access repository for transcription factor binding site profiles. Nucleic Acids Research. D95-D97.
  • 2006. A global genomic transcriptional code associated with CNS-expressed genes. Experimental Cell Research. 3108-3119.
Leder
  • 2012. Dissecting genomic regulatory elements in vivo. Nature Biotechnology. 504-506.
Doktorgradsavhandling
  • 2016. Nuclear Receptor Genes - Regulation and Evolution.
  • 2015. Determining the regulatory roles of transcription factor complexes by analysis of high throughput sequencing data. Development of analysis methods and their application.
Sammendrag/abstract
  • 2014. Promoter architecture of mouse olfactory receptor genes. Chemical Senses. 79-79.
Poster
  • 2014. High-resolution promoterome mining and differential transcription start site usage analysis reveal unexpected features of vertebrate promoters.
  • 2012. Two independent transcription initiation codes act in overlap on core promoters during vertebrate development.
Vitenskapelig oversiktsartikkel/review
  • 2019. Understanding the genetics of neuropsychiatric disorders: the potential role of genomic regulatory blocks. 1-13.
  • 2017. Conserved non-coding elements: Developmental gene regulation meets genome organization. 12611-12624.
  • 2016. Promoter architectures and developmental gene regulation. 11-23.
  • 2012. Metazoan promoters: emerging characteristics and insights into transcriptional regulation. 233-245.
  • 2007. The random versus fragile breakage models of chromosome evolution: a matter of resolution. 487-491.
  • 2006. New technologies, new findings, and new concepts in the study of vertebate cis-regulatory sequences. 870-885.

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