Publications

Full list of publications: PubMed

Recent publications:
(* denotes equal contribution, $ denotes corresponding author)

  • Ehrlund A, Mejhert N, Björk C, Andersson R, et al. 2016. Transcriptional Dynamics During Human Adipogenesis and its Link to Adipose Morphology and Distribution. Diabetes. 2016. DOI | PubMed
  • Lizio M, Harshbarger J, Abugessaisa I, Noguchi S, Kondo A, Severin J, Mungall C, Arenillas D, Mathelier A, Medvedeva YA, Lennartsson A, Drablos F, Ramilowski JA, Rackham O, Gough J, Andersson R, Sandelin A, Ienasescu H, Ono H, Bono H, Hayashizaki Y, Carninci P, Forrest ARR, Kasukawa T, Kawaji H. 2016. Update of the FANTOM web resource: high resolution transcriptome of diverse cell types in mammals. Nucleic Acids Res. 2016. DOI | PubMed
  • Chen Y, Pai AA, Herudek J, Lubas M, Meola N, Järvelin AI, Andersson R, Pelechano V, Steinmetz LM, Jensen TH, Sandelin A. Principles for RNA metabolism and alternative transcription initiation within closely spaced promoters. Nat Genet. 2016 Sep;48(9):984-94. DOI | PubMed
  • Persson J, Steglich B, Smialowska A, Boyd M, Bornholdt J, Andersson R, et al. Regulating retrotransposon activity through the use of alternative transcription start sites. EMBO reports. 2016; 17(5):753-68. DOI | PubMed
  • Kaczkowski B, Tanaka Y, Kawaji H, Sandelin A, Andersson R, et al. Transcriptome analysis of recurrently deregulated genes across multiple cancers identifies new pan-cancer biomarkers. Cancer research. 2016; 76(2):216-26. DOI | PubMed
  • Lennartsson A, Arner E, Fagiolini M, Saxena A, Andersson R, et al. Remodeling of retrotransposon elements during epigenetic induction of adult visual cortical plasticity by HDAC inhibitors. Epigenetics & chromatin. 2015; 8:55. DOI | PubMed
  • Andersson R*, Chen Y*, Core L, Lis JT, Sandelin A, Jensen TH. Human Gene Promoters Are Intrinsically Bidirectional. Mol Cell. 2015 Nov 5;60(3):346-347. DOI | PubMed
  • Andersson R$, Sandelin A, Danko CG$. A Unified Architecture of Transcriptional Regulatory Elements. Trends Genet. 2015 Aug;31(8):426-33. DOI | PubMed | preprint
  • Young RS, Hayashizaki Y, Andersson R, et al. The frequent evolutionary birth and death of functional promoters in mouse and human. Genome Res. 2015 Jul 30. pii: gr.190546.115. DOI | PubMed
  • Andersson R$. Promoter or enhancer, what’s the difference? Deconstruction of established distinctions and presentation of a unifying model. Bioessays. 2015 Mar;37(3):314-23. DOIPubMed
  • Arner E*, Daub CO*, Vitting-Seerup K*, Andersson R*, et al. Transcribed enhancers lead waves of coordinated transcription in transitioning mammalian cells. Science. 2015 Feb 27;347(6225):1010-4. DOI | PubMed
  • Vitezic M, Bertin N, Andersson R, et al. CAGE-defined promoter regions of the genes implicated in Rett Syndrome. BMC Genomics. 2014 Dec 24;15(1):1177. DOI | PubMed
  • Boyd M, Coskun M, Lilje B, Andersson R, et al. Identification of TNF-α-Responsive Promoters and Enhancers in the Intestinal Epithelial Cell Model Caco-2. DNA Res. 2014 Dec;21(6):569-83. DOI | PubMed.
  • Andersson R*, Refsing Andersen P*, et al. Nuclear stability and transcriptional directionality separate functionally distinct RNA species. Nat Commun. 2014 Nov 12;5:5336. DOIPubMed | preprint
  • Fort A, Hashimoto K, Yamada D, Salimullah M, Keya CA, Saxena A, Bonetti A, Voineagu I, Bertin N, Kratz A, Noro Y, Wong CH, de Hoon M, Andersson R, et al. Deep transcriptome profiling of mammalian stem cells supports a regulatory role for retrotransposons in pluripotency maintenance. Nat Genet. 2014 Jun;46(6):558-66. DOI | PubMed
  • Davis MR, Andersson R, et al. Transcriptional profiling of the human fibrillin/LTBP gene family, key regulators of mesenchymal cell functions. Mol Genet Metab. 2014 May;112(1):73-83. DOIPubMed
  • Rönnerblad M, Andersson R, et al. Analysis of the DNA methylome and transcriptome in granulopoiesis reveals timed changes and dynamic enhancer methylation. Blood. 2014 Apr 24;123(17):e79-89. DOIPubMed
  • FANTOM Consortium and the RIKEN PMI and CLST (DGT). A promoter-level mammalian expression atlas. Nature. 2014 Mar 27;507(7493):462-70. DOI | PubMed | Data
  • Andersson R*, Gebhard C*, et al. An atlas of active enhancers across human cell types and tissues. Nature. 2014 Mar 27;507(7493):455-61. DOIPubMed | Data
  • Pedersen JS, Valen E, Velazquez AM, Parker BJ, Rasmussen M, Lindgreen S, Lilje B, Tobin DJ, Kelly TK, Vang S, Andersson R, et al. Genome-wide nucleosome map and cytosine methylation levels of an ancient human genome. Genome Res. 2014 Mar;24(3):454-66. DOIPubMed
  • Enroth S*, Andersson R*, et al. Nucleosome regulatory dynamics in response to TGFβ. Nucleic Acids Res. 2014;42(11):6921-34. DOIPubMed
  • Ntini E, Järvelin AI, Bornholdt J, Chen Y, Boyd M, Jørgensen M, Andersson R, et al. Polyadenylation site-induced decay of upstream transcripts enforces promoter directionality. Nat Struct Mol Biol. 2013 Aug;20(8):923-8. DOI | PubMed

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