| Dynamic rewiring of promoter-anchored chromatin loops during adipocyte differentiation R Siersbæk, JGS Madsen, BM Javierre, R Nielsen, EK Bagge, J Cairns, ... Molecular cell 66 (3), 420-435. e5, 2017 | 205 | 2017 |
| Plasticity of epididymal adipose tissue in response to diet-induced obesity at single-nucleus resolution AK Sárvári, EL Van Hauwaert, LK Markussen, E Gammelmark, ... Cell metabolism 33 (2), 437-453. e5, 2021 | 188 | 2021 |
| Osteogenesis depends on commissioning of a network of stem cell transcription factors that act as repressors of adipogenesis A Rauch, AK Haakonsson, JGS Madsen, M Larsen, I Forss, MR Madsen, ... Nature genetics 51 (4), 716-727, 2019 | 178 | 2019 |
| Browning of human adipocytes requires KLF11 and reprogramming of PPARγ superenhancers A Loft, I Forss, MS Siersbæk, SF Schmidt, ASB Larsen, JGS Madsen, ... Genes & development 29 (1), 7-22, 2015 | 148 | 2015 |
| RNA-seq and mass-spectrometry-based lipidomics reveal extensive changes of glycerolipid pathways in brown adipose tissue in response to cold AB Marcher, A Loft, R Nielsen, T Vihervaara, JGS Madsen, M Sysi-Aho, ... Cell reports 13 (9), 2000-2013, 2015 | 90 | 2015 |
| Acute TNF-induced repression of cell identity genes is mediated by NFκB-directed redistribution of cofactors from super-enhancers SF Schmidt, BD Larsen, A Loft, R Nielsen, JGS Madsen, S Mandrup Genome research 25 (9), 1281-1294, 2015 | 83 | 2015 |
| iRNA-seq: computational method for genome-wide assessment of acute transcriptional regulation from total RNA-seq data JGS Madsen, SF Schmidt, BD Larsen, A Loft, R Nielsen, S Mandrup Nucleic acids research 43 (6), e40-e40, 2015 | 69 | 2015 |
| Highly interconnected enhancer communities control lineage-determining genes in human mesenchymal stem cells JGS Madsen, MS Madsen, A Rauch, S Traynor, EL Van Hauwaert, ... Nature Genetics 52 (11), 1227-1238, 2020 | 64 | 2020 |
| The KDM5 family is required for activation of pro-proliferative cell cycle genes during adipocyte differentiation ASB Brier, A Loft, JGS Madsen, T Rosengren, R Nielsen, SF Schmidt, ... Nucleic acids research 45 (4), 1743-1759, 2017 | 56 | 2017 |
| Integrated analysis of motif activity and gene expression changes of transcription factors JGS Madsen, A Rauch, EL Van Hauwaert, SF Schmidt, M Winnefeld, ... Genome research 28 (2), 243-255, 2018 | 52 | 2018 |
| Integrative genomics outlines a biphasic glucose response and a ChREBP-RORγ axis regulating proliferation in β cells SF Schmidt, JGS Madsen, KØ Frafjord, L la Cour Poulsen, S Salö, ... Cell reports 16 (9), 2359-2372, 2016 | 40 | 2016 |
| Lipolysis regulates major transcriptional programs in brown adipocytes LK Markussen, EA Rondini, OS Johansen, JGS Madsen, EG Sustarsic, ... Nature Communications 13 (1), 3956, 2022 | 21 | 2022 |
| AMPK profiling in rodent and human pancreatic beta-cells under nutrient-rich metabolic stress T Brun, C Jiménez-Sánchez, JGS Madsen, N Hadadi, D Duhamel, ... International Journal of Molecular Sciences 21 (11), 3982, 2020 | 20 | 2020 |
| Isolation of nuclei from mouse white adipose tissues for single-nucleus genomics EL Van Hauwaert, E Gammelmark, AK Sárvári, L Larsen, R Nielsen, ... STAR protocols 2 (3), 100612, 2021 | 17 | 2021 |
| Glucolipotoxicity promotes the capacity of the glycerolipid/NEFA cycle supporting the secretory response of pancreatic beta cells L Oberhauser, C Jiménez-Sánchez, JGS Madsen, D Duhamel, ... Diabetologia, 1-16, 2022 | 15 | 2022 |
| Author correction: osteogenesis depends on commissioning of a network of stem cell transcription factors that act as repressors of adipogenesis A Rauch, AK Haakonsson, JGS Madsen, M Larsen, I Forss, MR Madsen, ... Nature Genetics 51 (4), 766-766, 2019 | 4 | 2019 |
| Automatic quality control of single-cell and single-nucleus RNA-seq using valiDrops G Kavaliauskaite, JGS Madsen NAR Genomics and Bioinformatics 5 (4), lqad101, 2023 | 3 | 2023 |
| JOINTLY: interpretable joint clustering of single-cell transcriptomes AF Møller, JGS Madsen Nature Communications 14 (1), 8473, 2023 | 1 | 2023 |
| Rare variant association analysis in 51,256 type 2 diabetes cases and 370,487 controls informs the spectrum of pathogenicity of monogenic diabetes genes P Schroeder, R Mandla, A Huerta-Chagoya, A Alkanak, D Nagy, ... medRxiv, 2023 | 1 | 2023 |
| Interpretable joint clustering of single-cell transcriptomes J Madsen, A Møller | | 2023 |
