Sinan U Umu, Karoline Rapp Vander-Elst, Victoria T Karlsen, Manto Chouliara, Espen Sønderaal Bækkevold, Frode Lars Jahnsen, Diana Domanska, Cellsnake: a user-friendly tool for single-cell RNA sequencing analysis, GigaScience, Volume 12, 2023, giad091, https://doi.org/10.1093/gigascience/giad091
Publications
hGSuite HyperBrowser: A web-based toolkit for hierarchical metadata-informed analysis of genomic tracks
Kalyanasundaram S, Lefol Y, Gundersen S, Rognes T, Alsøe L, Nilsen HL, Hovig E, Sandve GK, Domanska D. hGSuite HyperBrowser: A web-based toolkit for hierarchical metadata-informed analysis of genomic tracks. PLoS One. 2023 Jul 19;18(7):e0286330. doi: 10.1371/journal.pone.0286330. PMID: 37467208; PMCID: PMC10355376.
A Roadmap for the Human Gut Cell Atlas
Zilbauer, M., James, K.R., Kaur, M. et al. A Roadmap for the Human Gut Cell Atlas. Nat Rev Gastroenterol Hepatol 20, 597–614 (2023). https://doi.org/10.1038/s41575-023-00784-1
TiSA: TimeSeriesAnalysis-a pipeline for the analysis of longitudinal transcriptomics data
TiSA: TimeSeriesAnalysis-a pipeline for the analysis of longitudinal transcriptomics data, NAR Genom Bioinform, 5 (1), DOI 10.1093/nargab/lqad020, PubMed 36879899
MirGeneDB 2.1: toward a complete sampling of all major animal phyla
Bastian Fromm, Eirik Høye, Diana Domanska, Xiangfu Zhong, Ernesto Aparicio-Puerta, Vladimir Ovchinnikov, Sinan U Umu, Peter J Chabot, Wenjing Kang, Morteza Aslanzadeh,
Marcel Tarbier, Emilio Mármol-Sánchez, Gianvito Urgese, Morten Johansen, Eivind Hovig, Michael Hackenberg, Marc R Friedländer, Kevin J Peterson, MirGeneDB 2.1: toward a complete sampling of all major animal phyla, Nucleic Acids Research, Volume 50, Issue D1, 7 January 2022, Pages D204–D210, https://doi.org/10.1093/nar/gkab1101
A comprehensive framework for analysis of microRNA sequencing data in metastatic colorectal cancer
Eirik Høye, Bastian Fromm, Paul HM Böttger, Diana Domanska, Annette Torgunrud, Christin Lund-Andersen, Torveig Weum Abrahamsen, Åsmund Avdem Fretland, Vegar J Dagenborg, Susanne Lorenz, Bjørn Edwin, Eivind Hovig, Kjersti Flatmark, A comprehensive framework for analysis of microRNA sequencing data in metastatic colorectal cancer, NAR Cancer, Volume 4, Issue 1, March 2022, zcab051, https://doi.org/10.1093/narcan/zcab051
Single-cell transcriptomic analysis of human colonic macrophages reveals niche-specific subsets
Diana Domanska, Umair Majid, Victoria T. Karlsen, Marianne A. Merok, Ann-Christin Røberg Beitnes, Sheraz Yaqub, Espen S. Bækkevold, Frode L. Jahnsen; Single-cell transcriptomic analysis of human colonic macrophages reveals niche-specific subsets. J Exp Med 7 March 2022; 219 (3): e20211846. doi: https://doi.org/10.1084/jem.20211846
Calprotectin expressing donor-derived macrophages increase in acute gastrointestinal graft versus host disease
Aasebo AT, Gedde- Dahl T, Reims HM, Baekkevold ES, Jahnsen FL,
Calprotectin expressing donor-derived macrophages increase in acute gastrointestinal graft versus host disease, Transplantation and Cellular Therapy, 2022, ISSN 2666-6367, https://doi.org/10.1016/j.jtct.2022.01.028.
The uracil-DNA glycosylase UNG protects the fitness of normal and cancer B cells expressing AID
Safavi S, Larouche A, Zahn A, Patenaude AM, Domanska D, Dionne K, Rognes T, Dingler F, Kang SK, Liu Y, Johnson N, Hébert J, Verdun RE, Rada CA, Vega F, Nilsen H, Di Noia JM. The uracil-DNA glycosylase UNG protects the fitness of normal and cancer B cells expressing AID. NAR Cancer. 2020 Aug 27;2(3):zcaa019. doi: 10.1093/narcan/zcaa019. Erratum in: NAR Cancer. 2021 Jan 06;3(1):zcaa045. PMID: 33554121; PMCID: PMC7848951.
Origin of langerin (CD207)-expressing antigen presenting cells in the normal oral mucosa and in oral lichen planus lesions
Solhaug MB, Schreurs O, Schenck K, Blix IJ, Baekkevold ES (2021). Origin of langerin (CD207)-expressing antigen presenting cells in the normal oral mucosa and in oral lichen planus lesions. Eur J Oral Sci.
PubMed 34935212 DOI 10.1111/eos.12835