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.

 

TiSA: TimeSeriesAnalysis-a pipeline for the analysis of longitudinal transcriptomics data

Lefol Y, Korfage T, Mjelle R, Prebensen C, Lüders T, Müller B, Krokan H, Sarno A, Alsøe L, CONSORTIUM LEMONAID, Berdal JE, Sætrom P, Nilsen H, Domanska D (2023) 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

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.