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Showing results 1-19 of 19

2020
1 Di Stefano, Marco; Paulsen, Jonas; Jost, Daniel; Marti-Renom, Marc A..
4D nucleome modeling. Current Opinion in Genetics and Development 2020 ;Volume 67. p. 25-32
UiO Untitled
 
2019
2 Paulsen, Jonas; Liyakat Ali, Tharvesh Moideen; Nekrasov, Maxim; Delbarre, Erwan; Baudement, Marie-Odile; Kurscheid, Sebastian; Tremethick, David; Collas, Philippe.
Long-range interactions between topologically associating domains shape the four-dimensional genome during differentiation. Nature Genetics 2019 ;Volume 51.(5) p. 835-843
OUS UiO Untitled
 
2018
3 Briand, Nolwenn; Cahyani, Inswasti; Madsen-Østerbye, Julia-Kristina Jensen; Paulsen, Jonas; Rønningen, Torunn; Sørensen, Anita Løvstad; Collas, Philippe.
Lamin A, Chromatin and FPLD2:Not ust a Peripheral Ménage-à-Trois.. Frontiers in Cell and Developmental Biology 2018 ;Volume 6. p. -
OUS UiO Untitled
 
4 Briand, Nolwenn; Guénantin, Anne-Claire; Jeziorowska, Dorota; Shah, Akshay; Mantecon, Matthieu; Capel, Emilie; Garcia, Maria; Oldenburg, Anja; Paulsen, Jonas; Hulot, Jean-Sébastien; Vigouroux, Corinne; Collas, Philippe.
The lipodystrophic hotspot lamin A p.R482W mutation deregulates the mesodermal inducer T/Brachyury and early vascular differentiation gene networks. Human Molecular Genetics 2018 ;Volume 27.(8) p. 1447-1459
OUS UiO Untitled
 
5 Paulsen, Jonas; Liyakat Ali, Tharvesh Moideen; Collas, Philippe.
Computational 3D genome modeling using Chrom3D. Nature Protocols 2018 ;Volume 13.(5) p. 1137-1152
OUS UiO Untitled
 
2017
6 Garcia-Nieto, Pablo E; Schwartz, Erin K; King, Devin A; Paulsen, Jonas; Collas, Philippe; Herrera, Rafael E; Morrison, Ashby J.
Carcinogen susceptibility is regulated by genome architecture and predicts cancer mutagenesis. EMBO Journal 2017 ;Volume 36.(19) p. 2829-2843
UiO Untitled
 
7 Paulsen, Jonas; Sekelja, Monika; Oldenburg, Anja; Barateau, Alice; Briand, Nolwenn; Delbarre, Erwan; Shah, Akshay; Sørensen, Anita Løvstad; Vigouroux, Corinne; Buendia, Brigitte; Collas, Philippe.
Chrom3D: Three-dimensional genome modeling from Hi-C and nuclear lamin-genome contacts. Genome Biology 2017 ;Volume 18:21. p. 1-15
OUS UiO Untitled
 
2016
8 Børnich, Claus; Grytten, Ivar; Hovig, Johannes Eivind; Paulsen, Jonas; Cech, Martin; Sandve, Geir Kjetil.
Galaxy Portal: Interacting with the galaxy platform through mobile devices. Bioinformatics 2016 ;Volume 32.(11) p. 1743-1745
OUS UiO Untitled
 
9 Di Stefano, Marco; Paulsen, Jonas; Lien, Tonje Gulbrandsen; Hovig, Johannes Eivind; Micheletti, Cristian.
Hi-C-constrained physical models of human chromosomes recover functionally-related properties of genome organization. Scientific Reports 2016 ;Volume 6.
OUS UiO Untitled
 
10 Sekelja, Monika; Paulsen, Jonas; Collas, Philippe.
4D nucleomes in single cells: What can computational modeling reveal about spatial chromatin conformation?. Genome Biology 2016 ;Volume 17:54. p. -
UiO Untitled
 
2015
11 Paulsen, Jonas; Gramstad, Odin; Collas, Philippe.
Manifold Based Optimization for Single-Cell 3D Genome Reconstruction. PLoS Computational Biology 2015 ;Volume 11.(8)
UiO Untitled
 
2014
12 Håkelien, Anne-Mari; Bryne, Jan Christian; Harstad, Kristine Gjul; Lorenz, Susanne; Paulsen, Jonas; Sun, Jinchang; Mikkelsen, Tarjei S.; Myklebost, Ola; Meza, Leonardo Zepeda.
The regulatory landscape of osteogenic differentiation. Stem Cells 2014 ;Volume 32.(10) p. 2780-2793
OUS UiO Untitled
 
13 Paulsen, Jonas.
Inferential analysis of genomic 3D organization. Akademika forlag 2014 (ISBN 978-82-8264-950-6) 143 p.
UiO Untitled
 
14 Paulsen, Jonas; Rødland, Einar Andreas; Holden, Lars; Holden, Marit; Hovig, Johannes Eivind.
A statistical model of ChIA-PET data for accurate detection of chromatin 3D interactions. Nucleic Acids Research (NAR) 2014 ;Volume 42.(18) p. e143-
NR OUS Untitled
 
15 Paulsen, Jonas; Sandve, Geir Kjetil F.; Gundersen, Sveinung; Lien, Tonje Gulbrandsen; Trengereid, Kai; Hovig, Johannes Eivind.
HiBrowse: Multi-purpose statistical analysis of genome-wide chromatin 3D organization. Bioinformatics 2014 ;Volume 30.(11) p. 1620-1622
OUS UiO Untitled
 
2013
16 Sandve, Geir Kjetil; Gundersen, Sveinung; Johansen, Morten; Glad, Ingrid Kristine; Gunathasan, Krishanthi; Holden, Lars; Holden, Marit; Liestøl, Knut; Nygård, Ståle; Nygaard, Vegard; Paulsen, Jonas; Rydbeck, Halfdan; Trengereid, Kai; Clancy, Trevor; Drabløs, Finn; Ferkingstad, Egil; Kalaš, Matúš; Lien, Tonje Gulbrandsen; Rye, Morten Beck; Frigessi, Arnoldo; Hovig, Johannes Eivind.
The Genomic HyperBrowser: an analysis web server for genome-scale data. Nucleic Acids Research (NAR) 2013 ;Volume 41.(W1) p. W133-W141
NORCE NR NTNU OUS UiB UiO UiT Untitled
 
17 Paulsen, Jonas; Lien, Tonje Gulbrandsen; Sandve, Geir Kjetil; Holden, Lars; Borgan, Ørnulf; Glad, Ingrid Kristine; Hovig, Johannes Eivind.
Handling realistic assumptions in hypothesis testing of 3D co-localization of genomic elements. Nucleic Acids Research (NAR) 2013 ;Volume 41.(10) p. 5164-5174
NR OUS UiO Untitled
 
2012
18 Nordstrand, Line Mari; Furu, Kari; Paulsen, Jonas; Rognes, Torbjørn; Klungland, Arne.
Alkbh1 and Tzfp repress a non-repeat piRNA cluster in pachytene spermatocytes. Nucleic Acids Research (NAR) 2012 ;Volume 40.(21) p. 10950-10963
OUS UiO Untitled
 
2011
19 Star, Bastiaan; Nederbragt, Alexander Johan; Jentoft, Sissel; Grimholt, Unni; Malmstrøm, Martin; Gregers, Tone Fredsvik; Rounge, Trine Ballestad; Solbakken, Monica Hongrø; Paulsen, Jonas; Lagesen, Karin; Tooming-Klunderud, Ave; Tina, Kirubakaran G.; Espelund, Mari; Skage, Morten; Berg, Paul Ragnar; Omholt, Stig W; Stenseth, Nils Christian; Jakobsen, Kjetill Sigurd.
The genome of Atlantic cod reveals a unique immune system. ESEB; 2011-09-20 - 2011-09-25
FFI OUS UiB UiO Untitled