Researcher profile · Semantic Scholar

Jonas Paulsen

h-index: 17
Works: 30
Citations: 1,866

Most-cited papers

The genome sequence of Atlantic cod reveals a unique immune system
Bastiaan Star, A. Nederbragt, S. Jentoft, U. Grimholt +38 more
2011Nature777 citations Open access
Semantic Scholar
Chrom3D: three-dimensional genome modeling from Hi-C and nuclear lamin-genome contacts
Jonas Paulsen, M. Sekelja, Anja R. Oldenburg, Alice Barateau +7 more
2017Genome Biology181 citations Open access
Semantic Scholar
Long-range interactions between topologically associating domains shape the four-dimensional genome during differentiation
Jonas Paulsen, Tharvesh M. Liyakat Ali, Maxim Nekrasov, E. Delbarre +4 more
2019Nature Genetics116 citations
Semantic Scholar
The Regulatory Landscape of Osteogenic Differentiation
A. Håkelien, Jan Christian Bryne, Kristine G. Harstad, S. Lorenz +5 more
2014Stem Cells96 citations
Semantic Scholar
Potentials of Mean Force for Protein Structure Prediction Vindicated, Formalized and Generalized
T. Hamelryck, M. Borg, M. Paluszewski, Jonas Paulsen +5 more
2010PLoS ONE81 citations Open access
Semantic Scholar
Carcinogen susceptibility is regulated by genome architecture and predicts cancer mutagenesis
Pablo E. García-Nieto, Erin K Schwartz, Devin A. King, Jonas Paulsen +3 more
2017EMBO Journal78 citations Open access
Semantic Scholar
Hi-C-constrained physical models of human chromosomes recover functionally-related properties of genome organization
M. Di Stefano, Jonas Paulsen, T. Lien, E. Hovig +1 more
2016Scientific Reports68 citations Open access
Semantic Scholar
A statistical model of ChIA-PET data for accurate detection of chromatin 3D interactions
Jonas Paulsen, E. Rødland, L. Holden, M. Holden +1 more
2014Nucleic Acids Research59 citations Open access
Semantic Scholar
Computational 3D genome modeling using Chrom3D
Jonas Paulsen, Tharvesh M. Liyakat Ali, P. Collas
2018Nature Protocols53 citations Open access
Semantic Scholar
Manifold Based Optimization for Single-Cell 3D Genome Reconstruction
Jonas Paulsen, O. Gramstad, P. Collas
2015PLoS Comput. Biol.47 citations Open access
Semantic Scholar
HiBrowse: multi-purpose statistical analysis of genome-wide chromatin 3D organization
Jonas Paulsen, G. K. Sandve, Sveinung Gundersen, T. Lien +2 more
2014Bioinform.42 citations Open access
Semantic Scholar
4D nucleome modeling
M. Di Stefano, Jonas Paulsen, D. Jost, M. Martí-Renom
2020Current Opinion in Genetics and Development38 citations Open access
Semantic Scholar
The lipodystrophic hotspot lamin A p.R482W mutation deregulates the mesodermal inducer T/Brachyury and early vascular differentiation gene networks
N. Briand, Anne-Claire Guénantin, D. Jeziorowska, Akshay Shah +8 more
2018Human Molecular Genetics36 citations Open access
Semantic Scholar
The Genomic HyperBrowser: an analysis web server for genome-scale data
G. K. Sandve, Sveinung Gundersen, Morten Johansen, I. Glad +17 more
2013Nucleic Acids Res.34 citations Open access
Semantic Scholar
An assessment of mitochondrial variation in Arctic gadoids
S. Pálsson, T. Källman, Jonas Paulsen, E. Árnason
2009Polar Biology31 citations
Semantic Scholar
Handling realistic assumptions in hypothesis testing of 3D co-localization of genomic elements
Jonas Paulsen, T. Lien, G. K. Sandve, L. Holden +3 more
2013Nucleic Acids Research27 citations Open access
Semantic Scholar
4D nucleomes in single cells: what can computational modeling reveal about spatial chromatin conformation?
M. Sekelja, Jonas Paulsen, P. Collas
2016Genome Biology22 citations Open access
Semantic Scholar
Alkbh1 and Tzfp repress a non-repeat piRNA cluster in pachytene spermatocytes
Line M. Nordstrand, K. Furu, Jonas Paulsen, Torbjørn Rognes +1 more
2012Nucleic Acids Research17 citations Open access
Semantic Scholar
MoDLE: high-performance stochastic modeling of DNA loop extrusion interactions
Roberto Rossini, Vipin Kumar, Anthony Mathelier, Torbjørn Rognes +1 more
2022bioRxiv14 citations Open access
Semantic Scholar
The shape of chromatin: insights from computational recognition of geometric patterns in Hi-C data
Andrea Raffo, Jonas Paulsen
2023Briefings Bioinform.12 citations Open access
Semantic Scholar
TAD cliques predict key features of chromatin organization
Tharvesh M. Liyakat Ali, Annaël Brunet, P. Collas, Jonas Paulsen
2020BMC Genomics10 citations Open access
Semantic Scholar
Eight principal chromatin states functionally segregate the fly genome into developmental and housekeeping roles
Caroline Delandre, John P. D. McMullen, Jonas Paulsen, P. Collas +1 more
2022bioRxiv6 citations Open access
Semantic Scholar
Galaxy Portal: interacting with the galaxy platform through mobile devices
Claus Børnich, Ivar Grytten, E. Hovig, Jonas Paulsen +2 more
2016Bioinform.6 citations Open access
Semantic Scholar
Rapid Evolution of the Intergenic T–P Spacer in the mtDNA of Arctic Cod Arctogadus glacialis
S. Pálsson, Jonas Paulsen, E. Árnason
2008Marine Biotechnology5 citations
Semantic Scholar
Lamin A, Chromatin and FPLD2: Not Just a Peripheral Ménage-à-Trois
N. Briand, Inswasti Cahyani, Julia Madsen-Østerbye, Jonas Paulsen +3 more
2018Front. Cell Dev. Biol.4 citations Open access
Semantic Scholar
Potentials of mean force for protein structure prediction vindicated and generalized
T. Hamelryck, M. Borg, M. Paluszewski, Jonas Paulsen +5 more
20103 citations
Semantic Scholar
Modeling the 3D Genome Using Hi-C and Nuclear Lamin-Genome Contacts.
Jonas Paulsen, P. Collas
2021Methods in molecular biology1 citations
Semantic Scholar
Inferential analysis of genomic 3D organization
Jonas Paulsen
20141 citations
Semantic Scholar
Three-dimensional topology of the genome: A computational modeling perspective
T. Moideen, Liyakath Ali, P. Collas, Jonas Paulsen +6 more
20200 citations
Semantic Scholar
Physical 3D Modeling of Whole Genomes: Exploring Chromosomal Organization Properties and Principles
M. Di Stefano, Jonas Paulsen, E. Hovig, C. Micheletti
2019Modeling the 3D Conformation of Genomes0 citations
Semantic Scholar

G. K. Sandve

×4

N. Briand×3

E. Delbarre×3

M. Di Stefano×3

L. Holden×3

M. Sekelja×2

Anja R. Oldenburg×2

Akshay Shah×2