The shape of chromatin: insights from computational recognition of geometric patterns in Hi-C data

por Raffo, Andrea, Paulsen, Jonas
Publicado 2023

Manifold Based Optimization for Single-Cell 3D Genome Reconstruction

por Paulsen, Jonas, Gramstad, Odin, Collas, Philippe
Publicado 2015

4D nucleomes in single cells: what can computational modeling reveal about spatial chromatin conformation?

por Sekelja, Monika, Paulsen, Jonas, Collas, Philippe
Publicado 2016

TAD cliques predict key features of chromatin organization

por Liyakat Ali, Tharvesh M., Brunet, Annaël, Collas, Philippe, Paulsen, Jonas
Publicado 2021

MoDLE: high-performance stochastic modeling of DNA loop extrusion interactions

por Rossini, Roberto, Kumar, Vipin, Mathelier, Anthony, Rognes, Torbjørn, Paulsen, Jonas
Publicado 2022

Alkbh1 and Tzfp repress a non-repeat piRNA cluster in pachytene spermatocytes

por Nordstrand, Line M., Furu, Kari, Paulsen, Jonas, Rognes, Torbjørn, Klungland, Arne
Publicado 2012

A statistical model of ChIA-PET data for accurate detection of chromatin 3D interactions

por Paulsen, Jonas, Rødland, Einar A., Holden, Lars, Holden, Marit, Hovig, Eivind
Publicado 2014

4D nucleome modeling

por Di Stefano, Marco, Paulsen, Jonas, Jost, Daniel, Marti-Renom, Marc A
Publicado 2021

Hi-C-constrained physical models of human chromosomes recover functionally-related properties of genome organization

por Di Stefano, Marco, Paulsen, Jonas, Lien, Tonje G., Hovig, Eivind, Micheletti, Cristian
Publicado 2016

Galaxy Portal: interacting with the galaxy platform through mobile devices

por Børnich, Claus, Grytten, Ivar, Hovig, Eivind, Paulsen, Jonas, Čech, Martin, Sandve, Geir Kjetil
Publicado 2016

HiBrowse: multi-purpose statistical analysis of genome-wide chromatin 3D organization

por Paulsen, Jonas, Sandve, Geir Kjetil, Gundersen, Sveinung, Lien, Tonje G., Trengereid, Kai, Hovig, Eivind
Publicado 2014

Lamin A, Chromatin and FPLD2: Not Just a Peripheral Ménage-à-Trois

por Briand, Nolwenn, Cahyani, Inswasti, Madsen-Østerbye, Julia, Paulsen, Jonas, Rønningen, Torunn, Sørensen, Anita L., Collas, Philippe
Publicado 2018

Handling realistic assumptions in hypothesis testing of 3D co-localization of genomic elements

por Paulsen, Jonas, Lien, Tonje G., Sandve, Geir Kjetil, Holden, Lars, Borgan, Ørnulf, Glad, Ingrid K., Hovig, Eivind
Publicado 2013

Potentials of Mean Force for Protein Structure Prediction Vindicated, Formalized and Generalized

por Hamelryck, Thomas, Borg, Mikael, Paluszewski, Martin, Paulsen, Jonas, Frellsen, Jes, Andreetta, Christian, Boomsma, Wouter, Bottaro, Sandro, Ferkinghoff-Borg, Jesper
Publicado 2010

Chrom3D: three-dimensional genome modeling from Hi-C and nuclear lamin-genome contacts

por Paulsen, Jonas, Sekelja, Monika, Oldenburg, Anja R., Barateau, Alice, Briand, Nolwenn, Delbarre, Erwan, Shah, Akshay, Sørensen, Anita L., Vigouroux, Corinne, Buendia, Brigitte, Collas, Philippe
Publicado 2017

The Genomic HyperBrowser: an analysis web server for genome-scale data

por Sandve, Geir K., Gundersen, Sveinung, Johansen, Morten, Glad, Ingrid K., 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, Rye, Morten B., Frigessi, Arnoldo, Hovig, Eivind
Publicado 2013