Paulsen J - Search Results

1

Long-range interactions between topologically associating domains shape the four-dimensional genome during differentiation.

Paulsen J, Liyakat Ali TM, Nekrasov M, Delbarre E, Baudement MO, Kurscheid S, Tremethick D, Collas P. Paulsen J, et al. Nat Genet. 2019 May;51(5):835-843. doi: 10.1038/s41588-019-0392-0. Epub 2019 Apr 22. Nat Genet. 2019. PMID: 31011212

2

Manifold Based Optimization for Single-Cell 3D Genome Reconstruction.

Paulsen J, Gramstad O, Collas P. Paulsen J, et al. PLoS Comput Biol. 2015 Aug 11;11(8):e1004396. doi: 10.1371/journal.pcbi.1004396. eCollection 2015 Aug. PLoS Comput Biol. 2015. PMID: 26262780 Free PMC article.

3

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

Sekelja M, Paulsen J, Collas P. Sekelja M, et al. Among authors: paulsen j. Genome Biol. 2016 Apr 7;17:54. doi: 10.1186/s13059-016-0923-2. Genome Biol. 2016. PMID: 27052789 Free PMC article. Review.

4

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

Paulsen J, Sekelja M, Oldenburg AR, Barateau A, Briand N, Delbarre E, Shah A, Sørensen AL, Vigouroux C, Buendia B, Collas P. Paulsen J, et al. Genome Biol. 2017 Jan 30;18(1):21. doi: 10.1186/s13059-016-1146-2. Genome Biol. 2017. PMID: 28137286 Free PMC article.

5

Carcinogen susceptibility is regulated by genome architecture and predicts cancer mutagenesis.

García-Nieto PE, Schwartz EK, King DA, Paulsen J, Collas P, Herrera RE, Morrison AJ. García-Nieto PE, et al. Among authors: paulsen j. EMBO J. 2017 Oct 2;36(19):2829-2843. doi: 10.15252/embj.201796717. Epub 2017 Aug 16. EMBO J. 2017. PMID: 28814448 Free PMC article.

6

The lipodystrophic hotspot lamin A p.R482W mutation deregulates the mesodermal inducer T/Brachyury and early vascular differentiation gene networks.

Briand N, Guénantin AC, Jeziorowska D, Shah A, Mantecon M, Capel E, Garcia M, Oldenburg A, Paulsen J, Hulot JS, Vigouroux C, Collas P. Briand N, et al. Among authors: paulsen j. Hum Mol Genet. 2018 Apr 15;27(8):1447-1459. doi: 10.1093/hmg/ddy055. Hum Mol Genet. 2018. PMID: 29438482

7

Computational 3D genome modeling using Chrom3D.

Paulsen J, Liyakat Ali TM, Collas P. Paulsen J, et al. Nat Protoc. 2018 May;13(5):1137-1152. doi: 10.1038/nprot.2018.009. Epub 2018 Apr 26. Nat Protoc. 2018. PMID: 29700484

8

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

Briand N, Cahyani I, Madsen-Østerbye J, Paulsen J, Rønningen T, Sørensen AL, Collas P. Briand N, et al. Among authors: paulsen j. Front Cell Dev Biol. 2018 Jul 9;6:73. doi: 10.3389/fcell.2018.00073. eCollection 2018. Front Cell Dev Biol. 2018. PMID: 30057899 Free PMC article. Review.

9

TAD cliques predict key features of chromatin organization.

Liyakat Ali TM, Brunet A, Collas P, Paulsen J. Liyakat Ali TM, et al. Among authors: paulsen j. BMC Genomics. 2021 Jul 3;22(1):499. doi: 10.1186/s12864-021-07815-8. BMC Genomics. 2021. PMID: 34217222 Free PMC article.

10

Modeling the 3D Genome Using Hi-C and Nuclear Lamin-Genome Contacts.

Paulsen J, Collas P. Paulsen J, et al. Methods Mol Biol. 2022;2301:337-352. doi: 10.1007/978-1-0716-1390-0_18. Methods Mol Biol. 2022. PMID: 34415545

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