Our recent publications


Madsen-Østerbye J, Abdelhalim M, Pickering SH, Collas P. 2023. Gene Regulatory Interactions at Lamina-Associated Domains Genes 14, 334


Potolitsyna E, Hazell Pickering S, Tooming-Klunderud A, Collas P, Briand N. 2022.  De novo annotation of lncRNA HOTAIR transcripts by long-read RNA capture-seq reveals a differentiation-driven isoform switch BMC Genomics 23, 658

Kuo FC, Neville MJ, Sabaratnam R, Wesolowska-Andersen A, Phillips D, Wittemans LBL, van Dam AD, Loh NY, Todorčević M, Denton N, Kentistou KA, Joshi PK, Christodoulides C, Langenberg C, Collas P, Karpe F, Pinnick KE. 2022. HOTAIR interacts with PRC2 complex regulating the regional preadipocyte transcriptome and human fat distribution Cell Rep 40, 111136

Potolitsyna E, Hazell Pickering S, Germier T, Collas P, Briand N. 2022. Long non-coding RNA HOTAIR regulates cytoskeleton remodeling and lipid storage capacity during adipogenesis Sci Rep 12, 10157

Madsen-Østerbye J, Bellanger A, Galigniana NM, Collas P. 2022. Biology and Model Predictions of the Dynamics and Heterogeneity of Chromatin-Nuclear Lamina Interactions Front Cell Dev Biol 10, 913458

Bellanger A, Madsen-Østerbye J, Galigniana NM, Collas P. 2022. Restructuring of Lamina-Associated Domains in Senescence and Cancer Cells 11, 1846

Madsen-Østerbye J, Abdelhalim M, Baudement MO, Collas P. 2022. Local euchromatin enrichment in lamina-associated domains anticipates their repositioning in the adipogenic lineage . Genome Biol 23, 91

Udugama M, Vinod B, Chan FL, Hii L, Garvie A, Collas P, Kalitsis P, Steer D, Das PP, Tripathi P, Mann JR, Voon HPJ, Wong LH. 2022. Histone H3.3 phosphorylation promotes heterochromatin formation by inhibiting H3K9/K36 histone demethylase. Nucleic Acids Res 50, 4500-4514

Paulsen J, Collas P. 2022. Modeling the 3D Genome Using Hi-C and Nuclear Lamin-Genome Contacts.. Methods Mol Biol 301, 337-352


Liyakat Ali TM, Brunet A, Collas P, Paulsen J. 2021. TAD cliques predict key features of chromatin organization. BMC Genomics 22, 499 

Udugama M, Hii L, Garvie A, Cervini M, Vinod B, Chan FL, Das PP, Mann JR, Collas P, Voon HPJ, Wong LH. 2021. Mutations inhibiting KDM4B drive ALT activation in ATRX-mutated glioblastomas. Nat Commun 12, 2584

Brunet A, Destainville N, Collas P. 2021. Physical constraints in polymer modeling of chromatin associations with the nuclear periphery at kilobase scale. Nucleus 12, 6-20


Vietri M, Schultz SW, Bellanger A, Jones CM, Petersen LI, Raiborg C, Skarpen E, Pedurupillay CRJ, Kjos I, Kip E, Timmer R, Jain A, Collas P, Knorr RL, Grellscheid SN, Kusumaatmaja H, Brech A, Micci F, Stenmark H, Campsteijn C. 2020. Unrestrained ESCRT-III drives micronuclear catastrophe and chromosome fragmentation. Nat Cell Biol 22, 856-867

Briand N, Collas P. 2020. Lamina-associated domains: peripheral matters and internal affairs. Genome Biol 21, 85

Brunet A, Forsberg F, Fan Q, Sæther T, Collas P. 2019. Nuclear Lamin B1 Interactions With Chromatin During the Circadian Cycle Are Uncoupled From Periodic Gene Expression. Front Genet 10, 917

Ménard C, Dulong J, Roulois D, Hébraud B, Verdière L, Pangault C, Sibut V, Bezier I, Bescher N, Monvoisin C, Gadelorge M, Bertheuil N, Flécher E, Casteilla L, Collas P, Sensebé L, Bourin P, Espagnolle N, Tarte K. 2020. Integrated transcriptomic, phenotypic, and functional study reveals tissue-specific immune properties of mesenchymal stromal cells. Stem Cells 38, 146-159


Paulsen J, Liyakat Ali TM, Nekrasov M, Delbarre E, Baudement MO, Kurscheid S, Tremethick D, Collas P. 2019. Long-range interactions between topologically associating domains shape the four-dimensional genome during differentiation. Nature Genet 51, 835-843

Forsberg F, Brunet A, Liyakat Ali TM, Collas P. 2019. Interplay of lamin A and lamin B LADs on the radial positioning of chromatin. Nucleus 10, 7-20

Spirkoski J, Shah A., Reiner AH, Collas P., Delbarre E. 2019. ML modulates H3.3 targeting to telomeric and centromeric repeats in mouse fibroblasts. Biochem Biophys Res Com 511, 882-888


Briand N., Cahyani I., Madsen-Østerbye J., Paulsen J., Rønningen T., Sørensen A.L., Collas P. 2018. Lamin A, chromatin and FPLD2: not just a peripheral ménage-à-trois. Front Cell Dev Biol doi: 10.3389/fcell.2018.00073

Paulsen J, Liyakat Ali TM, Collas P. 2018. Computational 3D genome modeling using Chrom3D. Nature Protoc 13, 1137-1152.

Udugama M, Sanij E, Voon HPJ, Son J, Hii L, Henson JD, Chan FL, Chang FTM, Liu Y, Pearson RB, Kalitsis P, Mann JR, Collas P, Hannan RD, Wong LH. 2018. Ribosomal DNA copy loss and repeat instability in ATRX-mutated cancers. Proc Natl Acad Sci USA 115, 4737-4742.

Rogne M, Chu DT, Küntziger TM, Mylonakou MN, Collas P, Tasken K. 2018. OPA1-anchored PKA phosphorylates perilipin 1 on S522 and S497 in adipocytes differentiated from human adipose stem cells. Mol Biol Cell 29, 1487-1501.

Briand N, Guénantin AC, Jeziorowska D, Shah A, Mantecon M, Capel E, Garcia M, Oldenburg A, Paulsen J, Hulot JS, Vigouroux C, Collas P. 2018. The lipodystrophic hotspot lamin A p.R482W mutation deregulates the mesodermal inducer T/Brachyury and early vascular differentiation gene networks. Hum Mol Genet 27, 1447-1459.


Paulsen J, Sekelja M, Oldenburg AR, Barateau A, Briand N, Delbarre E, Shah, A, Sørensen AL, Vigouroux C, Biendia B, Collas P. 2017. Chrom3D: three-dimensional genome modeling from Hi-C and nuclear lamin-genome contacts. Genome Biol 18, 21.

Guénantin AC, Briand N, Capel E, Dumont F, Morichon R, Provost C, Stillitano F, Jeziorowska D, Siffroi JP, Hajjar RJ, Fève B, Hulot JS, Collas P, Capeau J, Vigouroux C. 2017. Functional Human Beige Adipocytes from Induced Pluripotent Stem Cells. Diabetes 66, 1470-1478.

Delbarre E, Ivanauskiene K, Spirkoski J, Shah A, Vekterud K, Moskaug JØ, Bøe SO, Wong LH, Küntziger T, Collas P. 2017. PML protein organizes heterochromatin domains where it regulates histone H3.3 deposition by ATRX/DAXX. Genome Res 27, 913-921.

Oldenburg AR, Briand N, Sørensen AL, Cahyani I, Shah A, Moskaug JØ, Collas P. 2017. A lipodystrophy-causing lamin A mutant alters conformation and epigenetic regulation of the anti-adipogenic MIR335 locus. J Cell Biol 216, 2731-2743.

Garcia-Nieto PE, Schwartz E, King DA, Paulsen J, Collas P, Herrera RE, Morrison AJ. 2017. Carcinogen susceptibility is regulated by genome architecture and dictates cancer mutagenenesis. EMBO J. 36, 2839-2843.


Voon H.P.J., Collas P., Wong L.H. 2016. Compromised telomeric heterochromatin promotes ALTernative lengthening of telomeres. Trends Cancer 2, 114-116.

Oldenburg A.O., Collas P. 2016. Mapping nuclear lamin-genome interactions by chromatin immunoprecipitation of nuclear lamins. Meth Mol Biol 1411, 215-324.

Sekelja M., Paulsen J., Collas P. 2016. 4D nucleomes in single cells: what can computational modeling reveal about spatial chromatin conformation? Genome Biol 17, 54.


Rønningen T., Shah A, Oldenburg AR, Vekterud K, Delbarre E, Moskaug JØ, Collas P. 2015. Prepatterning of differentiation-driven nuclear lamin A/C-associated chromatin domains by GlcNAcylated histone H2B. Genome Res 25, 1825-1835.

Paulsen J, Gramstad O, Collas P. 2015. Manifold-based optimization for single-cell 3D genome reconstruction. PLoS Comput Biol 11, e1004396.

Udugama M, Chang FT, Chan FL, Tang MC, Picket HA, McGhie JD, Mayne L, Collas P, Mann JR, Wong LH. 2015. Histone variant H3.3 provides the heterochromatic H3 lysine 9 trimethylation mark at telomeres. Nucl Acids Res 43, 10227-10237.

Vadrot N, Duband-Goulet I, Cabet E, Attanda W, Barateau A, Vicart P, Gerbal F, Briand N, Vigouroux C, Oldenburg AR, Lund EG, Collas P, Buendia B. 2015. The p.R482W substitution in A-type lamins deregulates SREBP1 activity in Dunnigan-type familial partial lipodystrophy. Hum Mol Genet 24, 2069-20109.

Chang FT, Chan FL, McGhie JD, Udugama M, Mayne L, Collas P, Mann JP, Wong LH. 2015. CHK1-driven histone H3.3 serine 31 phosphorylation is important for chromatin maintenance and cell survival in human ALT cancer cells. Nucl Acids Res 43, 2603-2614.