Publications

Some of our recent publications

2018

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 Protocols 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.

2017

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.

López-Soop G, Rønningen T, Rogala A, Richartz N, Blomhoff HK, Thiede B, Collas P, Küntziger T. 2017. AKAP95 interacts with nucleoporin TPR in mitosis and is important for the spindle assembly checkpoint. Cell Cycle 16, 947-956.

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.

2016

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.

2015

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.

Lund EG, Duband-Goulet I, Oldenburg A, Buendia B, Collas P. 2015. Distinct features of lamin A-interacting chromatin domains mapped by ChIP-sequencing from sonicated or micrococcal nuclease-digested chromatin. Nucleus 6, 30-39.

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.

2014

Oldenburg A.R., Delbarre E., Thiede B., Vigouroux C., Collas P. 2014. Deregulation of Fragile X-related protein 1 by the lipodystrophic lamin A p.R482W mutation elicits a myogenic gene expression program in preadipocytes. Hum Mol Genet 23, 1151-1162.

Lund E.G., Oldenburg A., Collas P. 2014. Enriched domain detector: a program for detection of wide genomic enrichment domains robust against local variations. Nucl Acids Res 42, e92.

Carriere A., Jeanson Y., Berger-Müller S., Andre M., Chenouard V., Arnaud E., Barreau C., Walther R., Galiner A., Wdziekonski B., Villageois P., Louche K., Collas P., Moro C., Dani C., Villarroya F., Casteilla L. 2014. Browning of white adipose cells by intermediate metabolites: an adaptive mechanism to alleviate redox pressure. Diabetes 63, 3253-3265.

Ivanauskiené K., Delbarre E., McGhie J.D., Küntziger T., Wong L.H., Collas P. 2014. The PML-associated protein DEK regulates the balance of H3.3 loading on chromatin and is important for telomere integrity. Genome Res 24, 1584-1594.

Collas P., Lund E.G., Oldenburg A.R. 2014. Closing the (nuclear) envelope on the genome. BioEssays 36, 75-83.

Shah, A., Oldenburg, A.R., Collas, P. 2014. A hyper-dynamic nature of bivalent promoter states underlies coordinated developmental gene expression modules. BMC Genomics 15, 1186.