Philippe Collas

Professor - Department of Molecular Medicine

Norwegian version of this page

Email philippe.collas@medisin.uio.no

Phone +47 22851066

Room 2250

Username

Visiting address Sognsvannsveien 9 Domus Medica 0372 Oslo

Postal address Postboks 1110 Blindern 0317 Oslo

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Academic interests

Reprogramming of nuclear function
Epigenetic determination of lineage commitment in mesenchymal stem cells
Organization and dynamics of the cell nucleus

Courses taught

MF9390: ”Epigenetics, Development and Disease”

Background

1991: Ph.D., University of Massachusetts, Amherst, MA, USA.

Area: embryo cloning

URL: www.collaslab.com

Curriculum Vitae (pdf)

Awards

Elected member of the Norwegian Academy of Sciences

Positions held

1991 1993: Research Scientist, Genmark, Inc., Salt Lake City, UT, USA
1992 2004: Adjunct Professor, University of Massachusetts, Amherst, MA, USA
1993 1995: Research Associate, Dept. of Biology, Amherst College, Amherst, MA, USA
1995-1998: Scientist, Dept. of Biochemistry, Norwegian College of Veterinary Medicine, Oslo
1999-2003: Senior Research Scientist, Institute of Medical Biochemistry, University of Oslo; Fellow of the Norwegian Cancer Society
2003-present: Professor, Institute of Basic Medical Sciences, Dep. of Biochemistry, University of Oslo
2009-present: Senior Scientist II, Rikshospitalet University Hospital, Oslo

Tags: Stem cells, Biochemistry, Life science

Rossini, Roberto; Oshaghi, Mohammadsaleh; Nekrasov, Maxim; Bellanger, Aurelie Nathalie Pascale; Domaschenz, Renae & Dijkwel, Yasmin [Show all 10 contributors for this article] (2023). Multi-level 3D genome organization deteriorates during breast cancer progression. bioRxiv. ISSN 2692-8205. doi: 10.1101/2023.11.26.568711.
Voon, Hsiao P. J.; Hii, Linda; Garvie, Andrew; Udugama, Maheshi; Krug, Brian & Russo, Caterina [Show all 18 contributors for this article] (2023). Pediatric glioma histone H3.3 K27M/G34R mutations drive abnormalities in PML nuclear bodies. Genome Biology. ISSN 1465-6906. 24(1). doi: 10.1186/s13059-023-03122-5. Full text in Research Archive
Fracassi, C; Ugge', M; Abdelhalim, Mohamed Ibrahim Mohamed; Zapparoli, E; Simoni, M & Magliulo, D [Show all 11 contributors for this article] (2023). PML modulates epigenetic composition of chromatin to regulate expression of pro-metastatic genes in triple-negative breast cancer. Nucleic Acids Research (NAR). ISSN 0305-1048. 51(20), p. 11024–11039. doi: 10.1093/nar/gkad819. Full text in Research Archive
Russ, Brendan E.; Barugahare, Adele; Dakle, Pushkar; Tsyganov, Kirril; Quon, Sara & Yu, Bingfei [Show all 22 contributors for this article] (2023). Active maintenance of CD8<sup>+</sup> T cell naivety through regulation of global genome architecture. Cell reports. ISSN 2211-1247. 42(10). doi: 10.1016/j.celrep.2023.113301. Full text in Research Archive
Benarroch, Louise; Madsen-Østerbye, Julia-Kristina; Abdelhalim, Mohamed Ibrahim Mohamed; Mamchaoui, Kamel; Ohana, Jessica & Bigot, Anne [Show all 10 contributors for this article] (2023). Cellular and Genomic Features of Muscle Differentiation from Isogenic Fibroblasts and Myoblasts. Cells. ISSN 2073-4409. 12(15). doi: 10.3390/cells12151995. Full text in Research Archive
Madsen-Østerbye, Julia-Kristina; Abdelhalim, Mohamed Ibrahim Mohamed; Hazell Pickering, Sarah Jai & Collas, Philippe (2023). Gene Regulatory Interactions at Lamina-Associated Domains. Genes. ISSN 2073-4425. 14(2), p. 1–15. doi: 10.3390/genes14020334. Full text in Research Archive
Mosbaha, Helena; Akinci, Baris; Araújo-Vilar, David; Tudela, Juan Carrion; Collas, Philippe & Ceccarinif, Giovanni [Show all 29 contributors for this article] (2022). Proceedings of the annual meeting of the European Consortium of Lipodystrophies (ECLip) Cambridge, UK, 7–8 April 2022. Annales d'Endocrinologie. ISSN 0003-4266. 83(6), p. 461–468. doi: 10.1016/j.ando.2022.07.674.
Potolitsyna, Evdokiia; Hazell Pickering, Sarah Jai; Tooming-Klunderud, Ave; Collas, Philippe & Briand, Nolwenn (2022). De novo annotation of lncRNA HOTAIR transcripts by long-read RNA capture-seq reveals a differentiation-driven isoform switch. BMC Genomics. ISSN 1471-2164. 23(1). doi: 10.1186/s12864-022-08887-w. Full text in Research Archive
Kuo, Feng-Chih; Neville, Matt J.; Sabaratnam, Rugivan; Wesolowska-Andersen, Agata; Phillips, Daniel & Wittemans, Laura B.L. [Show all 17 contributors for this article] (2022). HOTAIR interacts with PRC2 complex regulating the regional preadipocyte transcriptome and human fat distribution. Cell reports. ISSN 2211-1247. 40(4). doi: 10.1016/j.celrep.2022.111136. Full text in Research Archive
Potolitsyna, Evdokiia; Hazell Pickering, Sarah Jai; Germier, Thomas Lodewijk Guy; Collas, Philippe & Briand, Nolwenn (2022). Long non-coding RNA HOTAIR regulates cytoskeleton remodeling and lipid storage capacity during adipogenesis. Scientific Reports. ISSN 2045-2322. 12(1). doi: 10.1038/s41598-022-14296-6. Full text in Research Archive
Madsen-Østerbye, Julia-Kristina; Bellanger, Aurelie Nathalie Pascale; Galigniana, Natalia & Collas, Philippe (2022). Biology and Model Predictions of the Dynamics and Heterogeneity of Chromatin-Nuclear Lamina Interactions. Frontiers in Cell and Developmental Biology. ISSN 2296-634X. 10, p. 1–13. doi: 10.3389/fcell.2022.913458. Full text in Research Archive
Bellanger, Aurelie Nathalie Pascale; Madsen-Østerbye, Julia-Kristina; Galigniana, Natalia & Collas, Philippe (2022). Restructuring of Lamina-Associated Domains in Senescence and Cancer. Cells. ISSN 2073-4409. 11(11). doi: 10.3390/cells11111846. Full text in Research Archive
Udugama, Maheshi; Vinod, Benjamin; Chan, F. Lyn; Hii, Linda; Garvie, Andrew & Collas, Philippe [Show all 13 contributors for this article] (2022). Histone H3.3 phosphorylation promotes heterochromatin formation by inhibiting H3K9/K36 histone demethylase. Nucleic Acids Research (NAR). ISSN 0305-1048. 50(8), p. 4500–4514. doi: 10.1093/nar/gkac259. Full text in Research Archive
Madsen-Østerbye, Julia-Kristina; Abdelhalim, Mohamed Ibrahim Mohamed; Baudement, Marie-Odile & Collas, Philippe (2022). Local euchromatin enrichment in lamina-associated domains anticipates their repositioning in the adipogenic lineage. Genome Biology. ISSN 1465-6906. 23, p. 1–19. doi: 10.1186/s13059-022-02662-6. Full text in Research Archive
Liyakat Ali, Tharvesh Moideen; Brunet, Annaëlle; Collas, Philippe & Paulsen, Jonas (2021). TAD cliques predict key features of chromatin organization. BMC Genomics. ISSN 1471-2164. 22(1). doi: 10.1186/s12864-021-07815-8. Full text in Research Archive
Udugama, Maheshi; Hii, Linda; Garvie, A.; Cervini, M.; Vinod, B. & Chan, F. Lyn [Show all 11 contributors for this article] (2021). Mutations inhibiting KDM4B drive ALT activation in ATRX-mutated glioblastomas. Nature Communications. ISSN 2041-1723. 12(1), p. 1–11. doi: 10.1038/s41467-021-22543-z. Full text in Research Archive
Brunet, Annaëlle; Destainville, Nicolas & Collas, Philippe (2021). Physical constraints in polymer modeling of chromatin associations with the nuclear periphery at kilobase scale. Nucleus. ISSN 1949-1034. 12(1), p. 6–20. doi: 10.1080/19491034.2020.1868105. Full text in Research Archive
Narud, Birgitte; Khezri, Abdolrahman; Zeremichael, Teklu Tewoldebrhan; Stenseth, Else-Berit; Heringstad, Bjørg & Johannisson, Anders [Show all 10 contributors for this article] (2021). Sperm chromatin integrity and DNA methylation in Norwegian Red bulls of contrasting fertility. Molecular Reproduction and Development. ISSN 1040-452X. 88(3), p. 187–200. doi: 10.1002/mrd.23461. Full text in Research Archive
Vietri, Marina; Schultz, Sebastian; Bellanger, Aurélie Nathalie Pascale; Jones, Carl; Petersen, Louise I & Raiborg, Camilla [Show all 20 contributors for this article] (2020). Unrestrained ESCRT-III drives micronuclear catastrophe and chromosome fragmention. Nature Cell Biology. ISSN 1465-7392. 22, p. 856–867. doi: 10.1038/s41556-020-0537-5. Full text in Research Archive
Briand, Nolwenn & Collas, Philippe (2020). Lamina-associated domains: Peripheral matters and internal affairs. Genome Biology. ISSN 1465-6906. 21:85, p. 1–25. doi: 10.1186/s13059-020-02003-5. Full text in Research Archive
Toribio-Fernández, R; Herrero-Fernandez, B; Zorita, V; López, JA; Vázquez, J & Criado, G [Show all 11 contributors for this article] (2019). Lamin A/C deficiency in CD4+ T-cells enhances regulatory T-cells and prevents inflammatory bowel disease. Journal of Pathology. ISSN 0022-3417. 249(4), p. 509–522. doi: 10.1002/path.5332.
Ménard, C; Dulong, J; Roulois, D; Hébraud, B; Verdière, L & Pangault, C [Show all 19 contributors for this article] (2019). Integrated Transcriptomic, Phenotypic, and Functional Study Reveals Tissue-Spesific Immune Properties of Mesenchymal Stromal Cells. Stem Cells. ISSN 1066-5099. 38, p. 146–159. doi: 10.1002/stem.3077.
Brunet, Annaëlle; Forsberg, Anna Frida; Fan, Qiong; Sæther, Thomas & Collas, Philippe (2019). Nuclear lamin B1 interactions with chromatin during the circadian cycle are uncoupled from periodic gene expression. Frontiers in Genetics. ISSN 1664-8021. 10. doi: 10.3389/fgene.2019.00917. Full text in Research Archive Show summary
Many mammalian genes exhibit circadian expression patterns concordant with periodic binding of transcription factors, chromatin modifications, and chromosomal interactions. Here we investigate whether chromatin periodically associates with nuclear lamins. Entrainment of the circadian clock is accompanied, in mouse liver, by a net gain of lamin B1–chromatin interactions genome-wide, after which the majority of lamina-associated domains (LADs) are conserved during the circadian cycle. By tailoring a bioinformatics pipeline designed to identify periodic gene expression patterns, we also observe hundreds of variable lamin B1-chromatin interactions among which oscillations occur at 64 LADs, affecting one or both LAD extremities or entire LADs. Only a small subset of these oscillations however exhibit highly significant 12, 18, 24, or 30 h periodicity. These periodic LADs display oscillation asynchrony between their 5′ and 3′ borders, and are uncoupled from periodic gene expression within or in the vicinity of these LADs. Periodic gene expression is also unrelated to variations in gene-to-nearest LAD distances detected during the circadian cycle. Accordingly, periodic genes, including central clock-control genes, are located megabases away from LADs throughout circadian time, suggesting stable residence in a transcriptionally permissive chromatin environment. We conclude that periodic LADs are not a dominant feature of variable lamin B1–chromatin interactions during the circadian cycle in mouse liver. Our results also suggest that periodic hepatic gene expression is not regulated by rhythmic chromatin associations with the nuclear lamina.
Paulsen, Jonas; Liyakat Ali, Tharvesh Moideen; Nekrasov, Maxim; Delbarre, Erwan; Baudement, Marie-Odile & Kurscheid, Sebastian [Show all 8 contributors for this article] (2019). Long-range interactions between topologically associating domains shape the four-dimensional genome during differentiation. Nature Genetics. ISSN 1061-4036. 51(5), p. 835–843. doi: 10.1038/s41588-019-0392-0.
Collas, Philippe; Liyakat Ali, Tharvesh Moideen; Brunet, Annaëlle & Germier, Thomas (2019). Finding friends in the crowd: Three-dimensional cliques of topological genomic domains. Frontiers in Genetics. ISSN 1664-8021. 10:602, p. 1–11. doi: 10.3389/fgene.2019.00602. Full text in Research Archive
Spirkoski, Jane; Shah, Akshay; Reiner, Andrew Henry; Collas, Philippe & Delbarre, Erwan (2019). PML modulates H3.3 targeting to telomeric and centromeric repeats in mouse fibroblasts. Biochemical and Biophysical Research Communications - BBRC. ISSN 0006-291X. 511(4), p. 882–888. doi: 10.1016/j.bbrc.2019.02.087.
Forsberg, Frida; Brunet, Annaëlle; Liyakat Ali, Tharvesh Moideen & Collas, Philippe (2019). Interplay of lamin A and lamin B LADs on the radial positioning of chromatin. Nucleus. ISSN 1949-1034. 10(1), p. 7–20. doi: 10.1080/19491034.2019.1570810. Full text in Research Archive
Briand, Nolwenn; Cahyani, Inswasti; Madsen-Østerbye, Julia-Kristina Jensen; Paulsen, Jonas; Rønningen, Torunn & Sørensen, Anita Løvstad [Show all 7 contributors for this article] (2018). Lamin A, Chromatin and FPLD2:Not ust a Peripheral Ménage-à-Trois. Frontiers in Cell and Developmental Biology. ISSN 2296-634X. 6. doi: 10.3389/fcell.2018.00073. Full text in Research Archive
Rogne, Marie; Chu, Dinh Toi; Küntziger, Thomas M.; Mylonakou, Maria-Niki; Collas, Philippe & Tasken, Kjetil (2018). OPA1-anchored PKA phosphorylates perilipin 1 on S522 and S497 in adipocytes differentiated from human adipose stem cells. Molecular Biology of the Cell. ISSN 1059-1524. 29(12), p. 1487–1501. doi: 10.1091/mbc.E17-09-0538. Full text in Research Archive
Briand, Nolwenn; Guénantin, Anne-Claire; Jeziorowska, Dorota; Shah, Akshay; Mantecon, Matthieu & Capel, Emilie [Show all 12 contributors for this article] (2018). The lipodystrophic hotspot lamin A p.R482W mutation deregulates the mesodermal inducer T/Brachyury and early vascular differentiation gene networks. Human Molecular Genetics. ISSN 0964-6906. 27(8), p. 1447–1459. doi: 10.1093/hmg/ddy055.
Udugama, Maheshi; Sanij, Elaine; Voon, Hsiao P.J.; Son, Jinbae; Hii, Linda & Henson, Jeremy D. [Show all 15 contributors for this article] (2018). Ribosomal DNA copy loss and repeat instability in ATRX-mutated cancers. Proceedings of the National Academy of Sciences of the United States of America. ISSN 0027-8424. 115(18), p. 4737–4742. doi: 10.1073/pnas.1720391115. Full text in Research Archive
Paulsen, Jonas; Liyakat Ali, Tharvesh Moideen & Collas, Philippe (2018). Computational 3D genome modeling using Chrom3D. Nature Protocols. ISSN 1754-2189. 13(5), p. 1137–1152. doi: 10.1038/nprot.2018.009.
Briand, Nolwenn & Collas, Philippe (2018). Laminopathy-causing lamin A mutations reconfigure lamina-associated domains and local spatial chromatin conformation. Nucleus. ISSN 1949-1034. 9(1), p. 216–226. doi: 10.1080/19491034.2018.1449498. Full text in Research Archive
La Cour Poulsen, Lars; Edelmann, Reidunn Jetne; Krüger, Stig; Diéguez-Hurtado, Rodrigo; Shah, Akshay & Stav-Noraas, Tor Espen [Show all 22 contributors for this article] (2018). Inhibition of endothelial NOTCH1 signaling attenuates inflammation by reducing cytokine-mediated histone acetylation at inflammatory enhancers . Arteriosclerosis, Thrombosis and Vascular Biology. ISSN 1079-5642. 38(4), p. 854–869. doi: 10.1161/ATVBAHA.117.310388. Full text in Research Archive
Meier, Michael; Grant, Jenny; Dowdle, Amy; Thomas, Armarni; Gerton, Jennifer & Collas, Philippe [Show all 8 contributors for this article] (2018). Cohesin facilitates zygotic genome activation in zebrafish. Development. ISSN 0950-1991. 145(1). doi: 10.1242/dev.156521.
Zink, Lisa-Maria; Delbarre, Erwan; Eberl, H Christian; Keilhauer, Eva C; Bonisch, Clemens & Punzeler, Sebastian [Show all 10 contributors for this article] (2017). H3.Y discriminates between HIRA and DAXX chaperone complexes and reveals unexpected insights into human DAXX-H3.3-H4 binding and deposition requirements. Nucleic Acids Research (NAR). ISSN 0305-1048. 45(10), p. 5691–5706. doi: 10.1093/nar/gkx131. Full text in Research Archive
Garcia-Nieto, Pablo E; Schwartz, Erin K; King, Devin A; Paulsen, Jonas; Collas, Philippe & Herrera, Rafael E [Show all 7 contributors for this article] (2017). Carcinogen susceptibility is regulated by genome architecture and predicts cancer mutagenesis. EMBO Journal. ISSN 0261-4189. 36(19), p. 2829–2843. doi: 10.15252/embj.201796717.
Holm, Kristine Lillebø; Syljuåsen, Randi G.; Hasvold, Grete; Alsøe, Lene; Nilsen, Hilde Loge & Ivanauskiene, Kristina [Show all 13 contributors for this article] (2017). TLR9 stimulation of B-cells induces transcription of p53 and prevents spontaneous and irradiation-induced cell death independent of DNA damage responses. Implications for Common variable immunodeficiency. PLOS ONE. ISSN 1932-6203. 12(10). doi: 10.1371/journal.pone.0185708. Full text in Research Archive
Oldenburg, Anja; Briand, Nolwenn; Sørensen, Anita Løvstad; Cahyani, Inswasti; Shah, Akshay & Moskaug, Jan Øivind [Show all 7 contributors for this article] (2017). A lipodystrophy-causing lamin A mutant alters conformation and epigenetic regulation of the anti-adipogenic MIR335 locus. Journal of Cell Biology. ISSN 0021-9525. 216(9), p. 2731–2743. doi: 10.1083/jcb.201701043.
Guénantin, Anne-Claire; Briand, Nolwenn; Capel, Emilie; Dumont, Florent; Morichon, Romain & Provost, Claire [Show all 15 contributors for this article] (2017). Functional human beige adipocytes from induced pluripotent stem cells. Diabetes. ISSN 0012-1797. 66(6), p. 1470–1478. doi: 10.2337/db16-1107.
Paulsen, Jonas; Sekelja, Monika; Oldenburg, Anja; Barateau, Alice; Briand, Nolwenn & Delbarre, Erwan [Show all 11 contributors for this article] (2017). Chrom3D: Three-dimensional genome modeling from Hi-C and nuclear lamin-genome contacts. Genome Biology. ISSN 1465-6906. 18:21, p. 1–15. doi: 10.1186/s13059-016-1146-2.
Lopez Soop, Graciela; Rønningen, Torunn; Rogala, Agnieszka; Richartz, Nina; Blomhoff, Heidi Kiil & Thiede, Bernd [Show all 8 contributors for this article] (2017). AKAP95 interacts with nucleoporin TPR in mitosis and is important for the spindle assembly checkpoint. Cell Cycle. ISSN 1538-4101. 16(10), p. 947–956. doi: 10.1080/15384101.2017.1310350. Full text in Research Archive
Delbarre, Erwan; Ivanauskiene, Kristina; Spirkoski, Jane; Shah, Akshay; Vekterud, Kristin & Moskaug, Jan Øivind [Show all 10 contributors for this article] (2017). PML protein organizes heterochromatin domains where it regulates histone H3.3 deposition by ATRX/DAXX. Genome Research. ISSN 1088-9051. 27(6), p. 913–921. doi: 10.1101/gr.215830.116. Full text in Research Archive
Voon, Hsiao P.J.; Collas, Philippe & Wong, Lee H. (2016). Compromised telomeric heterochromatin promotes ALTernative lengthening of telomeres. Trends in Cancer. ISSN 2405-8033. 2(3), p. 114–116. doi: 10.1016/j.trecan.2016.02.003.
Lindstad, Torstein; Qu, Su; Sikkeland, Jørgen; Jin, Yang; Kristian, Alexandr & Mælandsmo, Gunhild [Show all 8 contributors for this article] (2016). STAMP2 is required for human adipose-derived stem cell differentiation and adiposite-facilitated prostrate cancer grown in vivo. OncoTarget. ISSN 1949-2553. 8(54), p. 91817–91827. doi: 10.18632/oncotarget.11131.
Collas, Philippe & Oldenburg, Anja (2016). Mapping Nuclear Lamin-Genome Interactions by Chromatin Immunoprecipitation of Nuclear Lamins. Methods in molecular biology. ISSN 1064-3745. p. 315–324. doi: 10.1007/978-1-4939-3530-7_20.
Vanhove, Jolien; Pistoni, Mariaelena; Welters, Marc; Eggermont, Kristel; Vanslembrouck, Veerle & Helsen, Nicky [Show all 12 contributors for this article] (2016). H3K27me3 Does Not Orchestrate the Expression of Lineage-Specific Markers in hESC-Derived Hepatocytes In Vitro. Stem Cell Reports. ISSN 2213-6711. 7(2), p. 192–206. doi: 10.1016/j.stemcr.2016.06.013.
Legartová, Soña; Sehnalová, Petra; Malyšková, Barbora; Küntziger, Thomas M.; Collas, Philippe & Cmarko, Dušan [Show all 10 contributors for this article] (2016). Localized Movement and Levels of 53BP1 Protein Are Changed by g-irradiation in PML Deficient Cells. Journal of Cellular Biochemistry. ISSN 0730-2312. 117(11), p. 2583–2596. doi: 10.1002/jcb.25551.
Sekelja, Monika; Paulsen, Jonas & Collas, Philippe (2016). 4D nucleomes in single cells: What can computational modeling reveal about spatial chromatin conformation? Genome Biology. ISSN 1465-6906. 17:54. doi: 10.1186/s13059-016-0923-2.
Buemo, Carla; Gambini, Andres; Moro, Lucia Natalia; Hiriart, Maria Ines; Fernandez-Martin, Rafael & Collas, Philippe [Show all 7 contributors for this article] (2016). Embryo aggregation in pig improves cloning efficiency and embryo quality. PLOS ONE. ISSN 1932-6203. 11(2). doi: 10.1371/journal.pone.0146390.
Marstad, Anne; Landsverk, Ole J. B.; Strømme, Olaf; Otterlei, Marit; Collas, Philippe & Sundan, Anders [Show all 7 contributors for this article] (2016). A-kinase anchoring protein AKAP95 is a novel regulator of ribosomal RNA synthesis. The FEBS Journal. ISSN 1742-464X. 283(4), p. 757–770. doi: 10.1111/febs.13630.
Udugama, Maheshi; Chang, Fiona T.M.; Chan, F. Lyn; Tang, Michelle C.; Pickett, Hilda A. & McGhie, James D.R. [Show all 10 contributors for this article] (2015). Histone variant H3.3 provides the heterochromatic H3 lysine 9 tri-methylation mark at telomeres. Nucleic Acids Research (NAR). ISSN 0305-1048. 43(21), p. 10227–10237. doi: 10.1093/nar/gkv847.
Rønningen, Torunn; Shah, Akshay; Reiner, Andrew Henry; Collas, Philippe & Moskaug, Jan Øivind (2015). Epigenetic priming of inflammatory response genes by high glucose in adipose progenitor cells. Biochemical and Biophysical Research Communications - BBRC. ISSN 0006-291X. 467(4), p. 979–986. doi: 10.1016/j.bbrc.2015.10.030.
Rønningen, Torunn; Shah, Akshay; Oldenburg, Anja; Vekterud, Kristin; Delbarre, Erwan & Moskaug, Jan Øivind [Show all 7 contributors for this article] (2015). Prepatterning of differentiation-driven nuclear lamin A/C-associated chromatin domains by GlcNAcylated histone H2B. Genome Research. ISSN 1088-9051. 25(12), p. 1825–1835. doi: 10.1101/gr.193748.115.
Chang, Fiona T.M.; Chan, F. Lyn; McGhie, James D.R.; Udugama, Maheshi; Mayne, Lynne & Collas, Philippe [Show all 8 contributors for this article] (2015). CHK1-driven histone H3.3 serine 31 phosphorylation is important for chromatin maintenance and cell survival in human ALT cancer cells. Nucleic Acids Research (NAR). ISSN 0305-1048. 43(5), p. 2603–2614. doi: 10.1093/nar/gkv104.
Lund, Eivind Gard; Collas, Philippe & Delbarre, Erwan (2015). Transcription outcome of promoters enriched in histone variant h3.3 defined by positioning of H3.3 and local chromatin marks. Biochemical and Biophysical Research Communications - BBRC. ISSN 0006-291X. 460(2), p. 345–353. doi: 10.1016/j.bbrc.2015.03.037.
Taghdouini, Adil El; Sørensen, Anita Løvstad; Reiner, Andrew Henry; Coll, Mar; Verhulst, Stefaan & Mannaerts, Inge [Show all 14 contributors for this article] (2015). Genome-wide analysis of DNA methylation and gene Expression patterns in purified, uncultures human liver cells and activated hepatic stellate cells. OncoTarget. ISSN 1949-2553. 6(29), p. 26729–26745. doi: 10.18632/oncotarget.4925. Full text in Research Archive
Paulsen, Jonas; Gramstad, Odin & Collas, Philippe (2015). Manifold Based Optimization for Single-Cell 3D Genome Reconstruction. PLoS Computational Biology. ISSN 1553-734X. 11(8). doi: 10.1371/journal.pcbi.1004396. Full text in Research Archive
Lund, Eivind Gard; Duband-Goulet, Isabelle; Oldenburg, Anja; Buendia, Brigitte & Collas, Philippe (2015). Distinct features of lamin A-interacting chromatin domains mapped by Chip-sequencing from sonicated or micrococcal nuclease-digested chromatin. Nucleus. ISSN 1949-1034. 6(1), p. 30–39. doi: 10.4161/19491034.2014.990855.
Reppe, Sjur; Noer, Agate; Grimholt, Runa Marie; Halldorsson, Bjarni V; Medina-Gomez, Carolina & Gautvik, Vigdis Teig [Show all 16 contributors for this article] (2015). Methylation of bone SOST, its mRNA, and serum sclerostin levels correlate strongly with fracture risk in postmenopausal women. Journal of Bone and Mineral Research. ISSN 0884-0431. 30(2), p. 249–256. doi: 10.1002/jbmr.2342.
El Taghdouini, A.; Sørensen, A. L.; Coll, M.; Mannaerts, I.; Øie, Cristina Ionica & Fretland, Å. A. [Show all 14 contributors for this article] (2014). P605 gene expression and dna methylation profiling of distinct adult human liver cells and culture-activated hepatic stellate cells. Journal of Hepatology. ISSN 0168-8278. 60(1), p. 271–271. doi: 10.1016/s0168-8278(14)60767-4.
Vadrot, Nathalie; Duband-Goulet, Isabelle; Cabet, Eva; Attanda, Wikayatou; Barateau, Alice & Vicart, Patrick [Show all 13 contributors for this article] (2014). The p.R482W substitution in a-type lamins deregulates SREBP1 activity in dunnigan-type familial partial lipodystrophy. Human Molecular Genetics. ISSN 0964-6906. 24(7), p. 2096–2109. doi: 10.1093/hmg/ddu728.
Carriere, Audrey; Jeanson, Yannick; Berger-Muller, Sandra; André, Mireille; Chenouard, Vanessa & Arnaud, Emmanuelle [Show all 17 contributors for this article] (2014). Browning of white adipose cells by Intermediate metabolites: an adaptive mechanism to alleviate redox pressure. Diabetes. ISSN 0012-1797. 63(10), p. 3253–3265. doi: 10.2337/db13-1885.
Shah, Akshay; Oldenburg, Anja & Collas, Philippe (2014). A hyper-dynamic nature of bivalent promoter states underlies coordinated developmental gene expression modules. BMC Genomics. ISSN 1471-2164. 15(1). doi: 10.1186/1471-2164-15-1186.
Lund, Eivind Gard; Ruppelt, Anja & Collas, Philippe (2014). Enriched domain detector: A program for detection of wide genomic enrichment domains robust against local variations. Nucleic Acids Research (NAR). ISSN 0305-1048. 42(11). doi: 10.1093/nar/gku324.
Ivanauskiene, Kristina; Delbarre, Erwan; McGhie, James; Küntziger, Thomas Michel; Wong, Lee-Jun C. & Collas, Philippe (2014). The PML-associated protein DEK regulates the balance of H3.3 loading on chromatin and is important for telomere integrity. Genome Research. ISSN 1088-9051. 24(10), p. 1584–1594. doi: 10.1101/gr.173831.114.
Østrup, Olga; Reiner, Andrew Henry; Alestrøm, Peter & Collas, Philippe (2014). The specific alteration of histone methylation profiles by DZNep during early zebrafish development. Biochimica et Biophysica Acta. ISSN 0006-3002. 1839(11), p. 1307–1315. doi: 10.1016/j.bbagrm.2014.09.013.
Aanes, Håvard; Winata, Cecilia L.; Moen, Lars Fredrik; Østrup, Olga; Mathavan, Sinnakaruppan & Collas, Philippe [Show all 8 contributors for this article] (2014). Normalization of RNA-Sequencing Data from Samples with Varying mRNA Levels. PLOS ONE. ISSN 1932-6203. 9(2). doi: 10.1371/journal.pone.0089158.
Collas, Philippe; Lund, Eivind Gard & Ruppelt, Anja (2014). Closing the (nuclear) envelope on the genome: How nuclear lamins interact with promoters and modulate gene expression. Bioessays. ISSN 0265-9247. 36(1), p. 75–83. doi: 10.1002/bies.201300138.
Oldenburg Ruppelt, Anja; Delbarre, Erwan; Thiede, Bernd; Vigouroux, Corinne & Collas, Philippe (2014). Deregulation of Fragile X-related protein 1 by the lipodystrophic lamin A p.R482W mutation elicits a myogenic gene expression program in preadipocytes. Human Molecular Genetics. ISSN 0964-6906. 23(5), p. 1151–1162. doi: 10.1093/hmg/ddt509.
Boulland, Jean-Luc; Mastrangelopoulou, Maria; Boqest, Andrew Craig; Jakobsen, Rune Bruhn; Noer, Agate & Glover, Joel [Show all 7 contributors for this article] (2013). Epigenetic Regulation of Nestin Expression during Neurogenic Differentiation of Adipose Tissue Stem Cells. Stem Cells and Development. ISSN 1547-3287. 22(7), p. 1042–1052. doi: 10.1089/scd.2012.0560.
Østrup, Olga; Andersen, Ingrid Stavenes & Collas, Philippe (2013). Chromatin-linked determinants of zygotic genome activation. Cellular and Molecular Life Sciences (CMLS). ISSN 1420-682X. 70(8), p. 1425–1437. doi: 10.1007/s00018-012-1143-x.
Lund, Eivind Gard & Collas, Philippe (2013). Nuclear lamins Making contacts with promoters. Nucleus. ISSN 1949-1034. 4(6), p. 424–430. doi: 10.4161/nucl.26865.
Aanes, Håvard; Collas, Philippe & Alestrøm, Peter (2013). Transcriptome dynamics and diversity in the early zebrafish embryo. Briefings in Functional Genomics & Proteomics. ISSN 1473-9550. doi: 10.1093/bfgp/elt049.
Østrup, Olga; Olbricht, Gayla; Østrup, Esben; Hyttel, Poul; Collas, Philippe & Cabot, Ryan (2013). RNA Profiles of Porcine Embryos during Genome Activation Reveal Complex Metabolic Switch Sensitive to In Vitro Conditions. PLOS ONE. ISSN 1932-6203. 8(4). doi: 10.1371/journal.pone.0061547.
Lund, Eivind Gard; Oldenburg Ruppelt, Anja; Delbarre, Erwan; Freberg, Christel Taranger; Duband-Goulet, Isabelle & Eskeland, Ragnhild [Show all 8 contributors for this article] (2013). Lamin A/C-promoter interactions specify chromatin state-dependent transcription outcomes. Genome Research. ISSN 1088-9051. 23(10), p. 1580–1589. doi: 10.1101/gr.159400.113.
Hemmingsen, Mette; Vedel, Søren; Skafte-Pedersen, Peder; Sabourin, David; Collas, Philippe & Bruus, Henrik [Show all 7 contributors for this article] (2013). The Role of Paracrine and Autocrine Signaling in the Early Phase of Adipogenic Differentiation of Adiposederived Stem Cells. PLOS ONE. ISSN 1932-6203. 8(5). doi: 10.1371/journal.pone.0063638.
Herlofsen, Sarah; Bryne, Jan Christian; Høiby, Torill; Wang, Li; Issner, Robbyn & Zhang, XL [Show all 13 contributors for this article] (2013). Genome-wide map of quantified epigenetic changes during in vitro chondrogenic differentiation of primary human mesenchymal stem cells. BMC Genomics. ISSN 1471-2164. 14. doi: 10.1186/1471-2164-14-105.
Aanes, Håvard; Østrup, Olga; Andersen, Ingrid Stavenes; Moen, Lars Fredrik; Mathavan, Sinnakaruppan & Collas, Philippe [Show all 7 contributors for this article] (2013). Differential transcript isoform usage pre- and post-zygotic genome activation in zebrafish. BMC Genomics. ISSN 1471-2164. 14. doi: 10.1186/1471-2164-14-331.
Andersen, Ingrid Stavenes; Lindeman, Leif Christopher; Reiner, Andrew Henry; Østrup, Olga; Aanes, Håvard & Alestrøm, Peter [Show all 7 contributors for this article] (2013). Epigenetic Marking of the Zebrafish Developmental Program. Current Topics in Developmental Biology. ISSN 0070-2153. 104, p. 85–112. doi: 10.1016/B978-0-12-416027-9.00003-6.
Collas, Philippe & Eskeland, Ragnhild (2013). Oslo Epigenetics Symposium 2012 Oslo, Norway, 8-9 November 2012. Epigenomics. ISSN 1750-1911. 5(1), p. 29–32. doi: 10.2217/EPI.12.76.
Herrmann, Doris; Dahl, John Arne; Lucas-Hahn, Andrea; Collas, Philippe & Niemann, Heiner (2013). Histone modifications and mRNA expression in the inner cell mass and trophectoderm of bovine blastocysts. Epigenetics. ISSN 1559-2294. 8(3), p. 281–289. doi: 10.4161/epi.23899.
Delbarre, Erwan; Ivanauskiene, Kristina; Küntziger, Thomas Michel & Collas, Philippe (2013). DAXX-dependent supply of soluble (H3.3-H4) dimers to PML bodies pending deposition into chromatin. Genome Research. ISSN 1088-9051. 23(3), p. 440–451. doi: 10.1101/gr.142703.112.
Andersen, Ingrid; Reiner, Andrew Henry; Aanes, Håvard; Alestrøm, Peter & Collas, Philippe (2012). Developmental features of DNA methylation during activation of the embryonic zebrafish genome. Genome Biology. ISSN 1465-6906. 13. doi: 10.1186/gb-2012-13-7-r65.
Andersen, Ingrid Stavenes; Østrup, Olga; Lindeman, Leif Christopher; Aanes, Håvard; Reiner, Andrew Henry & Mathavan, Sinnakaruppan [Show all 8 contributors for this article] (2012). Epigenetic complexity during the zebrafish mid-blastula transition. Biochemical and Biophysical Research Communications - BBRC. ISSN 0006-291X. 417(4), p. 1139–1144. doi: 10.1016/j.bbrc.2011.12.077.
Boqest, Andrew Craig & Collas, Philippe (2012). Obtaining freshly isolated and cultured mesenchymal stem cells from human adipose tissue. In Andrew J. W., Orry & Ruben, Abagyan (Ed.), Methods in Molecular Biology. Humana Press. ISSN 1064-3745. p. 269–278. doi: 10.1007/978-1-61779-815-3_15.
Lindeman, Leif Christopher; Andersen, Ingrid Stavenes; Reiner, Andrew Henry; Li, N; Aanes, Håvard & Østrup, Olga [Show all 11 contributors for this article] (2011). Prepatterning of developmental gene expression by modified histones before zygotic genome activation. Developmental Cell. ISSN 1534-5807. p. 993–1004. doi: 10.1016/j.devcel.2011.10.008.
Collas, Philippe (2011). Notice of redundant publication. Nuclear reprogramming in cell-free extracts. Philosophical Transactions of the Royal Society of London. Biological Sciences. ISSN 0962-8436. 366. doi: 10.1098/rstb.2011.0257.
Collas, Philippe (2011). A chromatin immunoprecipitation protocol for small cell numbers. Methods in molecular biology. ISSN 1064-3745. 791, p. 179–193. doi: 10.1007/978-1-61779-316-5_14.
Ugland, Hege Katrin; Naderi, Soheil; Brech, Andreas; Collas, Philippe & Blomhoff, Heidi Kiil (2011). cAMP induces autophagy via a novel pathway involving ERK, cyclin E and Beclin 1. Autophagy. ISSN 1554-8627. 7(10), p. 1199–1211. doi: 10.4161/auto.7.10.16649.

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Paulsen, Jonas & Collas, Philippe (2022). Modeling the 3D Genome Using Hi-C and Nuclear Lamin-Genome Contacts. In Bicciato, Silvio & Ferrari, Francesco (Ed.), Hi-C Data Analysis Methods and Protocols. Humana Press. ISSN 978-1-0716-1390-0. p. 337–352. doi: 10.1007/978-1-0716-1390-0_18.
Collas, Philippe; Mosbaha, Helena; Akinci, Baris; Araújo-Vilar, David; Tudela, Juan Carrion & Ceccarinif, Giovanni [Show all 29 contributors for this article] (2022). Proceedings of the annual meeting of the European Consortium of Lipodystrophies (ECLip) Cambridge, UK, 7–8 April 2022.
López-Soop, Graciela; Rønningen, Torunn; Rogala, Agnieszka; Richartz, Nina; Blomhoff, Heidi Kiil & Thiede, Bernd [Show all 8 contributors for this article] (2017). AKAP95 interacts with nucleoporin TPR in mitosis and is important for the spindle assembly checkpoint. Cell Cycle. ISSN 1538-4101. 16(10), p. 947–956. doi: 10.1080/15384101.2017.1310350..
Lopez Soop, Graciela; Reiner, Andrew Henry; Thiede, Bernd; Collas, Philippe & Küntziger, Thomas Michel (2015). Regulation of Normal Mitotic Progression by A-kinase Anchoring Protein 95 (AKAP95).
Küntziger, Thomas Michel; Lund, Eivind Gard & Collas, Philippe (2013). Signal molecules anchoring at proliferation and differentiation genes by A-Kinase Anchoring Protein (AKAP) 95.
Ivanauskiene, Kristina; Delbarre, Erwan; Küntziger, Thomas Michel & Collas, Philippe (2012). DAXX-dependent recruitment of histone variant H3.3 to PML bodies before deposition into chromatin. The FEBS Journal. ISSN 1742-464X. 279, p. 505–505.
Rønningen, torunn; Collas, Philippe & Moskaug, Jan Øivind (2012). Obesity associated growth factors and elevated glucose regulates expression of inflammation regulatory genes in human adipose derived mesenchymal stem cells.
Küntziger, Thomas Michel; Lund, Eivind Gard & Collas, Philippe (2012). Signal molecules anchoring at proliferation and differentiation genes by A-Kinase Anchoring Protein (AKAP) 95.
Collas, Philippe; Delbarre, Erwan; Küntziger, Thomas Michel; Lund, Eivind Gard; Ruppelt, Anja & Reiner, Andrew Henry [Show all 7 contributors for this article] (2012). Epigenetic programming of stromal cell fate. International Journal of Molecular Medicine. ISSN 1107-3756. 30, p. S57–S57.
Andersen, Ingrid Stavenes & Collas, Philippe (2011). Promoter DNA methylation profiling by MeDIP-chip during the mid-blastula transition.

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Published Apr. 13, 2011 2:41 PM - Last modified Oct. 31, 2022 8:17 AM

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Nuclear Architecture in Adipose and Cancer Stem Cells