Foutadakis, S., Roupakia, E., Liakopoulos P., Kolovos P.#, Kolettas E.# (2022). An Expanded Interplay Network between NF-κB p65 (RelA) and E2F1 Transcription Factors: Roles in Physiology and Pathology. Cancers, 14, 5047. (#Corresponding authors)
Kiousi DE., Efstathiou C., Tegopoulos K., Mantzourani I., Alexopoulos A., Plessas S., Kolovos P., Koffa M., Galanis A. (2022). Genomic Insight Into Lacticaseibacillus paracaseiSP5, Reveals Genes and Gene Clusters of Probiotic Interest and Biotechnological Potential. Front Microbiol. 13:922689
Schilders KAA., Edel GG., Eenjes E., Oresta B., Birkhoff J., Boerema-de Munck A., Buscop-van Kempen M., Liakopoulos P., Kolovos P., Demmers JAA., Poot R., Wijnen RMH., Tibboel D. and Rottier RJ. (2022) Identification of SOX2 Interacting Proteins in the Developing Mouse Lung With Potential Implications for Congenital Diaphragmatic Hernia. Pediatr 10:881287
Tegopoulos K., Stergiou OS., Kiousi DE., Tsifintaris M., Koletsou E., Papageorgiou AC., Argyri AA., Chorianopoulos N., Galanis A.# and Kolovos P.# (2021) Genomic and Phylogenetic Analysis of Lactiplantibacillus plantarum L125, and Evaluation of Its Anti-Proliferative and Cytotoxic Activity in Cancer Cells. Biomedicines9, 1718. (#Corresponding authors)
Stergiou OS., Tegopoulos K., Kiousi DE., Tsifintaris M., Papageorgiou AC., Tassou CC., Chorianopoulos N., Kolovos P.# and Galanis A.# (2021) Whole-Genome Sequencing, Phylogenetic and Genomic Analysis of Lactiplantibacillus pentosus L33, a Potential Probiotic Strain Isolated From Fermented Sausages. Front. Microbiol.12:746659. (#Corresponding authors)
Boltsis I., Grosveld F., Giraud G.#, and Kolovos P.# (2021). Chromatin Conformation in Development and Disease. Front Cell Dev Biol9: 723859. (#Corresponding authors)
Giraud, G.*, Kolovos, P.*, Boltsis, I.*, van Staalduinen, J., Guyot, B., Weiss-Gayet, M., WV, I.J., Morle, F., and Grosveld, F. (2021). Interplay between FLI-1 and the LDB1 complex in murine erythroleukemia cells and during megakaryopoiesis. iScience 24, 102210. (*Equal Contribution)
Kolovos, P.*, Nishimura, K.*, Sankar, A.*, Sidoli, S., Cloos, P.A., Helin, K., and Christensen, J. (2020). PR-DUB maintains expression of critical genes through FOXK1/2- and ASXL1/2/3-dependent recruitment to chromatin and H2AK119ub1 deubiquitination. Genome Res. 30, 1119-1130 (*Equal Contribution)
Birkhoff, J.C., Brouwer, R.W.W., Kolovos, P., Korporaal, A.L., Bermejo-Santos, A., Boltsis, I., Nowosad, K., Hout, M., Grosveld, F.G., van, I.W.F.J., et al. (2020). Targeted Chromatin Conformation (T2C) analysis identifies novel distal neural enhancers of ZEB2 in pluripotent stem cell differentiation. Hum Mol Genet. 29, 2535-2550
Yu, X., Martella, A., Kolovos, P., Stevens, M., Stadhouders, R., Grosveld, F.G., and Andrieu-Soler, C. (2020). The dynamic emergence of GATA1 complexes identified in in vitro embryonic stem cell differentiation and in vivo mouse fetal liver. Haematologica 105, 1802-1812.
Laugsch, M., Bartusel, M., Rehimi, R., Alirzayeva, H., Karaolidou, A., Crispatzu, G., Zentis, P., Nikolic, M., Bleckwehl, T., Kolovos, P., et al. (2019). Modeling the Pathological Long-Range Regulatory Effects of Human Structural Variation with Patient-Specific hiPSCs. Cell Stem Cell 24, 736-752 e712.
Kolovos, P.#, Brouwer, R.W.W., Kockx, C.E.M., Lesnussa, M., Kepper, N., Zuin, J., Imam, A.M.A., van de Werken, H.J.G., Wendt, K.S., Knoch, T.A., et al. (2018). Investigation of the spatial structure and interactions of the genome at sub-kilobase-pair resolution using T2C. Nat Protoc 13, 459-477 (#Corresponding author)
Zuin, J., Casa, V., Pozojevic, J., Kolovos, P., van den Hout, M., van Ijcken, W.F.J., Parenti, I., Braunholz, D., Baron, Y., Watrin, E., et al. (2017). Regulation of the cohesin-loading factor NIPBL: Role of the lncRNA NIPBL-AS1 and identification of a distal enhancer element. PLoS Genet 13, e1007137.
Cruz-Molina, S., Respuela, P., Tebartz, C., Kolovos, P., Nikolic, M., Fueyo, R., van Ijcken, W.F.J., Grosveld, F., Frommolt, P., Bazzi, H., et al. (2017). PRC2 Facilitates the Regulatory Topology Required for Poised Enhancer Function during Pluripotent Stem Cell Differentiation. Cell Stem Cell 20, 689-705 e689.
Chondrou, V., Kolovos, P., Sgourou, A., Kourakli, A., Pavlidaki, A., Kastrinou, V., John, A., Symeonidis, A., Ali, B.R., Papachatzopoulou, A., et al. (2017). Whole transcriptome analysis of human erythropoietic cells during ontogenesis suggests a role of VEGFA gene as modulator of fetal hemoglobin and pharmacogenomic biomarker of treatment response to hydroxyurea in beta-type hemoglobinopathy patients. Hum Genomics 11, 24.
Kolovos, P.#, Georgomanolis, T., Koeferle, A., Larkin, J.D., Brant, L., Nikolicc, M., Gusmao, E.G., Zirkel, A., Knoch, T.A., van Ijcken, W.F., et al. (2016). Binding of nuclear factor kappaB to noncanonical consensus sites reveals its multimodal role during the early inflammatory response. Genome Res 26, 1478-1489. (#Corresponding author)
Brant, L., Georgomanolis, T., Nikolic, M., Brackley, C.A., Kolovos, P., van Ijcken, W., Grosveld, F.G., Marenduzzo, D., and Papantonis, A. (2016). Exploiting native forces to capture chromosome conformation in mammalian cell nuclei. Mol Syst Biol 12, 891.
Knoch, T.A., Wachsmuth, M., Kepper, N., Lesnussa, M., Abuseiris, A., Ali Imam, A.M., Kolovos, P., Zuin, J., Kockx, C.E.M., Brouwer, R.W.W., et al. (2016). The detailed 3D multi-loop aggregate/rosette chromatin architecture and functional dynamic organization of the human and mouse genomes. Epigenetics Chromatin 9, 58.
Caputo, L., Witzel, H.R., Kolovos, P., Cheedipudi, S., Looso, M., Mylona, A., van, I.W.F., Laugwitz, K.L., Evans, S.M., Braun, T., et al. (2015). The Isl1/Ldb1 Complex Orchestrates Genome-wide Chromatin Organization to Instruct Differentiation of Multipotent Cardiac Progenitors. Cell Stem Cell 17, 287-299.
Tresini, M., Warmerdam, D.O., Kolovos, P., Snijder, L., Vrouwe, M.G., Demmers, J.A., van, I.W.F., Grosveld, F.G., Medema, R.H., Hoeijmakers, J.H., et al. (2015). The core spliceosome as target and effector of non-canonical ATM signalling. Nature 523, 53-58.
Ferri, F., Parcelier, A., Petit, V., Gallouet, A.S., Lewandowski, D., Dalloz, M., van den Heuvel, A., Kolovos, P., Soler, E., Squadrito, M.L., et al. (2015). TRIM33 switches off Ifnb1 gene transcription during the late phase of macrophage activation. Nat Commun 6, 8900.
Stadhouders, R., Cico, A., Stephen, T., Thongjuea, S., Kolovos, P., Baymaz, H.I., Yu, X., Demmers, J., Bezstarosti, K., Maas, A., et al. (2015). Control of developmentally primed erythroid genes by combinatorial co-repressor actions. Nat Commun 6, 8893.
Diermeier, S.*, Kolovos, P.*, Heizinger, L., Schwartz, U., Georgomanolis, T., Zirkel, A., Wedemann, G., Grosveld, F., Knoch, T.A., Merkl, R., et al. (2014). TNFalpha signalling primes chromatin for NF-kappaB binding and induces rapid and widespread nucleosome repositioning. Genome Biol 15, 536. (*Equal contribution)
Kolovos, P., van de Werken, H.J., Kepper, N., Zuin, J., Brouwer, R.W., Kockx, C.E., Wendt, K.S., van, I.W.F., Grosveld, F., and Knoch, T.A. (2014). Targeted Chromatin Capture (T2C): a novel high resolution high throughput method to detect genomic interactions and regulatory elements. Epigenetics Chromatin 7, 10.
Zuin, J., Dixon, J.R., van der Reijden, M.I., Ye, Z., Kolovos, P., Brouwer, R.W., van de Corput, M.P., van de Werken, H.J., Knoch, T.A., van, I.W.F., et al. (2014). Cohesin and CTCF differentially affect chromatin architecture and gene expression in human cells. Proc Natl Acad Sci U S A 111, 996-1001.
Stadhouders, R., de Bruijn, M.J., Rother, M.B., Yuvaraj, S., Ribeiro de Almeida, C., Kolovos, P., Van Zelm, M.C., van Ijcken, W., Grosveld, F., Soler, E., et al. (2014). Pre-B cell receptor signaling induces immunoglobulin kappa locus accessibility by functional redistribution of enhancer-mediated chromatin interactions. PLoS Biol 12, e1001791.
Stadhouders, R.*, Kolovos, P.*, Brouwer, R.*, Zuin, J., van den Heuvel, A., Kockx, C., Palstra, R.J., Wendt, K.S., Grosveld, F., van Ijcken, W., et al. (2013). Multiplexed chromosome conformation capture sequencing for rapid genome-scale high-resolution detection of long-range chromatin interactions. Nat Protoc 8, 509-524. (*Equal Contribution)
Kolovos, P., Knoch, T.A., Grosveld, F.G., Cook, P.R., and Papantonis, A. (2012). Enhancers and silencers: an integrated and simple model for their function. Epigenetics Chromatin 5, 1.
Stadhouders, R., van den Heuvel, A., Kolovos, P., Jorna, R., Leslie, K., Grosveld, F., and Soler, E. (2012). Transcription regulation by distal enhancers: who’s in the loop? Transcription 3, 181-186.
van den Driesche, S., Kolovos, P., Platts, S., Drake, A.J., and Sharpe, R.M. (2012). Inter-relationship between testicular dysgenesis and Leydig cell function in the masculinization programming window in the rat. PLoS One 7, e30111.
