bioRxiv preprints can be viewed here.

Pubmed indexed publications:

  1. Peñalosa-Ruiz, G, Mulder, KW, Veenstra, GJC. The corepressor NCOR1 and OCT4 facilitate early reprogramming by suppressing fibroblast gene expression. PeerJ. 2020;8 :e8952. doi: 10.7717/peerj.8952. PubMed PMID:32351783 PubMed Central PMC7183309.
  2. Hoste, E, Maueröder, C, van Hove, L, Catrysse, L, Vikkula, HK, Sze, M et al.. Epithelial HMGB1 Delays Skin Wound Healing and Drives Tumor Initiation by Priming Neutrophils for NET Formation. Cell Rep. 2019;29 (9):2689-2701.e4. doi: 10.1016/j.celrep.2019.10.104. PubMed PMID:31775038 .
  3. Peñalosa-Ruiz, G, Bright, AR, Mulder, KW, Veenstra, GJC. The interplay of chromatin and transcription factors during cell fate transitions in development and reprogramming. Biochim Biophys Acta Gene Regul Mech. 2019;1862 (9):194407. doi: 10.1016/j.bbagrm.2019.194407. PubMed PMID:31356991 .
  4. Peñalosa-Ruiz, G, Bousgouni, V, Gerlach, JP, Waarlo, S, van de Ven, JV, Veenstra, TE et al.. WDR5, BRCA1, and BARD1 Co-regulate the DNA Damage Response and Modulate the Mesenchymal-to-Epithelial Transition during Early Reprogramming. Stem Cell Reports. 2019;12 (4):743-756. doi: 10.1016/j.stemcr.2019.02.006. PubMed PMID:30880078 PubMed Central PMC6449870.
  5. Gerlach, JP, van Buggenum, JAG, Tanis, SEJ, Hogeweg, M, Heuts, BMH, Muraro, MJ et al.. Combined quantification of intracellular (phospho-)proteins and transcriptomics from fixed single cells. Sci Rep. 2019;9 (1):1469. doi: 10.1038/s41598-018-37977-7. PubMed PMID:30728416 PubMed Central PMC6365588.
  6. Tanis, SEJ, Köksal, ES, van Buggenum, JAGL, Mulder, KW. BLNCR is a long non-coding RNA adjacent to integrin beta-1 that is rapidly lost during epidermal progenitor cell differentiation. Sci Rep. 2019;9 (1):31. doi: 10.1038/s41598-018-37251-w. PubMed PMID:30631104 PubMed Central PMC6328539.
  7. Qu, J, Tanis, SEJ, Smits, JPH, Kouwenhoven, EN, Oti, M, van den Bogaard, EH et al.. Mutant p63 Affects Epidermal Cell Identity through Rewiring the Enhancer Landscape. Cell Rep. 2018;25 (12):3490-3503.e4. doi: 10.1016/j.celrep.2018.11.039. PubMed PMID:30566872 .
  8. van Eijl, RAPM, van Buggenum, JAGL, Tanis, SEJ, Hendriks, J, Mulder, KW. Single-Cell ID-seq Reveals Dynamic BMP Pathway Activation Upstream of the MAF/MAFB-Program in Epidermal Differentiation. iScience. 2018;9 :412-422. doi: 10.1016/j.isci.2018.11.009. PubMed PMID:30466065 PubMed Central PMC6249387.
  9. Tanis, SEJ, Jansen, PWTC, Zhou, H, van Heeringen, SJ, Vermeulen, M, Kretz, M et al.. Splicing and Chromatin Factors Jointly Regulate Epidermal Differentiation. Cell Rep. 2018;25 (5):1292-1303.e5. doi: 10.1016/j.celrep.2018.10.017. PubMed PMID:30380419 .
  10. van Buggenum, JAG, Gerlach, JP, Tanis, SEJ, Hogeweg, M, Jansen, PWTC, Middelwijk, J et al.. Immuno-detection by sequencing enables large-scale high-dimensional phenotyping in cells. Nat Commun. 2018;9 (1):2384. doi: 10.1038/s41467-018-04761-0. PubMed PMID:29921844 PubMed Central PMC6008431.
  11. Serandour, AA, Mohammed, H, Miremadi, A, Mulder, KW, Carroll, JS. TRPS1 regulates oestrogen receptor binding and histone acetylation at enhancers. Oncogene. 2018;37 (39):5281-5291. doi: 10.1038/s41388-018-0312-2. PubMed PMID:29895970 PubMed Central PMC6169732.
  12. Bruekers, SMC, Bao, M, Hendriks, JMA, Mulder, KW, Huck, WTS. Adaptation trajectories during adhesion and spreading affect future cell states. Sci Rep. 2017;7 (1):12308. doi: 10.1038/s41598-017-12467-4. PubMed PMID:28951547 PubMed Central PMC5615062.
  13. van Eijl, RAPM, van den Brand, T, Nguyen, LN, Mulder, KW. Reactivity of human AGO2 monoclonal antibody 11A9 with the SWI/SNF complex: A case study for rigorously defining antibody selectivity. Sci Rep. 2017;7 (1):7278. doi: 10.1038/s41598-017-07539-4. PubMed PMID:28779093 PubMed Central PMC5544689.
  14. Donati, G, Rognoni, E, Hiratsuka, T, Liakath-Ali, K, Hoste, E, Kar, G et al.. Wounding induces dedifferentiation of epidermal Gata6+ cells and acquisition of stem cell properties. Nat Cell Biol. 2017;19 (6):603-613. doi: 10.1038/ncb3532. PubMed PMID:28504705 PubMed Central PMC7610974.
  15. van Buggenum, JA, Gerlach, JP, Eising, S, Schoonen, L, van Eijl, RA, Tanis, SE et al.. A covalent and cleavable antibody-DNA conjugation strategy for sensitive protein detection via immuno-PCR. Sci Rep. 2016;6 :22675. doi: 10.1038/srep22675. PubMed PMID:26947912 PubMed Central PMC4780193.
  16. Stout, GJ, Stigter, EC, Essers, PB, Mulder, KW, Kolkman, A, Snijders, DS et al.. Insulin/IGF-1-mediated longevity is marked by reduced protein metabolism. Mol Syst Biol. 2013;9 :679. doi: 10.1038/msb.2013.35. PubMed PMID:23820781 PubMed Central PMC3734508.
  17. Wang, X, Castro, MA, Mulder, KW, Markowetz, F. Posterior association networks and functional modules inferred from rich phenotypes of gene perturbations. PLoS Comput Biol. 2012;8 (6):e1002566. doi: 10.1371/journal.pcbi.1002566. PubMed PMID:22761558 PubMed Central PMC3386165.
  18. Mulder, KW, Wang, X, Escriu, C, Ito, Y, Schwarz, RF, Gillis, J et al.. Diverse epigenetic strategies interact to control epidermal differentiation. Nat Cell Biol. 2012;14 (7):753-63. doi: 10.1038/ncb2520. PubMed PMID:22729083 .
  19. Goldie, SJ, Mulder, KW, Tan, DW, Lyons, SK, Sims, AH, Watt, FM et al.. FRMD4A upregulation in human squamous cell carcinoma promotes tumor growth and metastasis and is associated with poor prognosis. Cancer Res. 2012;72 (13):3424-36. doi: 10.1158/0008-5472.CAN-12-0423. PubMed PMID:22564525 PubMed Central PMC3428932.
  20. Markowetz, F, Mulder, KW, Airoldi, EM, Lemischka, IR, Troyanskaya, OG. Mapping dynamic histone acetylation patterns to gene expression in nanog-depleted murine embryonic stem cells. PLoS Comput Biol. 2010;6 (12):e1001034. doi: 10.1371/journal.pcbi.1001034. PubMed PMID:21187909 PubMed Central PMC3002996.
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