Physiological Chemistry

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2021 - 2023

  1. Single-cell metabolic profiling reveals subgroups of primary human hepatocytes with heterogeneous responses to drug challenge.
    Sanchez-Quant E, Richter ML, Colomé-Tatché M and Martinez-Jimenez CP.
    Genome Biol. 2023 Oct 17;24(1):234. doi: 10.1186/s13059-023-03075-9.
  2. Disordered protein regions partner up the cBAF remodeler for a chromatin dance.
    Heimhalt M and Ladurner AG.
    Mol Cell. 2023 Nov 2;83(21):3763-3765. doi: 10.1016/j.molcel.2023.10.002.
  3. The histone chaperone ANP32B regulates chromatin incorporation of the atypical human histone variant macroH2A.
    Mandemaker IK, Fessler E, Corujo D, Kotthoff C, Wegerer A, Rouillon C, Buschbeck M, Jae LT, Mattiroli F and Ladurner AG.
    Cell Rep. 2023 Oct 18;42(10):113300. doi: 10.1016/j.celrep.2023.113300.
  4. CSF3R T618I Collaborates With RUNX1-RUNX1T1 to Expand Hematopoietic Progenitors and Sensitizes to GLI Inhibition.
    Swoboda AS, Arfelli VC, Danese A, Windisch R, Kerbs P, Redondo Monte E, Bagnoli JW, Chen-Wichmann L, Caroleo A, Cusan M, Krebs S, Blum H, Sterr M, Enard W, Herold T, Colomé-Tatché M, Wichmann C and Greif PA.
    Hemasphere 2023 Oct 11;7(10):e958. doi: 10.1097/HS9.0000000000000958. eCollection 2023 Oct.
  5. epiAneufinder identifies copy number alterations from single-cell ATAC-seq data.
    Ramakrishnan A, Symeonidi A, Hanel P, Schmid KT, Richter ML, Schubert M and Colomé-Tatché M.
    Nat Commun. 2023 Sept 14:5846.
  6. Pioneers conquer core histones at the chromatin frontier.
    Murawska M, Ladurner AG and Margulies CE.
    Nat Struct Mol Biol 2023 Aug;30(8):1050-1053. doi: 10.1038/s41594-023-01058-9.
  7. Decoding the impact of nuclear organization on antigenic variation in parasites.
    Barcons-Simon A, Carrington M and Siegel TN.
    Nat Microbiol. 2023 Aug;8(8):1408-1418
  8. CIARA: a cluster-independent algorithm for the identification of markers of rare cell types from single-cell sequencing data.
    Lubatti G, Stock M, Iturbide A, Ruiz Tejada Segura ML, Riepl M, Tyser RCV, Danese A, Colomé-Tatché M, Theis FJ, Srinivas S, Torres-Padilla M-E and A. Scialdone.
    Development 150 (11): dev201264 (2023).
  9. The inner nuclear membrane Lem2 coordinates RNA degradation at the nuclear periphery.
    Martín Caballero L, Capella M, Barrales RR, Dobrev N, van Emden T, Hirano Y, Suma Sreechakram VN, Fischer-Burkart S, Kinugasa Y, Nevers A, Rougemaille M, Sinning I, Fischer T, Hiraoka Y, and Braun S.
    Nature Struct & Mol Biol 2022 29(9):910-921. doi: 10.1038/s41594-022-00831-6.
  10. XPC-PARP complexes engage the chromatin remodeler ALC1 to catalyze global genome DNA damage repair.
    Blessing C, Apelt K, van den Heuvel D, Gonzalez-Leal C, Rother MB, van der Woude M, González-Prieto R, Yifrach A, Parnas A, Shah RG, Kuo TT, Boer DEC, Cai J, Kragten A, Kim HS, Schärer OD, Vertegaal ACO, Shah GM, Adar S, Lans H, van Attikum H, Ladurner AG and Luijsterburg MS.
    Nat Commun. 2022 Aug 13;13(1):4762. doi: 10.1038/s41467-022-31820-4.
  11. Chaperoning heterochromatin: new roles of FACT in chromatin silencing.
    Murawska M and Braun S.
    Trends Genet. 2022 Mar 15; S0168-9525(22)00038-5. doi: 10.1016/j.tig.2022.02.011.
  12. H3K36 methylation and DNA-binding both promote Ioc4 recruitment and Isw1b remodeler function.
    Li J, Bergmann L, Rafael de Almeida A, Webb KM, Gogol MM, Voigt P, Liu Y, Liang H, and Smolle MM.
    Nucleic Acids Res. 2022 Feb 21, doi: 10.1093/nar/gkac077. Online ahead of print.
  13. Rbfox1 is required for myofibril development and maintaining fiber type-specific isoform expression in Drosophila muscles.
    Nikonova E, Mukherjee A, Kamble K, Barz C, Nongthomba U, Spletter ML.
    Life Sci Alliance. 2022 Jan 7;5(4):e202101342. doi: 10.26508/lsa.202101342.
  14. Partitioning RNAs by length improves transcriptome reconstruction from short-read RNA-seq data.
    Ringeling FR, Chakraborty S, Vissers C, Reiman D, Patel AM, Lee KH, Hong A, Park CW, Reska T, Gagneur J, Chang H, Spletter ML, Yoon KJ, Ming GL, Song H, Canzar S.
    Nat Biotechnol. 2022 Jan 10. doi: 10.1038/s41587-021-01136-7.
  15. Benchmarking atlas-level data integration in single-cell genomics.
    Luecken MD, Büttner M, Chaichoompu K, Danese A, Interlandi M, Mueller MF, Strobl DC, Zappia L, Dugas M, Colomé-Tatché M and Theis FJ.
    Nat Methods. 2021 Dec 23. doi: 10.1038/s41592-021-01336-8.
  16. Evolution of a histone variant involved in compartmental regulation of NAD metabolism.
    Guberovic I, Hurtado-Bagès S, Rivera-Casas C, Knobloch G, Malinverni R, Valero V, Leger MM, García J, Basquin J, Gómez de Cedrón M, Frigolé-Vivas M, Cheema MS, Pérez A, Ausió J, Ramírez de Molina A, Salvatella X, Ruiz-Trillo I, Eirin-Lopez JM, Ladurner AG and Buschbeck M.
    Nat Struct Mol Biol. 2021 Dec;28(12):1009-1019. doi: 10.1038/s41594-021-00692-5.
  17. Allele-specific assembly of a eukaryotic genome corrects apparent frameshifts and reveals a lack of nonsense-mediated mRNA decay.
    Cosentino RO, Brink BG and Siegel TN.
    NAR Genom Bioinform. 2021 Sep 16;3(3):lqab082. doi: 10.1093/nargab/lqab082. eCollection 2021
  18. The histone chaperone FACT facilitates heterochromatin spreading by regulating histone turnover and H3K9 methylation states.
    Murawska M, Greenstein RA, Schauer T, Olsen KCF, Ng H, Ladurner AG, Al-Sady B and Braun S.
    Cell Rep. 2021, DOI:
  19. Chemical synthesis of linear ADP-ribose oligomers up to pentamer and their binding to the oncogenic helicase ALC1.
    Liu Q, Knobloch G, Voorneveld J, Meeuwenoord NJ, Overkleeft HS, van der Marel GA, Ladurner AG and Filippov DV.
    Chem Sci. 2021 Aug 18;12(37):12468-12475. doi: 10.1039/d1sc02340c. eCollection 2021 Sep 29.
  20. A Candidate RNAi Screen Reveals Diverse RNA-Binding Protein Phenotypes in Drosophila Flight Muscle.
    Kao S-Y*, Nikonova E*, Chaabane S, Sabani A, Martitz A, Wittner A, Heemken J, Straub T and Spletter ML.
    Cells 2021, 10(10), 2505;
  21. EpiScanpy: integrated single-cell epigenomic analysis
    Danese A, Richter ML, Chaichoompu K, Fischer DS, Theis FJ and Colomé-Tatché M.
    Nat Commun. 2021 Sep 1;12(1):5228. doi: 10.1038/s41467-021-25131-3.
  22. Crosstalk between Drp1 phosphorylation sites during mitochondrial remodeling and their impact on metabolic adaptation.
    Valera-Alberni M, Joffraud M, Miro-Blanch J, Capellades J, Junza A, Dayon L, Galindo AN, Sanchez-Garcia JL, Valsesia A, Cercillieux A, Söllner F, Ladurner AG, Yanes O and Cantó C.
    Cell Rep. 2021 Aug 24;36(8):109565. doi: 10.1016/j.celrep.2021.109565.
  23. Nucleolar release of rDNA repeats for repair involves SUMO-mediated untethering by the Cdc48/p97 segregase.
    Capella M, Mandemaker IK, Caballero Martín L, den Brave F, Pfander B, Ladurner AG, Jentsch S. and Braun S.
    Nat Commun. 2021 Aug 13;12(1):4918. doi: 10.1038/s41467-021-25205-2.
  24. Cell-to-Cell Heterogeneity in Trypanosomes.
    Luzak V, López-Escobar L, Siegel TN and Figueiredo LM.
    Annu Rev Microbiol. 2021, Jul 6. doi: 10.1146/annurev-micro-040821-012953. Online ahead of print.
  25. Crosstalk between H2A variant-specific modifications impacts vital cell functions.
    Schmücker A, Lei B, Lorković ZJ, Capella M, Braun S, Bourguet P, Mathieu O, Mechtler K and Berger F.
    PLoS Genet. 2021, Jun 4;17(6):e1009601. doi: 10.1371/journal.pgen.1009601. eCollection 2021 Jun.
  26. Rbfox1 is required for myofibril development and maintaining fiber-type specific isoform expression in Drosophila muscles.
    Nikonova E, Kamble K, Mukherjee A, Barz C, Nongthomba U and Spletter ML.
    bioRxiv 2021, doi:
  27. A triskelion of nucleic acids drives protein aggregation in A-T.
    Gonzalez-Leal C and Ladurner AG.
    Mol Cell 2021, Apr 01;81(7):1367-1369.
  28. Features of MOG required for recognition by patients with MOG antibody-associated disorders.
    Macrini C, Gerhards R, Winklmeier S, Bergmann L, Mader S, Spadaro M, Vural A, Smolle M, Hohlfeld R, Kümpfel T, Lichtenthaler SF, Franquelim HG, Jenne D, Meinl E.
    Brain. 2021 Mar 11:awab105. doi: 10.1093/brain/awab105. Online ahead of print.
  29. Spatial integration of transcription and splicing in a dedicated compartment sustains monogenic antigen expression in African trypanosomes.
    Faria J, Luzak V, Müller L.S.M., Brink BG, Hutchinson S, Glover L, Horn D and Siegel TN.
    Nature Microbiology 2021;