Publications at FLI

2025

• Placental epigenetic clocks derived from crowdsourcing: Implications for the study of accelerated aging in obstetrics.
  Bhatti G, Sufriyana H, Romero R, Patel T, Tekola-Ayele F, Alsaggaf I, Gomez-Lopez N, Su ECY, Done B, Hoffmann S, van Bömmel A, Wan C, Albrecht J, Novak C, DREAM Placenta Clock Challenge Consortium, Chaiworapongsa T, Sirota M, Aghaeepour N, Stolovitzky G, Bryant DR, Tarca AL
  iScience 2025, 28(8), 113181
  
• Integrative multiomic approaches reveal ZMAT3 and p21 as conserved hubs in the p53 tumor suppression network.
  Boutelle AM, Mabene AR, Yao D, Xu H, Wang M, Tang YJ, Lopez SS, Sinha S, Demeter J, Cheng R, Benard BA, McCrea EM, Valente LJ, Drainas AP, Fischer M, Majeti R, Petrov DA, Jackson PK, Yang F, Winslow MM, Bassik MC, Attardi LD
  Cell Death Differ 2025, 32(11), 1954-69
  
• Rapid brain tumor classification from sparse epigenomic data.
  Brändl B, Steiger M, Kubelt C, Rohrandt C, Zhu Z, Evers M, Wang G, Schuldt B, Afflerbach AK, Wong D, Lum A, Halldorsson S, Djirackor L, Leske H, Magadeeva S, Smičius R, Quedenau C, Schmidt NO, Schüller U, Vik-Mo EO, Proescholdt M, Riemenschneider MJ, Zadeh G, Ammerpohl O, Yip S, Synowitz M, van Bömmel** A, Kretzmer** H, Müller** FJ
  Nat Med 2025, 31(3), 840-8 ** co-corresponding authors
  
• Translational Remodeling of the Synaptic Proteome During Aging.
  Caterino C, Ugolini M, Durso W, Jevdokimenko K, Groth M, Riege K, Görlach M, Fornasiero E, Ori A, Hoffmann S, Cellerino A
  Aging Cell 2025, 24(12), e70262
  
• Distinct Effects of Aging and Klotho Deletion on the Choroid Plexus
  Fanaei-Kahrani Z, Patel T, Valkova C, Gloria A, Wagner J, Heuer H, Schwaninger M, Hofmann S, Bauer R, Kaether C
  bioRxiv 2025, https://doi.org/10.1101/2025.11.
  
• p53 reveals principles of chromatin remodeling and enhancer activation.
  Fischer M, Schwarz* R, Riege* K, Förste S, Schwab K, Wiechens E, van Bömmel A, Hoffmann S
  Nucleic Acids Res 2025, 53(11), gkaf465 * equal contribution
  
• Multi-omics analysis highlights the link of aging-related cognitive decline with systemic inflammation and alterations of tissue-maintenance
  Flor S, Dost T, Haase M, Simon R, Ederer S, Samer Kadibalban A, Taubenheim J, Olecka M, Walker A, Zimmermann J, Marinos G, Franzenburg S, Schmitt-Kopplin P, Baines J, Riege K, Hoffmann S, Best L, Frahm C, Kaleta C
  bioRxiv 2025, https://doi.org/10.1101/2025.07.
  
• Subtyping Burkitt Lymphoma by DNA Methylation.
  Glaser S, Wagener R, Kretzmer H, López C, Baptista MJ, Bens S, Bernhart S, Bhatia K, Borkhardt A, Elgaafary S, Hoffmann S, Hübschmann D, Hummel M, Klapper W, Kolarova J, Kreuz M, Lazzi S, Löffler M, Navarro JT, Neequaye J, Onyango N, Onyuma T, Ott G, Radlwimmer B, Rohde M, Rosenwald A, Rosolowski M, Schlesner M, Szczepanowski M, Tapia G, Wößmann W, Küppers R, Trümper L, Leoncini L, Lichter P, Del Val C, Ammerpohl O, Burkhardt B, Mbulaiteye SM, Siebert R, ICGC MMML‐Seq Consortium MMML Project
  Genes Chromosomes Cancer 2025, 64(4), e70042
  
• The transcriptome of the olm provides insights into its evolution and gene expression.
  Holtze S, Demirtürk D, Ohlenschläger O, Hegele S, Siniuk K, Förste S, Raghavan V, Groth M, Bens M, Hassel N, Martel A, Lukač M, Cizelj I, Fischer M, Liu H, Hildebrandt TB, Hoffmann S, Sahm A
  Sci Rep 2025, 15(1), 28324
  
• Pipeline Olympics: continuable benchmarking of computational workflows for DNA methylation sequencing data against an experimental gold standard.
  Lin YY, Breuer K, Weichenhan D, Lafrenz P, Sarnataro A, Wilk A, Chepeleva M, Mücke O, Schönung M, Petermann F, Kensche PR, Weiser L, Thommen F, Giacomelli G, Nordstroem K, Gonzalez-Avalos E, Merkel A, Kretzmer H, Fischer J, Krämer S, Iskar M, Wolf S, Buchhalter I, Esteller M, Lawerenz C, Twardziok S, Zapatka M, Hovestadt V, Schlesner M, Schulz MH, Hoffmann S, Gerhauser C, Walter J, Hartmann M, Lipka DB, Assenov Y, Bock C, Plass C, Toth R, Lutsik P
  Nucleic Acids Res 2025, 53(19), gkaf970