Publications

Analysis of Biological Age

• Puri D, Wagner W. Epigenetic Rejuvenation by Partial Reprogramming. BioEssays (2023)

• Vieri M, Tharmapalan V, Kalmer M, Baumeister J, Nicolic M, Schnitker M, Kirschner M, Flosdorf N, de Toledo M A S, Zenke M, Koschmieder S, Brümmendorf T H, Beier F, Wagner W. Cellular aging is accelerated in the malignant clone of myeloproliferative neoplasms. Blood Cancer Journal, (2023)

• Perez-Correa J.-F., Tharmapalan V., Geiger H., Wagner W. Epigenetic clocks for mice based on age-associated regions that are conserved between mouse strains and human. Frontiers in Cell and Developmental Biology. (2022).

• W. Wagner. How to translate DNA methylation biomarkers into clinical practice. W. Wagner, Frontiers in Cell and Developmental Biology (2022).

• Mayer F., Becker J., Reinauer C., Böhme P., Eickhoff S.B., Koop B., Gündüz T., Blum J., Wagner W., Ritz-Timme S. Altered DNA methylation at age‑associated CpG sites in children with growth disorders: impact on age estimation?International Journal of Legal Medicine (2022).

• Franzen J, Nüchtern S, Tharmapalan V, Vieri M, Nikolic M, Han Y, Balfanz P, Marx N, Dreher M, Brümmendorf TH, Dahl E, Beier F, Wagner W. Epigenetic clocks are not accelerated in COVID-19 patients. International Journal of Molecular Sciences, (2021) 22: 9306.

• Becker J, Böhme P, Reckert A, Eickhoff SB, Koop BE, Blum J, Gündüz T, Takayama M, Wagner W, Ritz-Timme S. Evidence for differences in DNA methylation between Germans and Japanese: Impact on epigenetic age estimation. International Journal of Legal Medicine, (2021)

• Naue J, Pfeifer M, Augustin C, Becker J, Fleckhaus J, Grabmüller M, Han Y, Heidorn F, Hollaender O, Klein-Unseld R, Kulstein G, Lichtenwald J, Neubauer J, Suarez P, Haas C, Schneider PM, Vennemann M, Böhme P, Arbeitsgemeinschaft Molekulare Altersschätzung der Deutschen Gesellschaft für Rechtsmedizin (DGRM). Forensische DNA-Methylierungsanalyse: Zweiter, technischer Ringversuch der Arbeitsgruppe „Molekulare Altersschätzung“ der Deutschen Gesellschaft für Rechtsmedizin, Rechtsmedizin, (2021) 31: 202–216. 

• Sibert NT, Ferreira MSV, Wagner W, Eipel M, Brümmendorf TH, Orlikowsky T, Beier F. Telomere length and epigenetic age of preterm neonates as potential biomarkers for the-/indicators of- organismal growth in preterm neonates. Experimental and Therapeutic Medicine, (2021) 21: 344.

• Siahaan T, Reckert A, Becker J, Eickhoff SB, Koop B, Gündüz T, Böhme P, Mayer F, Küppers L, Wagner W, Ritz-Timme S. Molecular and morphological findings in a sample of oral surgery patients: What can we learn for multivariate concepts for age estimation?Journal of Forensic Sciences, (2021) 66: 1524-1532.

• Florian MC, Leins H, Gobs M, Han Y, Marka G, Soller K, Vollmer A, Sakk V, Nattamai KH, Rayes A, Zhao X, Setchell K, Mulaw M, Wagner W, Zheng Y, Geiger H. Inhibition of Cdc42 activity extends lifespan and decreases circulating inflammatory cytokines in aged female C57BL/6 mice. Aging Cell, 2020

• Han Y, Franzen J, Stiehl T, Gobs M, Kuo CC, Nikolic M, Hapala J, Koop BE, Strathmann K, Ritz-Timme S, Wagner W. New Targeted Approaches for Epigenetic Age Predictions. BMC Biology, 2020

• Koop BE, Mayer F, Gündüz T, Blum J, Becker J, Schaffrath J, Wagner W, Han Y, Boehme P, Ritz-Timme S. Postmortem age estimation via DNA methylation analysis in buccal swabs from corpses in different stages of decomposition - A “proof of principle” study. International Journal of Legal Medicine, 2020

• Koop BE, Reckert A, Becker J, Han Y, Wagner W, Ritz-Timme S. Epigenetic clocks may come out of rhythm – Implications for the estimation of chronological age in forensic casework. International Journal of Legal Medicine, 2020

• Brown A, Schuetz D, Han Y, Daria D, Nattamai KJ, Eiwen K, Sakk V, Pospiech J, Saller T, van Zant G, Wagner W, Geiger H. The lifespan quantitative trait locus gene securin controls hematopoietic progenitor cell function. Haematologica. 2019 

• Wagner W. The Link between Epigenetic Clocks for Aging and Senescence. Frontiers in Genetics, 2019

• Bell CG, Lowe R, Adams PD, Baccarelli AA, Beck S, Bell JT, Christensen BC, Gladyshev VN, Heijmans BT, Horvath S, Idecker T, Issa P-J, Kelsey KT, Marioni RE, Reik W, Relton CL, Schalkwyk LC, Teschendorff AE, Wagner W, Zhang K, Rakyan VK. DNA methylation aging clocks: challenges and recommendations. Genome Biology. 2019

• Han Y, et al. Epigenetic age-predictor for mice based on three CpG sites. Elife, 2018

• Marioni R, Belsky DW, Deary IJ, Wagner W. Association of Facial Aging with DNA Methylation and Epigenetic Age Predictions. Clinical Epigenetics. 2018

• Sheng C, et al. A stably self-renewing adult blood-derived induced neural stem cell exhibiting patternability and epigenetic rejuvenation. Nature Communications, 2018

• Frobel J, et al. Epigenetic aging of human hematopoietic cells is not accelerated upon transplantation into mice. Clinical Epigenetics, 2018

• Fernandez-Rebollo E, et al, Primary osteoporosis is not reflected by disease-specific DNA. Journal of Bone and Mineral Research, 2018

• Zhang Y, et al. Individual CpG Sites that are Associated with Age and Life Expectancy become Hypomethylated upon Aging. Clinical Epigenetics, 2017

• Wagner W. Epigenetic aging clocks in mice and men. Genome Biology, 2017

• Eipel M, et al. Epigenetic age predictions based on buccal swabs are more precise in combination with cell type-specific DNA methylation signatures. Aging 2016

• Lin Q, et al. DNA methylation levels at individual age-associated CpG sites can be indicative for life expectancy. Aging 2016

• Lin Q, Wagner W. Epigenetic Aging Signatures are Coherently Modified in Cancer.  PLoS Genetics 2015

• Weidner CI, et al. Epigenetic aging upon allogeneic transplantation: the hematopoietic niche does not affect age-associated DNA methylation. Leukemia 2015

• Wagner W, Weidner CI, Lin Q. Do age-associated DNA methylation changes increase the risk of malignant transformation? Bioessays. 2015

• Weidner CI et al. Aging of blood can be tracked by DNA methylation changes at just three CpG sites. Genome Biology, 2014

• Weidner CI, Wagner W. The Epigenetic Tracks of Aging. Biol. Chem. 2014;

• Fuellen G et al. In-Silico-Approaches and the Role of Ontologies in Aging Research. Rejuvenation Res. 2013

• Horvath S. DNA methylation age of human tissues and cell types. Genome Biol. 2013

• Koch C and Wagner W. Epigenetic-Aging-Signature to determine age in different tissues. Aging 2011

• Koch C*, Suschek CV* et al. Specific age-associated DNA methylation changes in human dermal fibroblasts. PLoS ONE 2011

• Teschendorff AE et al. Age-dependent DNA methylation of genes that are suppressed in stem cells is a hallmark of cancer. Genome Res. 2010

• Bork S*, Pfister S* et al. DNA Methylation Pattern Changes upon Long-Term Culture and Aging of Human Mesenchymal Stromal Cells. Aging Cell, 2010

Analysis of Replicative Senescence

• Salz L, Seitz A, Schäfer D, Franzen J, Holzer T, Garcia-Prieto CA, Bürger I, Hardt O, Esteller M, Wagner W. Culture expansion of CAR T cells results in aberrant DNA methylation that is associated with adverse clinical outcome. Leukemia. (2023)

• Cypris O., Franzen J., Frobel J., Glück P., Kuo C.-C., Schmitz S., Nüchtern S., Zenke M., Wagner W. Hematopoietic differentiation persists in human iPSCs defective in de novo DNA methylation. BMC Biology, 2022

• Franzen J, Georgomanolis T, Selich A, Kuo CC, Stöger R, Brant L, Mulabdić MS, Fernandez-Rebollo E, Grezella C, Ostrowska A, Begemann M, Nikolić M, Rath B, Ho AD, Rothe M, Schambach A, Papantonis A, Wagner W. DNA methylation changes during long-term in vitro cell culture are caused by epigenetic drift. Commun Biol. 2021

• Fernandez-Rebollo E, Franzen J, Goetzke R, Hollmann J, Ostrowska A, Oliverio M, Sieben T, Rath B, Kornfeld J-W, Wagner W. Senescence-associated metabolomic phenotype in primary and iPSC-derived mesenchymal stromal cells. Stem Cell Reports, 2020

• Hollmann J, Brecht J, Goetzke R, Franzen J, Selich A, Schmidt M, Eipel M, Ostrowska A, Hapala J, Fernandez-Rebollo E, Müller-Newen G, Rothe M, Eggermann T, Zenke M, Wagner W. Genetic Barcoding Reveals Clonal Dominance in iPSC-Derived Mesenchymal Stromal Cells. Stem Cell Research & Therapy, 2020

• Wagner W. The Link between Epigenetic Clocks for Aging and Senescence. Frontiers in Genetics, 2019

• Göbel C, et al. Interrupted reprogramming into induced pluripotent stem cells does not rejuvenate human mesenchymal stromal cells. Scientific Reports. 2018

• Grezella C, et al. Effects of Senolytic Drugs on Human Mesenchymal Stromal Cells. Stem Cell Research & Therapy, 2018

• Zirkel A, et al. HMGB2 loss upon senescence entry disrupts genomic organization and induces CTCF clustering across cell types. Molecular Cell, 2018

• Franzen J, et al. Senescence-Associated DNA Methylation is Stochastically Acquired in Subpopulations of Mesenchymal Stem Cells. Aging Cell, 2017

• Franzen J, Wagner W, Fernandez-Rebollo E. Epigenetic Modifications upon Senescence of Mesenchymal Stem Cells. Current Stem Cell Reports, 2016

• Wagner W, Fernandez-Rebollo E, Frobel J. DNA-Methylation Changes in Replicative Senescence and Aging: Two Sides of the Same Coin? Epigenomics, 2016

• Kalwa M et al. The lncRNA HOTAIR impacts on mesenchymal stem cells via triple helix formation. Nucleic Acid Research 2016

• Hänzelmann S et al. Replicative Senescence is Associated with Nuclear Reorganization and with DNA Methylation at Specific Transcription Factor Binding Sites. Clinical Epigenetics 2015

• Schellenberg et al. Proof of principle: quality control of therapeutic cell preparations using senescence-associated DNA-methylation changes. BMC Res Notes, 2014

• Frobel J et al. Epigenetic Rejuvenation of Mesenchymal Stromal Cells Derived from Induced Pluripotent Stem Cells. Stem Cell Reports. 2014

• Schellenberg A et al. Matrix Elasticity, Replicative Senescence and DNA Methylation Patterns of Mesenchymal Stem Cells. Biomaterials. 2014

• Koch C, Wagner W. Epigenetic Biomarker to Determine Replicative Senescence of in vitro-Cultured Cells. Methods in Molecular Biology 2013

• Koch CM et al. Pluripotent Stem Cells Escape From Senescence-Associated DNA Methylation Changes. Genome Research, 2013

• Walenda G et al. TGF-beta1 does not induce senescence of multipotent mesenchymal stromal cells and has similar effects in early and late passages. PLoS ONE, 2013

• Koch C et al. Monitoring of cellular aging by DNA-methylation at specific CpG sites. Aging Cell 2012

• Schellenberg A et al. Replicative senescence of mesenchymal stem cells causes DNA-methylation changes which correlate with repressive histone marks. Aging 2011

• Wagner W. Senescence is heterogeneous in mesenchymal stromal cells - kaleidoscopes for cellular aging. Cell Cycle 2010

• Wagner W. Implications of long-term culture for mesenchymal stem cells: genetic defects or epigenetic regulation? Stem Cell Research & Therapy 2012

• Wagner W et al. How to track aging of mesenchymal stromal cells? Aging 2010

• Bork S*, Pfister S* et al. DNA Methylation Pattern Changes upon Long-Term Culture and Aging of Human Mesenchymal Stromal Cells. Aging Cell 2010

• Wagner W et al. Aging and replicative senescence have related effects on human stem and progenitor cells. PLoS One, 2009

• Wagner W et al. Replicative Senescence of mesenchymal stem cells - a continuous and organized process. PLoS ONE, 2008

Epigenetic diagnostics

• Hubens W H G, Maié T, Schnitker M, Bocova L, Puri D, Wessiepe M, Kramer J, Rink L, Koschmieder S, Costa I G, Wagner W. Targeted DNA methylation analysis facilitates leukocyte counts in dried blood samples. Clinical Chemistry, 2023

• Bocova L, Hubens W, Engel C, Koschmieder S, Jost E, Wagner W. Quantification of hematopoietic stem and progenitor cells by targeted DNA methylation analysis. Clinical Epigenetics. (2023)

• Jacobi H, Vieri M, Bütow M, Namasu CY, Flüter L, Costa IG, Maié T, Lindemann-Docter K, Chatain N, Beier F, Huber M, Wagner W, Crysandt M, Brümmendorf TH, Schemionek M. Myelofibrosis at diagnosis is associated with the failure of treatment-free remission in CML patients. Frontiers in Pharmacology. (2023)

• W. Wagner. How to translate DNA methylation biomarkers into clinical practice. W. Wagner, Frontiers in Cell and Developmental Biology, 2022.

• Sontag S, Bocova L, Hubens WHG, Nüchtern S, Schnitker M, Look T, Schröder KM, Plümäkers B, Tharmapalan V, Wessiepe M, Kraus T, Kramer J, Rink L, Koschmieder S, Wagner W. Toward clinical application of leukocyte counts based on targeted DNA methylation analysis. Clinical Chemistry, 2022.

• Neuberger E., Sontag S., Brahmer A., Philippi K.F.A., Radsak M.P., Wagner W., Simon P. Physical activity specifically evokes release of cell-free DNA from granulocytes thereby affecting liquid biopsy. Clinical Epigenetics, (2022) 14: 29.

• Božić T, Kuo C-C, Hapala J, Franzen J, Eipel M, Platzbecker U, Kirschner M, Beier F, Jost E, Thiede C, Wagner W. Investigation of Measurable Residual Disease in Acute Myeloid Leukemia by DNA Methylation Patterns. Leukemia (2022) 36: 80–89.

• Schmidt M, Maixner F, Hotz G, Pap I, Szikossy I, Palfi G, Zink A, Wagner W. DNA Methylation Profiling in Mummified Human Remains from the Eighteenth-Century. Scientific Reports, (2021) 11: 15493.

• Cypris O, Eipel O, Franzen J, Rösseler C, Tharmapalan V, Kuo CC, Vieri M, Nikolić M, Kirschner M, Brümmendorf TH, Zenke M, Lampert A, Beier F, Wagner W. PRDM8 reveals aberrant DNA methylation in aging syndromes and is relevant for hematopoietic and neuronal differentiation. Clinical Epigenetics 2020

• Eipel M, Božić T, Mies A, Beier F, Jost E, Brümmendorf TH, Platzbecker U, Wagner W. Tracking of myeloid malignancies by targeted analysis of successive DNA methylation at neighboring CG dinucleotides. Haematologica, 2019

• Božić T, Frobel J, Raic A, Ticconi F, Kuo CC, Heimann-Heimbach S, Goecke TW, Zenke M, Jost E, Costa IG, Wagner W. Variants of DNMT3A cause transcript-specific DNA methylation patterns and affect hematopoiesis. Life Science Alliance, 2018

• Cypris O. , Božić T., Wagner W. Chicken or Egg: Is Clonal Hematopoiesis Primarily Caused by Genetic or Epigenetic Aberrations? Frontiers in Genetics, 2019

• Weidner CI et al. DNA methylation in PRDM8 is indicative for dyskeratosis congenita. Oncotarget, 2016

• Wagner W et al. Do age-associated DNA methylation changes increase the risk of malignant transformation? Bioessays. 2015

• Bozic T*, Lin Q*, et al. DNA-Methylation in C1R is a Prognostic Biomarker for Acute Myeloid Leukemia. Clinical Epigenetics. 2015

• Jost E et al. Epimutations Mimic Genomic Mutations of DNMT3A in Acute Myeloid Leukemia. Leukemia, 2014

Quality control of cell culture

• Schmidt M, Zeevaert K, Elsafi Mabrouk MH, Goetzke R, Wagner W. Epigenetic biomarkers to track differentiation of pluripotent stem cells. Stem Cell Reports, 2023

• Salz L, Seitz A, Schäfer D, Franzen J, Holzer T, Garcia-Prieto CA, Bürger I, Hardt O, Esteller M, Wagner W. Culture expansion of CAR T cells results in aberrant DNA methylation that is associated with adverse clinical outcome. Leukemia. (2023)

• Maié T, Schmidt M, Erz M, Wagner W, Costa IG. CimpleG: Finding simple CpG methylation signatures. Genome Biology. (2023)

• Schmidt M, Maié T, Dahl E, Costa IG, Wagner W. Deconvolution of cellular subsets in human tissue based on targeted DNA methylation analysis at individual CpG sites. BMC Biology, 2020

• Goetzke R, et al. Does Soft Really Matter? Differentiation of Induced Pluripotent Stem Cells into Mesenchymal Stromal Cells is Not Influenced by Soft Hydrogels. Biomaterials, 2018

• Wagner W et al. Epigenetic quality check - how good are your mesenchymal stromal cells? Epigenomics. 2016

• de Almeida DC et al. Epigenetic classification of human mesenchymal stromal cells. Stem Cell Reports 2016

• Lenz M*, Goetzke R* et al. Epigenetic Biomarker to Support Classification into Pluripotent and Non-Pluripotent Cells. Scientific Reports 2015

• Weidner CI et al. Hematopoietic Stem and Progenitor Cells Acquire Distinct DNA-Hypermethylation During in vitro Culture. Scientific Reports, 2013

• Shao K et al. Induced pluripotent mesenchymal stromal cell clones retain donor-derived differences in DNA methylation profiles. Molecular Therapy 2013