All Stories

  1. Scaling and self-similarity in the formation of the embryonic epigenome

    Article • Nature Nanotechnology, April 2026, Springer Science + Business Media

    Dr Felix Krueger

  2. scEpiAge: an age predictor highlighting single-cell ageing heterogeneity in mouse blood

    Article • Nature Communications, August 2024, Springer Science + Business Media

    Dr Felix Krueger

  3. Imprinting fidelity in mouse iPSCs depends on sex of donor cell and medium formulation

    Article • Nature Communications, September 2022, Springer Science + Business Media

    Dr Felix Krueger

  4. Decoding gene regulation in the mouse embryo using single-cell multi-omics

    Article • June 2022, Cold Spring Harbor Laboratory Press

    Dr Felix Krueger

  5. 8C-like cells capture the human zygotic genome activation program in vitro

    Article • Cell Stem Cell, March 2022, Elsevier

    Dr Felix Krueger

  6. Stimulation of adaptive gene amplification by origin firing under replication fork constraint

    Article • Nucleic Acids Research, January 2022, Oxford University Press (OUP)

    Dr Felix Krueger

  7. The distinct effects of MEK and GSK3 inhibition upon the methylome and transcriptome of mouse embryonic stem cells

    Article • November 2021, Cold Spring Harbor Laboratory Press

    Dr Felix Krueger

  8. Modelling human zygotic genome activation in 8C-like cells in vitro

    Article • October 2021, Cold Spring Harbor Laboratory Press

    Dr Felix Krueger

  9. Genome-wide analysis of DNA replication and DNA double-strand breaks using TrAEL-seq

    Article • PLoS Biology, March 2021, PLOS

    Dr Felix Krueger

  10. Stimulation of adaptive gene amplification by origin firing under replication fork constraint

    Article • March 2021, Cold Spring Harbor Laboratory Press

    Dr Felix Krueger

  11. Histone modifications form a cell-type-specific chromosomal bar code that modulates and maintains patterns of gene expression through the cell cycle

    Article • October 2020, Cold Spring Harbor Laboratory Press

    Dr Felix Krueger

  12. Genome-wide analysis of DNA replication and DNA double strand breaks by TrAEL-seq

    Article • August 2020, Cold Spring Harbor Laboratory Press

    Dr Felix Krueger

  13. Low rates of mutation in clinical grade human pluripotent stem cells under different culture conditions

    Article • Nature Communications, March 2020, Springer Science + Business Media

    Dr Felix Krueger

  14. Transcription-induced formation of extrachromosomal DNA during yeast ageing

    Article • PLoS Biology, December 2019, PLOS

    Dr Felix Krueger

  15. Transcription-induced formation of extrachromosomal DNA during yeast ageing

    Article • August 2019, Cold Spring Harbor Laboratory Press

    Dr Felix Krueger

  16. The non-canonical SMC protein SmcHD1 antagonises TAD formation and compartmentalisation on the inactive X chromosome

    Article • Nature Communications, January 2019, Springer Science + Business Media

    Dr Felix Krueger

  17. Unbiased quantification of immunoglobulin diversity at the DNA level with VDJ-seq

    Article • Nature Protocols, May 2018, Springer Science + Business Media

    Dr Felix Krueger

  18. scNMT-seq enables joint profiling of chromatin accessibility DNA methylation and transcription in single cells

    Article • Nature Communications, February 2018, Springer Science + Business Media

    Dr Felix Krueger

  19. Comparison of whole-genome bisulfite sequencing library preparation strategies identifies sources of biases affecting DNA methylation data

    Article • July 2017, Cold Spring Harbor Laboratory Press

    Dr Felix Krueger

  20. Dietary restriction protects from age-associated DNA methylation and induces epigenetic reprogramming of lipid metabolism

    Article • Genome Biology, March 2017, Springer Science + Business Media

    Dr Felix Krueger

  21. Genome-wide base-resolution mapping of DNA methylation in single cells using single-cell bisulfite sequencing (scBS-seq)

    Article • Nature Protocols, February 2017, Springer Science + Business Media

    Dr Felix Krueger

  22. Gender Differences in Global but Not Targeted Demethylation in iPSC Reprogramming

    Article • Cell Reports, January 2017, Elsevier

    Dr Felix Krueger

  23. Cluster Flow: A user-friendly bioinformatics workflow tool

    Article • F1000Research, December 2016, Faculty of 1000, Ltd.

    Dr Philip A Ewels, Dr Felix Krueger

  24. Transcriptional Activation of Pericentromeric Satellite Repeats and Disruption of Centromeric Clustering upon Proteasome Inhibition

    Article • PLOS One, November 2016, PLOS

    Dr Felix Krueger

  25. Comparative Principles of DNA Methylation Reprogramming during Human and Mouse In Vitro Primordial Germ Cell Specification

    Article • Developmental Cell, October 2016, Elsevier

    Dr Felix Krueger

  26. MERVL/Zscan4 Network Activation Results in Transient Genome-wide DNA Demethylation of mESCs

    Article • Cell Reports, September 2016, Elsevier

    Dr Felix Krueger

  27. Paternal chronic colitis causes epigenetic inheritance of susceptibility to colitis

    Article • Scientific Reports, August 2016, Springer Science + Business Media

    Dr Felix Krueger

  28. SNPsplit: Allele-specific splitting of alignments between genomes with known SNP genotypes

    Article • F1000Research, July 2016, Faculty of 1000, Ltd.

    Dr Felix Krueger

  29. SNPsplit: Allele-specific alignment splitting

    Article • F1000Research, June 2016, Faculty of 1000, Ltd.

    Dr Felix Krueger

  30. Two Mutually Exclusive Local Chromatin States Drive Efficient V(D)J Recombination

    Article • Cell Reports, June 2016, Elsevier

    Dr Felix Krueger

  31. Parallel single-cell sequencing links transcriptional and epigenetic heterogeneity

    Article • Nature Chemical Biology, January 2016, Springer Science + Business Media

    Dr Felix Krueger

  32. Erratum to: Deep sequencing and de novo assembly of the mouse occyte transcriptome define the contribution of transcription to the DNA methylation landscape

    Article • Genome Biology, December 2015, Springer Science + Business Media

    Dr Felix Krueger

  33. Molecular signatures of plastic phenotypes in two eusocial insect species with simple societies

    Article • Proceedings of the National Academy of Sciences, October 2015, Proceedings of the National Academy of Sciences

    Dr Philip A Ewels, Dr Felix Krueger

  34. Deep sequencing and de novo assembly of the mouse oocyte transcriptome define the contribution of transcription to the DNA methylation landscape

    Article • Genome Biology, September 2015, Springer Science + Business Media

    Dr Felix Krueger

  35. Allele-specific binding of ZFP57 in the epigenetic regulation of imprinted and non-imprinted monoallelic expression

    Article • Genome Biology, May 2015, Springer Science + Business Media

    Dr Felix Krueger

  36. 5-hydroxymethylcytosine marks promoters in colon that resist DNA hypermethylation in cancer

    Article • Genome Biology, April 2015, Springer Science + Business Media

    Dr Felix Krueger

  37. Genome-wide Bisulfite Sequencing in Zygotes Identifies Demethylation Targets and Maps the Contribution of TET3 Oxidation

    Article • Cell Reports, December 2014, Elsevier

    Dr Wendy Dean, Dr Felix Krueger

  38. Epigenetic memory of the first cell fate decision prevents complete ES cell reprogramming into trophoblast

    Article • Nature Communications, November 2014, Springer Science + Business Media

    Dr Wendy Dean, Dr Felix Krueger

  39. Resetting Transcription Factor Control Circuitry toward Ground-State Pluripotency in Human

    Article • Cell, September 2014, Elsevier

    Dr Felix Krueger

  40. Single-cell genome-wide bisulfite sequencing for assessing epigenetic heterogeneity

    Article • Nature Chemical Biology, July 2014, Springer Science + Business Media

    Dr Felix Krueger

  41. FGF Signaling Inhibition in ESCs Drives Rapid Genome-wide Demethylation to the Epigenetic Ground State of Pluripotency

    Article • Cell Stem Cell, September 2013, Elsevier

    Dr Wendy Dean, Dr Felix Krueger

  42. Base-pair resolution DNA methylome of the EBV-positive Endemic Burkitt lymphoma cell line DAUDI determined by SOLiD bisulfite-sequencing

    Article • Leukemia, January 2013, Springer Science + Business Media

    Dr Felix Krueger

  43. The Dynamics of Genome-wide DNA Methylation Reprogramming in Mouse Primordial Germ Cells

    Article • Molecular Cell, December 2012, Elsevier

    Dr Bernard Thienpont, Dr Wendy Dean, Dr Felix Krueger

  44. DNA Methylation Profiles Define Stem Cell Identity and Reveal a Tight Embryonic–Extraembryonic Lineage Boundary

    Article • Stem Cells, November 2012, Oxford University Press (OUP)

    Dr Felix Krueger

  45. SWI/SNF-Like Chromatin Remodeling Factor Fun30 Supports Point Centromere Function in S. cerevisiae

    Article • PLoS Genetics, September 2012, PLOS

    Dr Felix Krueger

  46. Pairing of Homologous Regions in the Mouse Genome Is Associated with Transcription but Not Imprinting Status

    Article • PLOS One, July 2012, PLOS

    Dr Felix Krueger

  47. Quantitative Sequencing of 5-Methylcytosine and 5-Hydroxymethylcytosine at Single-Base Resolution

    Article • Science, May 2012, American Association for the Advancement of Science

    Dr Felix Krueger

  48. DNA methylome analysis using short bisulfite sequencing data

    Article • Nature Chemical Biology, January 2012, Springer Science + Business Media

    Dr Felix Krueger

  49. B-SOLANA: an approach for the analysis of two-base encoding bisulfite sequencing data

    Article • Bioinformatics, December 2011, Oxford University Press (OUP)

    Dr Felix Krueger

  50. Dynamic CpG island methylation landscape in oocytes and preimplantation embryos

    Article • Nature Genetics, June 2011, Springer Science + Business Media

    Dr Felix Krueger

  51. Bismark: a flexible aligner and methylation caller for Bisulfite-Seq applications

    Article • Bioinformatics, April 2011, Oxford University Press (OUP)

    Dr Felix Krueger

  52. Dynamic regulation of 5-hydroxymethylcytosine in mouse ES cells and during differentiation

    Article • Nature, April 2011, Springer Science + Business Media

    Dr Felix Krueger

  53. Large Scale Loss of Data in Low-Diversity Illumina Sequencing Libraries Can Be Recovered by Deferred Cluster Calling

    Article • PLOS One, January 2011, PLOS

    Dr Felix Krueger

  54. Down-regulation of Cdx2 in colorectal carcinoma cells by the Raf–MEK–ERK 1/2 pathway

    Article • Cellular Signalling, December 2009, Elsevier

    Dr Felix Krueger