Publications
2024 Scientific Article in Genome Biology Genome Biol. 25:319 (2024)
Multi-omics approaches reveal that diffuse midline gliomas present altered DNA replication and are susceptible to replication stress therapy.
2024 Scientific Article in PLoS ONE PLoS ONE 19:e0309415 (2024)
In vivo monitoring of leukemia-niche interactions in a zebrafish xenograft model.
Methods in Molecular Biology In: Chromatin Immunoprecipitation. 2024. 47-62 (Methods Mol. Biol. ; 2846)
Bioinformatics core workflow for ChIP-seq data analysis.
2024 Editorial in Developmental Cell Dev. Cell 59, 1623-1627 (2024)
Understanding how cells and organisms keep time during development.
2024 Scientific Article in Nature Neuroscience Nat. Neurosci. 27, 1260–1273 (2024)
Direct neuronal reprogramming of mouse astrocytes is associated with multiscale epigenome remodeling and requires Yy1.
2024 Scientific Article in Nature Cell Biology Nat. Cell Biol. 26, 962-974 (2024)
Mapping putative enhancers in mouse oocytes and early embryos reveals TCF3/12 as key folliculogenesis regulators.
2024 Scientific Article in Developmental Cell Dev. Cell 59, 2347-2363.e9 (2024)
An integrated approach identifies the molecular underpinnings of murine anterior visceral endoderm migration.
2024 Scientific Article in Bioinformatics Bioinformatics 40:btae267 (2024)
Topological benchmarking of algorithms to infer Gene Regulatory Networks from Single-Cell RNA-seq Data.
2024 Scientific Article in Journal of Cell Biology, The J. Cell Biol. 223:e202309027 (2024)
Determinants of minor satellite RNA function in chromosome segregation in mouse embryonic stem cells.
2024 Review in EMBO Reports EMBO Rep. 25, 1721-1733 (2024)
Jump-starting life: balancing transposable element co-option and genome integrity in the developing mammalian embryo.
2024 Editorial in Molecular Cell Mol. Cell 84, 186-188 (2024)
A quick restart: RNA polymerase jumping onto post-replicative chromatin.
München, Ludwig-Maximilians-Universität, Fakultät für Biologie, Diss., 2023, 174 S.
Elucidating cell-fate decision-making of mammalian pluripotent cells through single-cell transcriptomics.
2023 Scientific Article in Nature Nature 625, 401–409 (2023)
Emergence of replication timing during early mammalian development.
2023 Letter to the Editor in Journal of Cell Science J. Cell Sci. 136:jcs261613 (2023)
First person – Antoine Canat.
2023 Scientific Article in Genes and Development Genes Dev. 37, 901-912 (2023)
Reorganization of lamina-associated domains in early mouse embryos is regulated by RNA polymerase II activity.
2023 Scientific Article in Nucleic Acids Research Nucleic Acids Res. 51, 12303-12324 (2023)
Single molecule MATAC-seq reveals key determinants of DNA replication origin efficiency.
2023 Scientific Article in Journal of Visualized Experiments J. Vis. Exp. 2023:16 (2023)
Single-copy gene locus chromatin purification in Saccharomyces cerevisiae.
Methods in Cell Biology In:. 525 B Street, Suite 1900, San Diego, Ca 92101-4495 Usa: Elsevier Academic Press Inc, 2023. 199-219 (Methods Cell Biol. ; 182)
An automated image analysis pipeline to quantify the coordination and overlap of transcription and replication activity in mammalian genomes.
2023 Scientific Article in Nature Methods Nat. Methods 20, 1037-1047 (2023)
Multiplex-GAM: genome-wide identification of chromatin contacts yields insights overlooked by Hi-C.
2023 Scientific Article in Cell Reports Cell Rep. 42:112380 (2023)
Transient suppression of SUMOylation in embryonic stem cells generates embryo-like structures.
2023 Editorial in Nature Reviews - Molecular Cell Biology Nat. Rev. Mol. Cell Biol. 24, 691-694 (2023)
Heterochromatin definition and function.
2023 Other: Opinion in Genes and Development Genes Dev. 37, 56-57 (2023)
Totipotency, development, and chromatin.
2023 Review in Developmental Cell Dev. Cell 58, 435-449 (2023)
Dynamics of nuclear architecture during early embryonic development and lessons from liveimaging.
2023 Scientific Article in Genes and Development Genes Dev. 37, 336-350 (2023)
A change in biophysical properties accompanies heterochromatin formation in mouse embryos.
2023 Scientific Article in Blood Blood 142, 90-105 (2023)
A noncanonical enzymatic function of PIWIL4 maintains genomic integrity and leukemic growth in AML.
2023 Scientific Article in Development / Company of Biologists Development 150:12 (2023)
CIARA: A cluster-independent algorithm for identifying markers of rare cell types from single-cell sequencing data.
2023 Scientific Article in Physical Review E Phys. Rev. E 107:044403 (2023)
Emergent statistical laws in single-cell transcriptomic data.
2023 Review in Nucleus Nucleus 14:2229642 (2023)
Where and when to start: Regulating DNA replication origin activity in eukaryotic genomes.
2023 Scientific Article in EMBO Reports EMBO Rep. 24:e56194 (2023)
Hyperosmotic stress induces 2-cell-like cells through ROS and ATR signaling.
2023 Review in Current Opinion in Genetics & Development Curr. Opin. Genet. Dev. 81:102083 (2023)
Regulation of mammalian totipotency: A molecular perspective from in vivo and in vitro studies.
2023 Review in Nature Protocols Nat. Protoc. 18, 929-989 (2023)
Measuring DNA modifications with the comet assay: A compendium of protocols.
2023 Scientific Article in Cell Reports Cell Rep. 42:112045 (2023)
Single-copy locus proteomics of early- and late-firing DNA replication origins identifies a role of Ask1/DASH complex in replication timing control.
2022 Scientific Article in Cell Reports Cell Rep. 41:111865 (2022)
Distinct patterns of RNA polymerase II and transcriptional elongation characterize mammalian genome activation.
2022 Scientific Article in Nature Communications Nat. Commun. 13:5726 (2022)
Exploration of nuclear body-enhanced sumoylation reveals that PML represses 2-cell features of embryonic stem cells.
2022 Letter to the Editor in Development / Company of Biologists Development 149:dev201404 (2022)
In preprints: Improving and interrogating embryo models.
2022 Scientific Article in Cell Reports Cell Rep. 41:111656 (2022)
Quantitative RNA imaging in single live cells reveals age-dependent asymmetric inheritance.
2022 Scientific Article in Proceedings of the National Academy of Sciences of the United States of America Proc. Natl. Acad. Sci. U.S.A. 119:e2200512119 (2022)
EBNA2-EBF1 complexes promote MYC expression and metabolic processes driving S-phase progression of Epstein-Barr virus-infected B cells.
2022 Scientific Article in Cell Death & Disease Cell Death Dis. 13:762 (2022)
ROBO3s: A novel ROBO3 short isoform promoting breast cancer aggressiveness.
2022 Scientific Article in PLoS Computational Biology PLoS Comput. Biol. 18:e1009552 (2022)
The role of cell geometry and cell-cell communication in gradient sensing.
2022 Scientific Article in Cells Cells 11:808 (2022)
Chromatin remodeler smarca5 is required for cancer-related processes of primary cell fitness and immortalization.
2022 Scientific Article in Cell Reports Cell Rep. 38:110547 (2022)
A 3D transcriptomics atlas of the mouse nose sheds light on the anatomical logic of smell.
2022 Nature Structural & Molecular Biology Nat. Struct. Mol. Biol. 29:282 (2022)
Author Correction: Retinoic acid signaling is critical during the totipotency window in early mammalian development.
2022 Scientific Article in Nature Genetics Nat. Genet. 54, 318–327 (2022)
DNA replication fork speed underlies cell fate changes and promotes reprogramming.
2021 Editorial in Nature Cell Biology Nat. Cell Biol. 23, 1221-1223 (2021)
Retrotransposing a promoter for development.
2021 Scientific Article in Nature Nature 600, 285-289 (2021)
Single-cell transcriptomic characterization of a gastrulating human embryo.
2021 Scientific Article in Molecular Cancer Therapeutics Mol. Cancer Ther. 21, 89-99 (2021)
Anti-apoptotic MCL1 protein represents critical survival molecule for most Burkitt lymphomas and BCL2-negative diffuse large B-cell lymphomas.
2021 Other: Opinion in Nature Cell Biology Nat. Cell Biol. 23, 814-816 (2021)
Deconfining heterochromatin for expression.
2021 Review in Frontiers in cell and developmental biology Front. Cell Dev. Biol. 9:699771 (2021)
Single-molecule techniques to study chromatin.
2021 Scientific Article in Genes and Development Genes Dev. 35, 1142-1160 (2021)
ZFP451-mediated SUMOylation of SATB2 drives embryonic stem cell differentiation.
2021 Review in Life Life 11:637 (2021)
Consequences and resolution of transcription-replication conflicts.
2021 Scientific Article in Nature metabolism Nat. Metab. 3, 1091-1108 (2021)
Cell competition acts as a purifying selection to eliminate cells with mitochondrial defects during early mouse development.
2021 Scientific Article in Nature Structural & Molecular Biology Nat. Struct. Mol. Biol. 28, 521-532 (2021)
Retinoic acid signaling is critical during the totipotency window in early mammalian development.
2021 Review in Current Opinion in Genetics & Development Curr. Opin. Genet. Dev. 70, 24-31 (2021)
Epigenetic memory in reprogramming.
2021 Review in Epigenomics Epigenomics 13, 981-984 (2021)
Epigenomics in the single cell era, an important read out for genome function and cell identity.
2021 Review in BioSpektrum BioSpektrum 27, 246-249 (2021)
Dem Anfang auf der Spur — die Suche nach DNA-Replikationsursprüngen.
2021 Scientific Article in Nucleic Acids Research Nucleic Acids Res. 49, 3217-3241 (2021)
Epstein-Barr virus inactivates the transcriptome and disrupts the chromatin architecture of its host cell in the first phase of lytic reactivation.
2021 Nature Nature 592:E8 (2021)
Publisher Correction: LifeTime and improving European healthcare through cell-based interceptive medicine (Nature, (2020), 587, 7834, (377-386), 10.1038/s41586-020-2715-9).
Methods in Molecular Biology In: Epigenetic Reprogramming During Mouse Embryogenesis. 2021. 265-282 (Methods Mol. Biol. ; 2214)
DamID to map genome-protein interactions in preimplantation mouse embryos.
2021 Scientific Article in Science Science 371:eabb2986 (2021)
Characterization of a common progenitor pool of the epicardium and myocardium.
2021 Review in Genes and Development Genes Dev. 35, 22-39 (2021)
TFs for TEs: The transcription factor repertoire of mammalian transposable elements.
2021 Scientific Article in Methods in Molecular Biology Methods Mol. Biol. 2214, 175-187 (2021)
Mapping of chromosome territories by 3D-chromosome painting during early mouse development.
2020 Review in EMBO Journal, The EMBO J. 39:e105725 (2020)
Thinking "ethical" when designing an international, cross-disciplinary biomedical research consortium.
2020 Scientific Article in Nature Communications Nat. Commun. 11:1498 (2020)
Distinct roles for H4 and H2A.Z acetylation in RNA transcription in African trypanosomes.
2020 Scientific Article in Frontiers in Oncology Front. Oncol. 10:589434 (2020)
Tumor lactic acidosis: Protecting tumor by inhibiting cytotoxic activity through motility arrest and bioenergetic silencing.
2020 Review in Annual Review of Genetics Annu. Rev. Genet. 54, 167-187 (2020)
Measuring and modeling single-cell heterogeneity and fate decision in mouse embryos.
2020 Scientific Article in Nucleic Acids Research Nucleic Acids Res. 48, 11394-11407 (2020)
The role of ZFP57 and additional KRAB-zinc finger proteins in the maintenance of human imprinted methylation and multi-locus imprinting disturbances.
2020 Review in Nature Nature 587, 377–386 (2020)
LifeTime and improving European healthcare through cell-based interceptive medicine.
2020 Review in Development / Company of Biologists Development 147:dev189688 (2020)
The molecular and cellular features of 2-cell-like cells: a reference guide.
2020 Scientific Article in Nature Cell Biology Nat. Cell Biol. 22, 767-778 (2020)
Heterochromatin establishment during early mammalian development is regulated by pericentromeric RNA and characterized by non-repressive H3K9me3.
2020 Review in Current Opinion in Genetics & Development Curr. Opin. Genet. Dev. 64, 26-30 (2020)
A cell in hand is worth two in the embryo: Recent advances in 2-cell like cell reprogramming.
2020 Scientific Article in Molecular Metabolism Mol. Metab. 40:101038 (2020)
Differential regulation of the immune system in a brain-liver-fats organ network during short-term fasting.
2020 Review in Frontiers in Genetics Front. Genet. 11:450 (2020)
Proximity labeling techniques to study chromatin.
2020 Scientific Article in Bioinformatics Bioinformatics 36, 4296-4300 (2020)
COMUNET: A tool to explore and visualize intercellular communication.
2020 Review in Philosophical Transactions of the Royal Society of London. Series B Philos. Trans. R. Soc. B - Biol. Sci. 375:20190339 (2020)
On transposons and totipotency.
2020 Scientific Article in Bioinformatics Bioinformatics 36, 4291-4295 (2020)
Automatic identification of relevant genes from low-dimensional embeddings of single-cell RNA-seq data.
2020 Scientific Article in Oncogene Oncogene 39, 79-121 (2020)
LOXL2-mediated H3K4 oxidation reduces chromatin accessibility in triple-negative breast cancer cells.
2020 Scientific Article in EMBO Reports EMBO Rep. 21:e48354 (2020)
A distinct metabolic state arises during the emergence of 2-cell-like cells.
2019 Review in Essays in Biochemistry Essays Biochem. 63, 677-689 (2019)
DNA methylation dynamics at transposable elements in mammals.
2019 Scientific Article in EMBO Reports EMBO Rep. 20:e47952 (2019)
Expression and phase separation potential of heterochromatin proteins during early mouse development.
2019 Editorial in Development / Company of Biologists Development 146:dev185025 (2019)
Chromatin and epigenetics in development: A Special Issue.
2019 Scientific Article in mBio mBio 10:e01723-19 (2019)
First days in the life of naïve human B-lymphocytes infected with Epstein-Barr Virus.
2019 Scientific Article in Nature Communications Nat. Commun. 10:3858 (2019)
EZHIP constrains Polycomb Repressive Complex 2 activity in germ cells.
2019 Scientific Article in Proceedings of the National Academy of Sciences of the United States of America Proc. Natl. Acad. Sci. U.S.A. 116, 16046-16055 (2019)
Epstein-Barr virus reprograms human B lymphocytes immediately in the prelatent phase of infection.
2019 Review in Current Opinion in Genetics & Development Curr. Opin. Genet. Dev. 55, 52-58 (2019)
Genome activation and architecture in the early mammalian embryo.
2019 Scientific Article in Nature Nature 569, 729-733 (2019)
Genome-lamina interactions are established de novo in the early mouse embryo.
2019 Scientific Article in Journal of Biological Chemistry, The J. Biol. Chem. 294, 3051-3064 (2019)
Membrane-associated epithelial cell adhesion molecule is slowly cleaved by -secretase prior to efficient proteasomal degradation of its intracellular domain.
2019 Editorial in Frontiers in cell and developmental biology Front. Cell Dev. Biol. 7:36 (2019)
Editorial: Molecular and cellular mechanisms in reproduction and early development.
2018 Scientific Article in Chemical senses Chem. Senses 44, 7-9 (2018)
Interspecific variation of olfactory preferences in flies, mice, and humans.
2018 Scientific Article in Cell Stem Cell Cell Stem Cell 23, 742-757.e8 (2018)
SUMO safeguards somatic and pluripotent cell identities by enforcing distinct chromatin states.
2018 Review in Nature Genetics Nat. Genet. 50, 1352-1358 (2018)
Challenges and guidelines toward 4D nucleome data and model standards.
2018 Review in Trends in Genetics Trends Genet. 34, 806-820 (2018)
Nimble and ready to mingle: Transposon outbursts of early development.
2018 Review in Molecular Systems Biology Mol. Syst. Biol. 14:e8046 (2018)
Using single-cell genomics to understand developmental processes and cell fate decisions.
2018 Meeting abstract in Open Biology Open Biol. 114, 382A-382A (2018)
Optical control of EB1 reveals local functions of the microtubule plus TIP complex during cell migration and division.
2018 Scientific Article in Journal of Cell Biology, The J. Cell Biol. 217, 1537-1552 (2018)
Imaging of native transcription factors and histone phosphorylation at high resolution in live cells.
2018 Scientific Article in Nature Cell Biology Nat. Cell Biol. 20, 252–261 (2018)
Local control of intracellular microtubule dynamics by EB1 photodissociation.
2018 Scientific Article in Scientific Reports Sci. Rep. 8:1801 (2018)
Spatiotemporal patterning of EpCAM is important for murine embryonic endo-And mesodermal differentiation.
2017 Meeting abstract in Molecular Biology of the Cell Mol. Biol. Cell 28 (2017)
Controlling cytoskeletal organization and cellular dynamics by localized optical modulation of microtubule dynamics.
2017 Scientific Article in Nature Genetics Nat. Genet. 50, 106-119 (2017)
A molecular roadmap for the emergence of early-embryonic-like cells in culture.
2017 Scientific Article in Nature Nature 552, 239-243 (2017)
Pluripotent state transitions coordinate morphogenesis in mouse and human embryos.
2017 Scientific Article in Journal of Cell Biology, The J. Cell Biol. 216, 3017-3028 (2017)
Dynamic changes in H1 subtype composition during epigenetic reprogramming.
2017 Scientific Article in EMBO Reports EMBO Rep. 18, 1677-1682 (2017)
The biosocial genome? Interdisciplinary perspectives on environmental epigenetics, health and society.
2017 Scientific Article in Nature Genetics Nat. Genet. 49, 1502–1510 (2017)
LINE-1 activation after fertilization regulates global chromatin accessibility in the early mouse embryo.
2017 Other: News Item in Nature Genetics Nat. Genet. 49, 820-821 (2017)
Starting embryonic transcription for the first time.
2016 Scientific Article in Genes and Development Genes Dev. 30, 2513-2526 (2016)
SUV4-20 activity in the preimplantation mouse embryo controls timely replication.
2016 Scientific Article in Nature Nature 537, 494-496 (2016)
Developmental biology: Panoramic views of the early epigenome.
2016 Scientific Article in Medical Image Analysis Med. Image Anal. 35, 313-326 (2016)
A discriminative feature selection approach for shape analysis: Application to fetal brain cortical folding.
2016 Editorial in Developmental Cell Dev. Cell 38, 3-5 (2016)
A pluripotency platform for Prdm14.
2016 Scientific Article in Current Biology Curr. Biol. 26, 1549-1555 (2016)
Doublecortin is excluded from growing microtubule ends and recognizes the GDP-microtubule lattice.
2016 Scientific Article in Epigenetics Epigenetics 11, 389-397 (2016)
Characterization of non-canonical polycomb repressive complex 1 subunits during early mouse embryogenesis.
2016 Scientific Article in Chromosoma Chromosoma 125, 29-39 (2016)
LINEs in mice: Features, families, and potential roles in early development.
2016 Review in Genes and Development Genes Dev. 30, 611-621 (2016)
Building up the nucleus: Nuclear organization in the establishment of totipotency and pluripotency during mammalian development.
2015 Scientific Article in Epigenetics Epigenetics, DOI: 10.1080/15592294.2015.1103424 (2015)
Dynamics of histone H3 acetylation in the nucleosome core during mouse pre-implantation development.
2015 Scientific Article in Cold Spring Harbor Symposia on Quantitative Biology Cold Spring Harb. Symp. Quant. Biol., DOI: 10.1101/sqb.2015.80.027458 (2015)
Regulation of reprogramming and cellular plasticity through histone exchange and histone variant incorporation.
2015 Scientific Article in Current Opinion in Cell Biology Curr. Opin. Cell Biol. 34, 9-15 (2015)
How cells build totipotency and pluripotency: Nuclear, chromatin and transcriptional architecture.
In: Walter, J.* ; Meissner, A.* [Eds.]: Epigenetics and Human Health. Heidelberg: Springer, 2015. 43-68 ( ; 4)
Histone variants and reprogramming in early development.
2014 Scientific Article in Nature Reviews - Molecular Cell Biology Nat. Rev. Mol. Cell Biol. 15, 723-734 (2014)
Chromatin dynamics in the regulation of cell fate allocation during early embryogenesis.
2014 Scientific Article in Molecular Cell Mol. Cell 56, 580-594 (2014)
Redundant mechanisms to form silent chromatin at pericentromeric regions rely on BEND3 and DNA methylation.
2014 Scientific Article in Genes and Development Genes Dev. 28, 1381-1383 (2014)
LINEing germ and embryonic stem cells' silencing of retrotransposons.
2014 Scientific Article in Genes and Development Genes Dev. 28, 1042-1047 (2014)
Higher chromatin mobility supports totipotency and precedes pluripotency in vivo.
2014 Scientific Article in Development / Company of Biologists Development 141, 2173-2181 (2014)
Transcription factor heterogeneity in pluripotent stem cells: A stochastic advantage.
2014 Scientific Article in BMC Genomics BMC Genomics 15:487 (2014)
Relationship between genome and epigenome - challenges and requirements for future research.
2013 Scientific Article in Genes and Development Genes Dev. 27, 2427-2432 (2013)
Heterochromatin establishment at pericentromeres depends on nuclear position.
2013 Scientific Article in Cell Reports Cell Rep. 5, 687-701 (2013)
Single-cell profiling of epigenetic modifiers identifies PRDM14 as an inducer of cell fate in the mammalian embryo.
2013 Scientific Article in Nature Structural & Molecular Biology Nat. Struct. Mol. Biol. 20, 1321-1324 (2013)
Live visualization of chromatin dynamics with fluorescent TALEs.
2013 Scientific Article in Genes and Development Genes Dev. 27, 1635-1639 (2013)
How mammals pack their sperm: A variant matter.
2013 Scientific Article in Current Opinion in Genetics & Development Curr. Opin. Genet. Dev. 23, 512-518 (2013)
Towards an understanding of the regulatory mechanisms of totipotency.
2013 Scientific Article in Nature Communications Nat. Commun. 4:2233 (2013)
Dissecting the role of H3K64me3 in mouse pericentromeric heterochromatin.
2013 Scientific Article in Nature Structural & Molecular Biology Nat. Struct. Mol. Biol. 20, 332-338 (2013)
Chromatin signatures and retrotransposon profiling in mouse embryos reveal regulation of LINE-1 by RNA.
2013 Scientific Article in Development / Company of Biologists Development 140, 487-491 (2013)
A germline-centric view of cell fate commitment, reprogramming and immortality.
2013 Scientific Article in Current Topics in Developmental Biology Curr. Top. Dev. Biol. 104, 1-45 (2013)
Mechanisms and dynamics of heterochromatin formation during mammalian development: closed paths and open questions.
2012 Scientific Article in Genes and Development Genes Dev. 26, 2580-2589 (2012)
The role of PR-Set7 in replication licensing depends on Suv4-20h.
2012 Scientific Article in Epigenetics Epigenetics 7, 747-757 (2012)
Analysis of active chromatin modifications in early mammalian embryos reveals uncoupling of H2A.Z acetylation and H3K36 trimethylation from embryonic genome activation.
2012 Scientific Article in Epigenetics & Chromatin Epigenetics Chromatin 5:7 (2012)
A unified phylogeny-based nomenclature for histone variants.
2012 Scientific Article in Nature Nature 483, 470-473 (2012)
Control of ground-state pluripotency by allelic regulation of Nanog.
2010 Scientific Article in Briefings in Functional Genomics Brief. Funct. Genomic. Proteomic. 9, 444-454 (2010)
Epigenetic reprogramming and development: A unique heterochromatin organization in the preimplantation mouse embryo.
2010 Scientific Article in Current Opinion in Endocrinology, Diabetes and Obesity Curr. Opin. Endocrinol. Diabetes Obes. 17, 500-506 (2010)
Epigenetic regulation of reprogramming factors towards pluripotency in mouse preimplantation development.
2010 Scientific Article in Nature Cell Biology Nat. Cell Biol. 12, 853-862 (2010)