Caroline Hoppe, PhD
Associate Research Scientist in GeneticsAbout
Research
Publications
2025
In vivo differentiation of embryonic cells devoid of key reprogramming factors
Youlten S, Miao L, Hoppe C, Boswell C, Musaev D, Abdelmessih M, Olowookere D, Weiss L, Krishnaswamy S, Giraldez A, Tornini V. In vivo differentiation of embryonic cells devoid of key reprogramming factors. Cell Reports 2025, 44: 116498. PMID: 41171758, PMCID: PMC12841453, DOI: 10.1016/j.celrep.2025.116498.Peer-Reviewed Original ResearchGenetically encoded affinity reagents are a toolkit for visualizing and manipulating endogenous protein function in vivo
Boswell C, Hoppe C, Sherrard A, Miao L, Kojima M, Martino P, Zhao N, Stasevich T, Nicoli S, Giraldez A. Genetically encoded affinity reagents are a toolkit for visualizing and manipulating endogenous protein function in vivo. Nature Communications 2025, 16: 5503. PMID: 40595661, PMCID: PMC12216260, DOI: 10.1038/s41467-025-61003-w.Peer-Reviewed Original Research
2024
The maternal-to-zygotic transition: reprogramming of the cytoplasm and nucleus
Kojima M, Hoppe C, Giraldez A. The maternal-to-zygotic transition: reprogramming of the cytoplasm and nucleus. Nature Reviews Genetics 2024, 26: 245-267. PMID: 39587307, PMCID: PMC11928286, DOI: 10.1038/s41576-024-00792-0.Peer-Reviewed Reviews, Practice Guidelines, Standards, and Consensus Statements
2021
Scalable inference of transcriptional kinetic parameters from MS2 time series data
Bowles J, Hoppe C, Ashe H, Rattray M. Scalable inference of transcriptional kinetic parameters from MS2 time series data. Bioinformatics 2021, 38: 1030-1036. PMID: 34788793, PMCID: PMC8796374, DOI: 10.1093/bioinformatics/btab765.Peer-Reviewed Original ResearchLive and fixed imaging of translation sites at single mRNA resolution in the Drosophila embryo
Vinter D, Hoppe C, Ashe H. Live and fixed imaging of translation sites at single mRNA resolution in the Drosophila embryo. STAR Protocols 2021, 2: 100812. PMID: 34585149, PMCID: PMC8450298, DOI: 10.1016/j.xpro.2021.100812.Peer-Reviewed Original ResearchDynamics of hunchback translation in real-time and at single-mRNA resolution in the Drosophila embryo
Vinter DJ, Hoppe C, Minchington TG, Sutcliffe C, Ashe HL. Dynamics of hunchback translation in real-time and at single-mRNA resolution in the Drosophila embryo. Development 2021, 148: dev196121. PMID: 33722899, PMCID: PMC8077512, DOI: 10.1242/dev.196121.Peer-Reviewed Original ResearchLive imaging and quantitation of nascent transcription using the MS2/MCP system in the Drosophila embryo
Hoppe C, Ashe HL. Live imaging and quantitation of nascent transcription using the MS2/MCP system in the Drosophila embryo. STAR Protocols 2021, 2: 100379. PMID: 33778778, PMCID: PMC7982776, DOI: 10.1016/j.xpro.2021.100379.Peer-Reviewed Original ResearchCRISPR-Cas9 strategies to insert MS2 stem-loops into endogenous loci in Drosophila embryos
Hoppe C, Ashe HL. CRISPR-Cas9 strategies to insert MS2 stem-loops into endogenous loci in Drosophila embryos. STAR Protocols 2021, 2: 100380. PMID: 33786461, PMCID: PMC7988240, DOI: 10.1016/j.xpro.2021.100380.Peer-Reviewed Original Research
2020
Modulation of the Promoter Activation Rate Dictates the Transcriptional Response to Graded BMP Signaling Levels in the Drosophila Embryo
Hoppe C, Bowles JR, Minchington TG, Sutcliffe C, Upadhyai P, Rattray M, Ashe HL. Modulation of the Promoter Activation Rate Dictates the Transcriptional Response to Graded BMP Signaling Levels in the Drosophila Embryo. Developmental Cell 2020, 54: 727-741.e7. PMID: 32758422, PMCID: PMC7527239, DOI: 10.1016/j.devcel.2020.07.007.Peer-Reviewed Original Research
2016
The dark matter of the cancer genome: aberrations in regulatory elements, untranslated regions, splice sites, non‐coding RNA and synonymous mutations
Diederichs S, Bartsch L, Berkmann JC, Fröse K, Heitmann J, Hoppe C, Iggena D, Jazmati D, Karschnia P, Linsenmeier M, Maulhardt T, Möhrmann L, Morstein J, Paffenholz SV, Röpenack P, Rückert T, Sandig L, Schell M, Steinmann A, Voss G, Wasmuth J, Weinberger ME, Wullenkord R. The dark matter of the cancer genome: aberrations in regulatory elements, untranslated regions, splice sites, non‐coding RNA and synonymous mutations. EMBO Molecular Medicine 2016, 8: 442-457. PMID: 26992833, PMCID: PMC5126213, DOI: 10.15252/emmm.201506055.Peer-Reviewed Reviews, Practice Guidelines, Standards, and Consensus Statements