Full List of Publications

Jeffrey Y Lee, Niles Huang, Tamsin J Samuels, Ilan Davis.Imp/IGF2BP and Syp/SYNCRIP temporal RNA interactomes uncover combinatorial networks of regulators of Drosophila brain development. Science Advances,  DOI: 10.1126/sciadv.adr6682  

Chapple KJ, Green TRF, Wirth S, Chen Y-H, Gerwig U, Aicher ML, Kim Y, Komarek L, Brown A, Crawford CL, Smith RS, Lee J, Pardo-Fernandez L, McHugh RE, Celia Kassmann CM, Werner HB, Davis I, Kneussel M, Brown ER, Goebbels S, Nave K-A, Edgar JM. (2024) A myelinic channel system for motor-driven organelle transport. bioRxiv 2024.06.02.591488; DOI: 10.1101/2024.06.02.591488

Jeffrey Y Lee, Niles Huang, Tamsin J Samuels, Ilan Davis. Imp and Syp in vivo temporal RNA interactomes uncover networks of temporal regulators of Drosophila brain development. bioRxiv 2024.06.30.600407; DOI: https://doi.org/10.1101/2024.06.30.600407

Lee JY, Gala DS, Kiourlappou M, Olivares-Abri J, Joha J, Titlow JS, Teodoro RO, Davis I. (2024). Murine glial protrusion transcripts predict localized Drosophila glial mRNAs involved in plasticity. Journal of Cell Biology, 223: e202306152. DOI: 10.1083/jcb.202306152

Gala DS, Titlow JS, Teodoro RO, Davis I. Far from home: the role of glial mRNA localization in synaptic plasticity. RNA PDF 

Mary Kay Thompson, Arianna Ceccarelli, David Ish-Horowicz, Ilan Davis Dynamically regulated transcription factors are encoded by highly unstable mRNAs in the Drosophila larval brain RNA PDF

Joshua S Titlow, Maria Kiourlappou, Ana Palanca, Jeffrey Y Lee,  Dalia S Gala, Darragh Ennis, Joyce J S Yu, Florence L Young, David Miguel Susano Pinto, Sam Garforth, Helena S Francis, Finn Strivens, Hugh Mulvey, Alex Dallman-Porter, Staci Thornton, Diana Arman, Aino I Järvelin, Mary Kay Thompson, Ilias Kounatidis, Richard M Parton, Stephen Taylor,  Ilan Davis Systematic analysis of YFP gene traps reveals common discordance between mRNA and protein across the nervous system. JCB PDF

Dalia S. Gala, Jeffrey Y. Lee, Maria Kiourlappou, Joshua S. Titlow, Rita O. Teodoro, Ilan Davis. Mammalian glial protrusion transcriptomes predict localization of Drosophila glial transcripts required for synaptic plasticity. JCB. DOI:  https://doi.org/10.1083/jcb.202306152 

Kiourlappou M, Taylor S, and Davis I. (2023) Multi-Dimensional Data Viewer (MDV) user manual for data exploration: "Systematic analysis of YFP traps reveals common discordance between mRNA and protein across the nervous system”.  DOI: 10.5281/zenodo.6374011

Dalia S. Gala, Jeffrey Y. Lee, Maria Kiourlappou, Joshua S. Titlow, Rita O. Teodoro, Ilan Davis. Mammalian glial protrusion transcriptomes predict localization of Drosophila glial transcripts required for synaptic plasticity. BioRxiv Pre-print

Jingnu Xia, Adán Pinto-Fernández, Andreas Damianou, Jeffery Y Lee, Benedikt M Kessler, Ilan Davis, Paul Elliott, Petros Ligoxygakis. Sex-specific deubiquitylation drives immune-related neurodegeneration in Drosophila BioRxiv Pre-print

Jingnu Xia, Adán Pinto-Fernández, Andreas Damianou, Jeffery Y Lee, Benedikt M Kessler, Ilan Davis, Paul Elliott, Petros Ligoxygakis. Sex-specific deubiquitylation drives immune-related neurodegeneration in Drosophila bioRxiv 2022.12.09.519782; doi: https://doi.org/10.1101/2022.12.09.519782

Mitchell J, Smith CS, Titlow J, Otto N, van Velde P, Booth MJ, Davis I. , Waddell S. (In Press) Selective dendritic localization of mRNA in Drosophila mushroom body output neurons eLife. PDF

Titlow J, Robertson F, Järvelin A, Ish-Horowicz D, Smith C, Gratton E, Davis I. (2020) Syncrip/hnRNP Q is required for activity-induced Msp300/Nesprin-1 expression and new synapse formation. J Cell Biol. PDF

Samuels TJ, Järvelin AI, Ish-Horowicz D, Davis I. (2020) Imp/IGF2BP levels modulate individual neural stem cell growth and division through myc mRNA stability. Elife. PDF

Thompson MK, Kiourlappou M, Davis I. (2020) Ribo-Pop: simple, cost-effective, and widely applicable ribosomal RNA depletion. RNA. PDF

Samuels TJ, Arava Y, Järvelin AI, Robertson F, Lee JY, Yang L, Yang CP, Lee T, Ish-Horowicz D, Davis I. (2020) Neuronal upregulation of Prospero protein is driven by alternative mRNA polyadenylation and Syncrip-mediated mRNA stabilisation. Biol Open. PDF

Harrison JU, Parton RM, Davis I, Baker RE. (2019) Testing Models of mRNA Localization Reveals Robustness Regulated by Reducing Transport between Cells. Biophys J. PDF

Yang L., Titlow J., Ennis D., Smith C., Mitchell J., Young F.L., Waddell S., Ish-Horowicz D., Davis I. (2017) Single molecule fluorescence in situ hybridisation for quantitating post-transcriptional regulation in Drosophila brains. Methods. PDF

Hu Q, Hailstone M, Wang J, Wincott M, Stoychev D, Atilgan H, Gala D, Chaiamarit T, Parton RM, Antonello J, Packer AM, Davis I, Booth MJ. Universal adaptive optics for microscopy through embedded neural network control. Light Sci Appl. PDF

Jingyu Wang, Danail Stoychev, Mick Phillips, David Miguel Susano Pinto, Richard M. Parton, Nick Hall, Josh Titlow, Ana Rita Faria, Matthew Wincott, Dalia Gala, Andreas Gerondopoulos, Niloufer Irani, Ian Dobbie, Lothar Schermelleh, Martin Booth, Ilan Davis. Deep super-resolution imaging of thick tissue using structured illumination with adaptive optics PDF

Olivares-Abri J, Joha J, Titlow JS, Davis, I. (2024) Optimisation of hybridisation-chain reaction method for imaging of single RNA molecules in Drosophila larvae. Fly 18(1). DOI: 10.1080/19336934.2024.2409968

Polcownuk, S., & Davis, I. Comprehensive database of fluorescence lifetime values for fluorochromes with emission peaks in the visible or near infrared [Data set]. Zenodo. DOI:  https://doi.org/10.5281/zenodo.11083940  

Wang J, Stoychev D, Phillips M, Pinto DMS, Parton RM, Hall N, Titlow JS, Faria AR, Wincott M, Gala GS, Gerondopoulos A, Irani N, Dobbie I, Schermelleh L, Booth M, Davis I. (2024). Deep super-resolution imaging of thick tissue using structured illumination with adaptive optics. bioRxiv DOI: 10.1101/2023.12.21.572818.

Hu Q, Hailstone M, Wang J, Wincott M, Stoychev D, Atilgan H, Gala D, Chaiamarit T, Parton RM, Antonello J, Packer AM, Davis I, Booth MJ. Universal adaptive optics for microscopy through embedded neural network control. Light Sci Appl. PDF

Jingyu Wang, Danail Stoychev, Mick Phillips, David Miguel Susano Pinto, Richard M. Parton, Nick Hall, Josh Titlow, Ana Rita Faria, Matthew Wincott, Dalia Gala, Andreas Gerondopoulos, Niloufer Irani, Ian Dobbie, Lothar Schermelleh, Martin Booth, Ilan Davis. Deep super-resolution imaging of thick tissue using structured illumination with adaptive optics PDF

David Miguel Miguel Susano Susano Pinto, Mick A Phillips, Nicholas Hall, Julio Mateos-Langerak, Danail Stoychev, Tiago Susano Pinto, Martin J Booth, Ilan Davis, Ian M Dobbie (2021) Python-Microscope: high performance control of arbitrarily complex and scalable bespoke microscopes. BioRxiv pre-print PDF

Phillips MA, Susano Pinto DM, Hall N, Mateos-Langerak J, Parton RM, Titlow J, Stoychev DV, Parks T, Pinto TS, Sedat JW, Booth MJ, Davis I, Dobbie IM. Microscope-Cockpit: Python-based bespoke microscopy for bio-medical science. Wellcome Open Research 6:76. PDF

Matthew Wincott, Andrew Jefferson, Ian M. Dobbie, Martin J. Booth, Ilan Davis, Richard M. Parton (2021) Democratising “Microscopi”: a 3D printed automated XYZT fluorescence imaging system for teaching, outreach and fieldwork Wellcome Open Research PDF

Hussain SA, Kubo T, Hall N, Gala D, Hampson K, Parton R, Phillips MA, Wincott M, Fujita K, Davis I, Dobbie I, Booth MJ. (2020) Wavefront-sensorless adaptive optics with a laser-free spinning disk confocal microscope. J Microsc. PDF

Kounatidis I, Stanifer ML, Phillips MA, Paul-Gilloteaux P, Heiligenstein X, Wang H, Okolo CA, Fish TM, Spink MC, Stuart DI, Davis I, Boulant S, Grimes JM, Dobbie IM, Harkiolaki M. (2020) 3D Correlative Cryo-Structured Illumination Fluorescence and Soft X-ray Microscopy Elucidates Reovirus Intracellular Release Pathway. Cell. PDF

Hailstone M, Waithe D, Samuels TJ, Yang L, Costello I, Arava Y, Robertson E, Parton RM, Davis I. (2020) CytoCensus, mapping cell identity and division in tissues and organs using machine learning. Elife. PDF

Michael A. Phillips, Maria Harkiolaki, David Miguel Susano Pinto, Richard M. Parton, Ana Palanca, Manuel Garcia-Moreno, Ilias Kounatidis, John W. Sedat, David I. Stuart, Alfredo Castello, Martin J. Booth, Ilan Davis, and Ian M. Dobbie. (2020) CryoSIM: super-resolution 3D structured illumination cryogenic fluorescence microscopy for correlated ultrastructural imaging. Optica PDF 

Žurauskas M, Dobbie IM, Parton RM, Phillips MA, Göhler A, Davis I, Booth MJ. (2019) IsoSense: frequency enhanced sensorless adaptive optics through structured illumination. Optica. PDF

Development (2024) 151 (21): dev204429.

https://doi.org/10.1242/dev.204429

Lee JY, Huang N, Samuels TJ, Davis I. Imp and Syp in vivo temporal RNA interactomes uncover networks of temporal regulators of Drosophila brain development. bioRxiv 2024.06.30.600407; DOI: 10.1101/2024.06.30.600407

Chapple KJ, Green TRF, Wirth S, Chen Y-H, Gerwig U, Aicher ML, Kim Y, Komarek L, Brown A, Crawford CL, Smith RS, Lee J, Pardo-Fernandez L, McHugh RE, Celia Kassmann CM, Werner HB, Davis I, Kneussel M, Brown ER, Goebbels S, Nave K-A, Edgar JM. (2024) A myelinic channel system for motor-driven organelle transport. bioRxiv 2024.06.02.591488; DOI: 10.1101/2024.06.02.591488

Wang J, Stoychev D, Phillips M, Pinto DMS, Parton RM, Hall N, Titlow JS, Faria AR, Wincott M, Gala GS, Gerondopoulos A, Irani N, Dobbie I, Schermelleh L, Booth M, Davis I. (2024). Deep super-resolution imaging of thick tissue using structured illumination with adaptive optics. bioRxiv DOI: 10.1101/2023.12.21.572818.

Lee JY, Gala DS, Kiourlappou M, Olivares-Abri J, Joha J, Titlow JS, Teodoro RO, Davis I. (2024). Murine glial protrusion transcripts predict localized Drosophila glial mRNAs involved in plasticity. Journal of Cell Biology, 223: e202306152. DOI: 10.1083/jcb.202306152

Olivares-Abri J, Joha J, Titlow JS, Davis, I. (2024) Optimisation of hybridisation-chain reaction method for imaging of single RNA molecules in Drosophila larvae. Fly 18(1). DOI: 10.1080/19336934.2024.2409968

Polcownuk, S., & Davis, I. (2024) Comprehensive database of fluorescence lifetime values for fluorochromes with emission peaks in the visible or near infrared. Zenodo. DOI: 10.5281/zenodo.11083940

Development (2024) 151 (21): dev204429.

https://doi.org/10.1242/dev.204429

Lee JY, Huang N, Samuels TJ, Davis I. Imp and Syp in vivo temporal RNA interactomes uncover networks of temporal regulators of Drosophila brain development. bioRxiv 2024.06.30.600407; DOI: 10.1101/2024.06.30.600407

Chapple KJ, Green TRF, Wirth S, Chen Y-H, Gerwig U, Aicher ML, Kim Y, Komarek L, Brown A, Crawford CL, Smith RS, Lee J, Pardo-Fernandez L, McHugh RE, Celia Kassmann CM, Werner HB, Davis I, Kneussel M, Brown ER, Goebbels S, Nave K-A, Edgar JM. (2024) A myelinic channel system for motor-driven organelle transport. bioRxiv 2024.06.02.591488; DOI: 10.1101/2024.06.02.591488

Wang J, Stoychev D, Phillips M, Pinto DMS, Parton RM, Hall N, Titlow JS, Faria AR, Wincott M, Gala GS, Gerondopoulos A, Irani N, Dobbie I, Schermelleh L, Booth M, Davis I. (2024). Deep super-resolution imaging of thick tissue using structured illumination with adaptive optics. bioRxiv DOI: 10.1101/2023.12.21.572818.

Lee JY, Gala DS, Kiourlappou M, Olivares-Abri J, Joha J, Titlow JS, Teodoro RO, Davis I. (2024). Murine glial protrusion transcripts predict localized Drosophila glial mRNAs involved in plasticity. Journal of Cell Biology, 223: e202306152. DOI: 10.1083/jcb.202306152

Olivares-Abri J, Joha J, Titlow JS, Davis, I. (2024) Optimisation of hybridisation-chain reaction method for imaging of single RNA molecules in Drosophila larvae. Fly 18(1). DOI: 10.1080/19336934.2024.2409968

Polcownuk, S., & Davis, I. (2024) Comprehensive database of fluorescence lifetime values for fluorochromes with emission peaks in the visible or near infrared. Zenodo. DOI: 10.5281/zenodo.11083940

Jingyu Wang, Danail Stoychev, Mick Phillips, David Miguel Susano Pinto, Richard M. Parton, Nick Hall, Josh Titlow, Ana Rita Faria, Matthew Wincott, Dalia Gala, Andreas Gerondopoulos, Niloufer Irani, Ian Dobbie, Lothar Schermelleh, Martin Booth, Ilan Davis. Deep super-resolution imaging of thick tissue using structured illumination with adaptive optics PDF

Mary Kay Thompson, Arianna Ceccarelli, David Ish-Horowicz, Ilan Davis Dynamically regulated transcription factors are encoded by highly unstable mRNAs in the Drosophila larval brain RNA PDF

Mangione F, Titlow J, Maclachlan C, Gho M, Davis I, Collinson L, Tapon N. Co-option of epidermal cells enables touch sensing. Nat Cell Biol. PDF

Gala DS, Titlow JS, Teodoro RO, Davis I. Far from home: the role of glial mRNA localization in synaptic plasticity. RNA PDF 

Joshua S Titlow, Maria Kiourlappou, Ana Palanca, Jeffrey Y Lee,  Dalia S Gala, Darragh Ennis, Joyce J S Yu, Florence L Young, David Miguel Susano Pinto, Sam Garforth, Helena S Francis, Finn Strivens, Hugh Mulvey, Alex Dallman-Porter, Staci Thornton, Diana Arman, Aino I Järvelin, Mary Kay Thompson, Ilias Kounatidis, Richard M Parton, Stephen Taylor,  Ilan Davis (2022) Systematic analysis of YFP gene traps reveals common discordance between mRNA and protein across the nervous system. JCB In Press

Dalia S. Gala, Jeffrey Y. Lee, Maria Kiourlappou, Joshua S. Titlow, Rita O. Teodoro, Ilan Davis. Mammalian glial protrusion transcriptomes predict localization of Drosophila glial transcripts required for synaptic plasticity. Under review, Reviews Commons

Yang L, Parton RM, Ball G, Qiu Z, Greenaway AH, Davis I and Lu W (2010). "An adaptive nonlocal means filter for denoising live-cell images and improving particle detection." PDF

Weil TT, Xanthakis D, Parton RM, Dobbie IM, Rabouille C, Gavis ER and Davis I (2010).

"Distinguishing direct from indirect roles for bicoid mRNA localization factors." Development PDF

Hamilton RS, Parton RM, Oliveira RA, Vendra G, Ball G, Nasmyth K and Davis I (2010).

"ParticleStats: open source software for the analysis of particle motility and cytoskeletal polarity." Nucleic Acids Research PDF

Oliveira, RA, Hamilton RS, Pauli A, Davis I and Nasmyth K (2010). "Cohesin cleavage and Cdk inhibition trigger formation of daughter nuclei." Nature Cell Biology PDF

Weil TT, Parton RM and Davis I (2010). "Making the message clear: visualizing mRNA localization." Trends Cell Biology PDF

Parton RM, Valles AM, Dobbie IM and Davis I (2010). "Isolation of Drosophila egg chambers for imaging." Cold Spring Harb Protoc PDF

Parton RM, Valles AM, Dobbie IM and Davis I (2010). "Collection and mounting of Drosophila embryos for imaging." Cold Spring Harb Protoc PDF

Parton RM, Valles AM, Dobbie IM and Davis I (2010). "Drosophila macrophage preparation and screening." Cold Spring Harb Protoc PDF

Parton RM, Valles AM, Dobbie IM and Davis I (2010). "Drosophila larval fillet preparation and imaging of neurons." Cold Spring Harb Protoc PDF

Parton RM, Valles AM, Dobbie IM and Davis I (2010). "Live cell imaging in Drosophila melanogaster." Cold Spring Harb Protoc PDF

Parton RM and Davis I (2010). "How the sea squirt nucleus tells mesoderm not to be endoderm." Dev Cell PDF

Meignin C and Davis I (2010). "Transmitting the message: intracellular mRNA localization." Current Opinions Cell Biology PDF

Hamilton RS, Hartswood E, Vendra G, Jones C, Van De Bor V, Finnegan D and Davis I (2009). "A bioinformatics search pipeline, RNA2DSearch, identifies RNA localization elements in Drosophila retrotransposons." RNA PDF

Davis I (2009). "The 'super-resolution' revolution." Bioch Soc Trans PDF

Beckett MG, Allton CR, Davies CT, Davis I, Flynn JM, Grant EJ, Hamilton RS, Irving AC, Kenway RD, Ostrowski RH, Perry JT, Swedlow JR and Trew A (2009). "Building a scientific data grid with DiGS." Philos Trans A Math Phys Eng Sci PDF

Zimyanin VL, Belaya K, Pecreaux J, Gilchrist MJ, Clark A, Davis I and St Johnston D (2008). "In vivo imaging of oskar mRNA transport reveals the mechanism of posterior localization." Cell PDF

Weil TT, Parton RM, Davis I and Gavis ER (2008). "Changes in bicoid mRNA anchoring highlight conserved mechanisms during the oocyte-to-embryo transition." Current Biology PDF

Pickard BS, Knight HM, Hamilton RS, Soares DC, Walker R, Boyd JK, Machell J, Maclean A, McGhee KA, Condie A, Porteous DJ, St Clair D, Davis I, Blackwood DH and Muir WJ (2008). A common variant in the 3'UTR of the GRIK4 glutamate receptor gene affects transcript abundance and protects against bipolar disorder. PNAS PDF

Meignin C and Davis I (2008). UAP56 RNA helicase is required for axis specification and cytoplasmic mRNA localization in Drosophila. Developmental Biology PDF

Vendra G, Hamilton RS and Davis I (2007). "Dynactin suppresses the retrograde movement of apically localized mRNA in Drosophila blastoderm embryos." RNA Journal. PDF

Tekotte H, Tollervey D and Davis I (2007). "Imaging the migrating border cell cluster in living Drosophila egg chambers." Developmental Dynamics PDF

Meignin C, Alvarez-Garcia I, Davis I and Palacios IM (2007). "The salvador-warts-hippo pathway is required for epithelial proliferation and axis specification in Drosophila." Curr Biol PDF

Hamilton RS and Davis I (2007). "RNA localization signals: deciphering the message with bioinformatics." Seminars Cell Developmental Biology PDF

Delanoue R, Herpers B., Soetaert J., Davis I and Rabouille C (2007). "Drosophila Squid/ hnRNP helps Dynein switch from a gurken mRNA transport motor to an ultrastructural static anchor in sponge bodies." Dev Cell PDF

Clark A, Meignin C and Davis I (2007). "A Dynein-dependent shortcut rapidly delivers axis determination transcripts into the Drosophila oocyte." Development PDF

Tekotte H and Davis I (2006). "Bruno: a double turn-off for Oskar." Developmental Cell PDF

Davis I and Parton RM (2006). "Fluorescent reagents for live cell imaging and their introduction into cells." Cold Spring Harbor Protoc. PDF

Davis I and Parton RM (2006). "Selection of appropriate imaging equipment and methodology for live cell imaging in Drosophila." Cold Spring Harbor Protoc. PDF

Davis I and Parton RM (2006). "Time-lapse cinematography in living Drosophila tissues:preparation of material." Cold Spring Harbor Protoc. PDF

Van De Bor V, Hartswood E, Jones C, Finnegan D and Davis I (2005). "gurken and the I factor retrotransposon RNAs share common localization signals and machinery." Developmental Cell PDF

Delanoue R and Davis I (2005). "Dynein anchors its mRNA cargo after apical transport in the Drosophila blastoderm embryo." Cell PDF

Van de Bor V and Davis I (2004). "mRNA localisation gets more complex." Current Opinions Cell Biology PDF

Davis I (2004). "A helicase that gets Oskar's message across." Nature Cell Biology PDF

MacDougall N, Clark A, MacDougall E and Davis I (2003). "Drosophila gurken (TGFalpha) mRNA localizes as particles that move within the oocyte in two Dynein-dependent steps." Developmental Cell PDF

Tekotte H and Davis I (2002). "Intracellular mRNA localization: motors move messages." Trends in Genetics PDF

Tekotte H, Berdnik D, Torok T, Buszczak M, Jones LM, Cooley L, Knoblich JA and Davis I (2002). "Dcas is required for importin-alpha3 nuclear export and mechano-sensory organ cell fate specification in Drosophila." Developmental Biology PDF

Bownes M, Charlesworth B, Davis I, Finnegan D, Heck M, Jarman A, Keegan L, Ohkura H, Rabouille C (2002). Report on the 17th European Drosophila research conference Bioessays PDF

Wilkie GS, Zimyanin V, Kirby R, Korey C, Francis-Lang H, Van Vactor D and Davis I (2001).  "Small bristles, the Drosophila ortholog of NXF-1, is essential for mRNA export throughout development." RNA Journal PDF

Wilkie GS and Davis I (2001) Drosophila wingless and pair-rule transcripts localize apically by Dynein mediated transport of RNA particles. Cell PDF

MacDougall N, Lad Y, Wilkie GS, H. Francis-Lang, W. Sullivan and I. Davis (2001). "Merlin, the Drosophila homologue of neurofibromatosis-2, is specifically required in posterior follicle cells for axis formation in the oocyte." Development  PDF  

Kumar JP, Wilkie GS, Tekotte H, Moses K and Davis I (2001). "Perturbing nuclear transport in Drosophila eye imaginal discs causes specific cell adhesion and axon guidance defects." Developmental Biology PDF

Korey CA, Wilkie GS, Davis I and Van Vactor D (2001). "Small bristles is required for the morphogenesis of multiple tissues during Drosophila development." Genetics  PDF

Davis I (2000). “Imaging fluorescence in thick Drosophila specimens”. Chapter in: "Protein localization using fluorescence microscopy: a practical approach” Editor: Allan, V. Publisher: OUP. Chapter 5, p133.

Wilkie GS, Shermoen AW, O’Farrell PH and Davis I (1999). "Transcribed genes are localized according to chromosomal position within polarized Drosophila embryonic nuclei." Current Biology PDF

Davis I (1999) GFP in motion: Live Fluorescent imaging using Green Fluorescent Protein.  Editors: Ludin and Matus. Trends in Cell Biology, supplement.