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Dominic Waithe homepage

Keywords

computational biology, imaging, analysis, image analysis, correlation, FCS, STED, super resolution, computer vision, machine learning, colocalisation, microscopy, geometry

Countries

United Kingdom

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Employment (1)

University of Oxford: Oxford, Oxfordshire, GB

(Weatherall Institute of Molecular Medicine)
Employment
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ORCID Integration at the University of Oxford

Education and qualifications (2)

University College London Department of Computer Science: London, London, GB

2012-10-01 to 2013-08-01 | Computer Graphics Vision and Imaging MSc. (Department of Computer Science)
Education
Source: Self-asserted source
Dominic Waithe

University College London Research Department of Neuroscience Physiology and Pharmacology: London, London, GB

2005-09-31 to 2009-10-01 | Pharmacology PhD. (Neuroscience Pharmacology and Physiology)
Education
Source: Self-asserted source
Dominic Waithe

Works (50 of 59)

Items per page:
Page 1 of 2

SNM1A is crucial for efficient repair of complex DNA breaks in human cells.

Nature communications
2024-06 | Journal article
DOI: 10.1038/s41467-024-49583-5
PMID: 38918391
PMC: PMC11199599
Contributors: Swift LP; Lagerholm BC; Henderson LR; Ratnaweera M; Baddock HT; Sengerova B; Lee S; Cruz-Migoni A; Waithe D; Renz C et al.
Source: Self-asserted source
Dominic Waithe via Europe PubMed Central

Neural network informed photon filtering reduces fluorescence correlation spectroscopy artifacts.

Biophysical journal
2024-02 | Journal article
DOI: 10.1016/j.bpj.2024.02.012
PMID: 38384131
Contributors: Seltmann A; Carravilla P; Reglinski K; Eggeling C; Waithe D
Source: Self-asserted source
Dominic Waithe via Europe PubMed Central

Annotation-free learning of a spatio-temporal manifold of the cell life cycle.

Biological imaging
2023-10 | Journal article
DOI: 10.1017/s2633903x23000193
PMID: 38510168
PMC: PMC10951929
Contributors: Delas Peñas K; Dmitrieva M; Waithe D; Rittscher J
Source: Self-asserted source
Dominic Waithe via Europe PubMed Central

SNM1A (DCLRE1A) is crucial for efficient repair of complex DNA breaks in human cells

2023-08 | Preprint
DOI: 10.21203/rs.3.rs-3169914/v1
PPR: PPR702841
Contributors: McHugh P; Swift L; Lagerholm BC; Baddock H; Henderson L; Ratnaweera M; Sengerova B; Lee S; Cruz-Migoni A; Waithe D et al.
Source: Self-asserted source
Dominic Waithe via Europe PubMed Central

Neural Network Informed Photon Filtering Reduces Artifacts in Fluorescence Correlation Spectroscopy Data

2023-08-25 | Preprint
DOI: 10.1101/2023.08.24.554627
Contributors: Alexander Seltmann; Pablo Carravilla; Katharina Reglinski; Christian Eggeling; Dominic Waithe
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Crossref

A novel PEX14/PEX5 interface links peroxisomal protein import and receptor recycling

2023-08-09 | Preprint
DOI: 10.1101/2023.08.08.552478
Contributors: Leonidas Emmanouilidis; Jessica Sehr; Katharina Reglinski; Stefan Gaussmann; David Goricanec; Jonathan Kordon; Filipe Menezes; Dominic Waithe; Philip Hublitz; Verian Bader et al.
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Crossref

Diffusion and interaction dynamics of the cytosolic peroxisomal import receptor PEX5.

Biophysical reports
2022-06 | Journal article
DOI: 10.1016/j.bpr.2022.100055
PMID: 36299769
PMC: PMC9586885
Contributors: Galiani S; Reglinski K; Carravilla P; Barbotin A; Urbančič I; Ott J; Sehr J; Sezgin E; Schneider F; Waithe D et al.
Source: Self-asserted source
Dominic Waithe via Europe PubMed Central

Functional impairment of erythropoiesis in Congenital Dyserythropoietic Anaemia type I arises at the progenitor level.

British journal of haematology
2022-04 | Journal article
DOI: 10.1111/bjh.18167
PMID: 35417566
Contributors: Scott C; Bartolovic K; Clark SA; Waithe D; Hill QA; Okoli S; Renella R; Ryan K; Cahill MR; Higgs DR et al.
Source: Self-asserted source
Dominic Waithe via Europe PubMed Central

Hypoxia Regulates Endogenous Double-Stranded RNA Production <i>via</i> Reduced Mitochondrial DNA Transcription.

Frontiers in oncology
2021-11 | Journal article
DOI: 10.3389/fonc.2021.779739
PMID: 34900733
PMC: PMC8651540
Contributors: Arnaiz E; Miar A; Dias Junior AG; Prasad N; Schulze U; Waithe D; Nathan JA; Rehwinkel J; Harris AL
Source: Self-asserted source
Dominic Waithe via Europe PubMed Central

Open-source browser-based software simplifies fluorescence correlation spectroscopy data analysis

Nature Photonics
2021-11-08 | Journal article
DOI: 10.1038/s41566-021-00876-x
Contributors: Dominic Waithe
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Crossref

Diffusion and interaction dynamics of the cytosolic peroxisomal import receptor PEX5

2021-05-26 | Other
DOI: 10.1101/2021.05.25.445571
Contributors: S Galiani; K Reglinski; P Carravilla; A Barbotin; I Urbančič; J Ott; J Sehr; E Sezgin; F Schneider; D Waithe et al.
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Crossref

Oncogenic Gata1 causes stage-specific megakaryocyte differentiation delay.

Haematologica
2021-04 | Journal article
DOI: 10.3324/haematol.2019.244541
PMID: 32527952
PMC: PMC8018159
Contributors: Juban G; Sakakini N; Chagraoui H; Cruz Hernandez D; Cheng Q; Soady K; Stoilova B; Garnett C; Waithe D; Otto G et al.
Source: Self-asserted source
Dominic Waithe via Europe PubMed Central

Summary of two questionnaires designed to understand the research climate for Bioimage Analysts in the UK between 2016-2019 [version 1; peer review: 1 approved, 2 approved with reservations]

2021-04-06 | Journal article
DOI: 10.12688/f1000research.51794.1
Part of ISSN: 2046-1402
Contributors: Dominic Waithe
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Oxidation of Protein Kinase A Regulatory Subunit PKARIα Protects Against Myocardial Ischemia-Reperfusion Injury by Inhibiting Lysosomal-Triggered Calcium Release

Circulation
2021-02-02 | Journal article
DOI: 10.1161/CIRCULATIONAHA.120.046761
Contributors: Jillian N. Simon; Besarte Vrellaku; Stefania Monterisi; Sandy M. Chu; Nadiia Rawlings; Oliver Lomas; Gerard A. Marchal; Dominic Waithe; Fahima Syeda; Parag R. Gajendragadkar et al.
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Challenges of Using Expansion Microscopy for Super-resolved Imaging of Cellular Organelles.

Chembiochem : a European journal of chemical biology
2020-11 | Journal article
DOI: 10.1002/cbic.202000571
PMID: 33049107
PMC: PMC7894168
Contributors: Büttner M; Lagerholm CB; Waithe D; Galiani S; Schliebs W; Erdmann R; Eggeling C; Reglinski K
Source: Self-asserted source
Dominic Waithe via Europe PubMed Central

Object detection networks and augmented reality for cellular detection in fluorescence microscopy

Journal of Cell Biology
2020-10-05 | Journal article
DOI: 10.1083/jcb.201903166
Contributors: Dominic Waithe; Jill M. Brown; Katharina Reglinski; Isabel Diez-Sevilla; David Roberts; Christian Eggeling
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Hypoxia regulates endogenous double-stranded RNA production via reduced mitochondrial DNA transcription

2020-07-31 | Preprint
DOI: 10.1101/2020.07.31.230300
Contributors: Esther Arnaiz; Ana Miar; Antonio Gregorio Dias, Junior; Naveen Prasad; Ulrike Schulze; Dominic Waithe; Jan Rehwinkel; Adrian L. Harris
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Crossref
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CytoCensus, mapping cell identity and division in tissues and organs using machine learning

eLife
2020-05-19 | Journal article
DOI: 10.7554/eLife.51085
Contributors: Martin Hailstone; Dominic Waithe; Tamsin J Samuels; Lu Yang; Ita Costello; Yoav Arava; Elizabeth Robertson; Richard M Parton; Ilan Davis
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Ligand-dependent downregulation of MR1 cell surface expression.

Proceedings of the National Academy of Sciences of the United States of America
2020-04 | Journal article
DOI: 10.1073/pnas.2003136117
PMID: 32341160
PMC: PMC7229755
Contributors: Salio M; Awad W; Veerapen N; Gonzalez-Lopez C; Kulicke C; Waithe D; Martens AWJ; Lewinsohn DM; Hobrath JV; Cox LR et al.
Source: Self-asserted source
Dominic Waithe via Europe PubMed Central

Congenital myasthenic syndrome due to mutations in MUSK suggests that the level of MuSK phosphorylation is crucial for governing synaptic structure.

Human mutation
2019-11 | Journal article
DOI: 10.1002/humu.23949
PMID: 31765060
PMC: PMC7028094
Contributors: Rodríguez Cruz PM; Cossins J; Cheung J; Maxwell S; Jayawant S; Herbst R; Waithe D; Kornev AP; Palace J; Beeson D
Source: Self-asserted source
Dominic Waithe via Europe PubMed Central

Proof-of-concept clinical trial of etokimab shows a key role for IL-33 in atopic dermatitis pathogenesis

Science Translational Medicine
2019-10-23 | Journal article
DOI: 10.1126/scitranslmed.aax2945
Contributors: Yi-Ling Chen; Danuta Gutowska-Owsiak; Clare S. Hardman; Melanie Westmoreland; Teena MacKenzie; Liliana Cifuentes; Dominic Waithe; Antonia Lloyd-Lavery; Allison Marquette; Marco Londei et al.
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Crossref

Oncogenic Gata1 causes stage-specific megakaryocyte differentiation delay

2019-10-03 | Other
DOI: 10.1101/791079
Contributors: Gaëtan Juban; Nathalie Sakakini; Hedia Chagraoui; Qian Cheng; Kelly Soady; Bilyana Stoilova; Catherine Garnett; Dominic Waithe; Jess Doondeea; Batchimeg Usukhbayar et al.
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Crossref

Measuring nanoscale diffusion dynamics in cellular membranes with super-resolution STED–FCS

Nature Protocols
2019-03-06 | Journal article
DOI: 10.1038/s41596-019-0127-9
Contributors: Erdinc Sezgin; Falk Schneider; Silvia Galiani; Iztok Urbančič; Dominic Waithe; B. Christoffer Lagerholm; Christian Eggeling
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Crossref

Molecular recognition of the native HIV-1 MPER revealed by STED microscopy of single virions

Nature Communications
2019-01-08 | Journal article
DOI: 10.1038/s41467-018-07962-9
Contributors: Pablo Carravilla; Jakub Chojnacki; Edurne Rujas; Sara Insausti; Eneko Largo; Dominic Waithe; Beatriz Apellaniz; Taylor Sicard; Jean-Philippe Julien; Christian Eggeling et al.
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Crossref

SCL/TAL1 cooperates with Polycomb RYBP-PRC1 to suppress alternative lineages in blood-fated cells

Nature Communications
2018-12-18 | Journal article
DOI: 10.1038/s41467-018-07787-6
Contributors: Hedia Chagraoui; Maiken S. Kristiansen; Juan Pablo Ruiz; Ana Serra-Barros; Johanna Richter; Elisa Hall-Ponselé; Nicki Gray; Dominic Waithe; Kevin Clark; Philip Hublitz et al.
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Crossref

A tissue-specific self-interacting chromatin domain forms independently of enhancer-promoter interactions

Nature Communications
2018-09-21 | Journal article
DOI: 10.1038/s41467-018-06248-4
Contributors: Jill M. Brown; Nigel A. Roberts; Bryony Graham; Dominic Waithe; Christoffer Lagerholm; Jelena M. Telenius; Sara De Ornellas; A. Marieke Oudelaar; Caroline Scott; Izabela Szczerbal et al.
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Crossref

Lipid Composition but Not Curvature Is the Determinant Factor for the Low Molecular Mobility Observed on the Membrane of Virus-Like Vesicles.

Viruses
2018-08 | Journal article
DOI: 10.3390/v10080415
PMID: 30096847
PMC: PMC6116177
Contributors: Urbančič I; Brun J; Shrestha D; Waithe D; Eggeling C; Chojnacki J
Source: Self-asserted source
Dominic Waithe via Europe PubMed Central

Statistical Analysis of Scanning Fluorescence Correlation Spectroscopy Data Differentiates Free from Hindered Diffusion.

ACS nano
2018-07 | Journal article
DOI: 10.1021/acsnano.8b04080
PMID: 30028588
PMC: PMC6117752
Contributors: Schneider F; Waithe D; Lagerholm BC; Shrestha D; Sezgin E; Eggeling C; Fritzsche M
Source: Self-asserted source
Dominic Waithe via Europe PubMed Central

Nanoscale Spatiotemporal Diffusion Modes Measured by Simultaneous Confocal and Stimulated Emission Depletion Nanoscopy Imaging.

Nano letters
2018-06 | Journal article
DOI: 10.1021/acs.nanolett.8b01190
PMID: 29893574
Contributors: Schneider F; Waithe D; Galiani S; Bernardino de la Serna J; Sezgin E; Eggeling C
Source: Self-asserted source
Dominic Waithe via Europe PubMed Central

Active and inactive β1 integrins segregate into distinct nanoclusters in focal adhesions

Journal of Cell Biology
2018-06-04 | Journal article
DOI: 10.1083/jcb.201707075
Contributors: Matthias Spiess; Pablo Hernandez-Varas; Anna Oddone; Helene Olofsson; Hans Blom; Dominic Waithe; John G. Lock; Melike Lakadamyali; Staffan Strömblad
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Crossref

Striking parallels between carotid body glomus cell and adrenal chromaffin cell development.

Developmental biology
2018-05 | Journal article
DOI: 10.1016/j.ydbio.2018.05.016
PMID: 29807017
Contributors: Hockman D; Adameyko I; Kaucka M; Barraud P; Otani T; Hunt A; Hartwig AC; Sock E; Waithe D; Franck MCM et al.
Source: Self-asserted source
Dominic Waithe via Europe PubMed Central

Lipid composition but not curvature is a determinant of a low molecular mobility within HIV-1 lipid envelope

2018-05-04 | Other
DOI: 10.1101/315168
Contributors: Iztok Urbančič; Juliane Brun; Dilip Shrestha; Dominic Waithe; Christian Eggeling; Jakub Chojnacki
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Crossref

A tissue-specific self-interacting chromatin domain forms independently of enhancer-promoter interactions

2017-12-15 | Other
DOI: 10.1101/234427
Contributors: Jill M Brown; Nigel A Roberts; Bryony Graham; Dominic Waithe; Christoffer Lagerholm; Jelena M Telenius; Sara De Ornellas; A Marieke Oudelaar; Izabela Szczerbal; Christian Babbs et al.
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Crossref

Optimized processing and analysis of conventional confocal microscopy generated scanning FCS data.

Methods (San Diego, Calif.)
2017-09 | Journal article
DOI: 10.1016/j.ymeth.2017.09.010
PMID: 28963070
Source: Self-asserted source
Dominic Waithe via Europe PubMed Central
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Polarity-Sensitive Probes for Superresolution Stimulated Emission Depletion Microscopy.

Biophysical journal
2017-09 | Journal article
DOI: 10.1016/j.bpj.2017.06.050
PMID: 28734477
Source: Self-asserted source
Dominic Waithe via Europe PubMed Central

Envelope glycoprotein mobility on HIV-1 particles depends on the virus maturation state

Nature Communications
2017-09-15 | Journal article
DOI: 10.1038/s41467-017-00515-6
Contributors: Jakub Chojnacki; Dominic Waithe; Pablo Carravilla; Nerea Huarte; Silvia Galiani; Jörg Enderlein; Christian Eggeling
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Crossref

Cytoskeletal actin dynamics shape a ramifying actin network underpinning immunological synapse formation.

2017-06 | Journal article
PMC: PMC5479650
Contributors: Fritzsche M; Fernandes RA; Chang VT; Colin-York H; Clausen MP; Felce JH; Galiani S; Erlenkämper C; Santos AM; Heddleston JM et al.
Source: Self-asserted source
Dominic Waithe via Europe PubMed Central

Diffusion of lipids and GPI-anchored proteins in actin-free plasma membrane vesicles measured by STED-FCS.

2017-06 | Journal article
DOI: 10.1091/mbc.e16-07-0536
PMID: 28404749
Contributors: Schneider F; Waithe D; Clausen MP; Galiani S; Koller T; Ozhan G; Eggeling C; Sezgin E
Source: Self-asserted source
Dominic Waithe via Europe PubMed Central

Brain Development: Machine Learning Analysis Of Individual Stem Cells In Live 3D Tissue

2017-05 | Journal article
DOI: 10.1101/137406
OTHER-ID:

PPR19147
Contributors: Hailstone M; Yang L; Waithe D; Samuels TJ; Arava Y; Dobrzycki T; Parton RM; Davis I
Source: Self-asserted source
Dominic Waithe via Europe PubMed Central

3-D Density Kernel Estimation for Counting in Microscopy Image Volumes Using 3-D Image Filters and Random Decision Trees

Computer Vision – ECCV 2016 Workshops
2016 | Other
DOI: 10.1007/978-3-319-46604-0_18
Contributors: Dominic Waithe; Martin Hailstone; Mukesh Kumar Lalwani; Richard Parton; Lu Yang; Roger Patient; Christian Eggeling; Ilan Davis
Source: Self-asserted source
Dominic Waithe via Crossref Metadata Search

Predicting the three-dimensional folding of cis-regulatory regions in mammalian genomes using bioinformatic data and polymer models.

2016 | Journal article
DOI: 10.1186/s13059-016-0909-0
PMID: 27036497
PMC: PMC4815170
Contributors: Brackley CA; Brown JM; Waithe D; Babbs C; Davies J; Hughes JR; Buckle VJ; Marenduzzo D
Source: Self-asserted source
Dominic Waithe via Europe PubMed Central

Super resolution microscopy reveals compartmentalization of peroxisomal membrane proteins.

2016-06 | Journal article
PMID: 27311714
Contributors: Galiani S; Waithe D; Reglinski K; Cruz-Zaragoza LD; Garcia E; Clausen MP; Schliebs W; Erdmann R; Eggeling C
Source: Self-asserted source
Dominic Waithe via Europe PubMed Central

Super-Resolved Traction Force Microscopy (STFM).

2016-04 | Journal article
DOI: 10.1021/acs.nanolett.6b00273
PMID: 26923775
Contributors: Colin-York H; Shrestha D; Felce JH; Waithe D; Moeendarbary E; Davis SJ; Eggeling C; Fritzsche M
Source: Self-asserted source
Dominic Waithe via Europe PubMed Central

A dynamic niche provides Kit ligand in a stage-specific manner to the earliest thymocyte progenitors.

2016-02 | Journal article
DOI: 10.1038/ncb3299
PMID: 26780297
Contributors: Buono M; Facchini R; Matsuoka S; Thongjuea S; Waithe D; Luis TC; Giustacchini A; Besmer P; Mead AJ; Jacobsen SE et al.
Source: Self-asserted source
Dominic Waithe via Europe PubMed Central

T-Cells in Suspension Do Not Show Pre-Clustered LCK

Biophysical Journal
2016-02 | Journal article
DOI: 10.1016/j.bpj.2015.11.3049
Contributors: Jorge Bernardino de la Serna; Veronica T. Chang; Dominic Waithe; Ricardo A. Fernandes; Marco Fritzsche; Ana Mafalda Santos; Dilip Shrestha; James H. Felce; Meike C. Assmann; Simon J. Davis et al.
Source: Self-asserted source
Dominic Waithe via Crossref Metadata Search

Peroxisomal Import Reduces the Proapoptotic Activity of Deubiquitinating Enzyme USP2.

2015 | Journal article
DOI: 10.1371/journal.pone.0140685
PMID: 26484888
PMC: PMC4617714
Contributors: Reglinski K; Keil M; Altendorf S; Waithe D; Eggeling C; Schliebs W; Erdmann R
Source: Self-asserted source
Dominic Waithe via Europe PubMed Central

QuantiFly: Robust Trainable Software for Automated Drosophila Egg Counting.

2015 | Journal article
DOI: 10.1371/journal.pone.0127659
PMID: 25992957
PMC: PMC4436334
Contributors: Waithe D; Rennert P; Brostow G; Piper MD
Source: Self-asserted source
Dominic Waithe via Europe PubMed Central

A comparative study on fluorescent cholesterol analogs as versatile cellular reporters.

2015-12 | Journal article
PMID: 26701325
Contributors: Sezgin E; Can FB; Schneider F; Clausen MP; Galiani S; Stanly TA; Waithe D; Colaco A; Honigmann A; Wuestner D et al.
Source: Self-asserted source
Dominic Waithe via Europe PubMed Central

FoCuS-point: software for STED fluorescence correlation and time-gated single photon counting

Bioinformatics
2015-11 | Journal article
DOI: 10.1093/bioinformatics/btv687
Contributors: Dominic Waithe; Mathias P. Clausen; Erdinc Sezgin; Christian Eggeling
Source: Self-asserted source
Dominic Waithe via Crossref Metadata Search

STED-FLCS: An Advanced Tool to Reveal Spatiotemporal Heterogeneity of Molecular Membrane Dynamics.

2015-09 | Journal article
DOI: 10.1021/acs.nanolett.5b02001
PMID: 26235350
Contributors: Vicidomini G; Ta H; Honigmann A; Mueller V; Clausen MP; Waithe D; Galiani S; Sezgin E; Diaspro A; Hell SW et al.
Source: Self-asserted source
Dominic Waithe via Europe PubMed Central
Items per page:
Page 1 of 2

Peer review (2 reviews for 2 publications/grants)

Review activity for Nature machine intelligence. (1)
Review activity for Nature methods. (1)
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