Application driven Topological Data Analysis
Lead Research Organisation:
University of Oxford
Department Name: Mathematical Institute
Abstract
Modern science and technology generates data at an unprecedented rate. A major challenge is that this data is often complex, high dimensional, may include temporal and/or spatial information. The "shape" of the data can be important but it is difficult to extract and quantify it using standard machine learning or statistical techniques. For example, an image of blood vessels near a tumor looks very different than an image of healthy blood
vessels; statistics alone cannot quantify this shape because it is the shape that matters. The focus of this proposal is to study the shape of data, through the development of new mathematics and algorithms, and build on existing data science techniques in order to obtain and interpret the shape of data. A theoretical field of mathematics that enables the study of shapes is topology. The ability to compute the shape (its topology) of complicated shapes is only possible with advanced mathematics and algorithms. The field known as topological data analysis (TDA), enables one to use topology to study the shape of data, such as loops in a blood vessel network. In particular, an algorithm within TDA known as persistent homology, provides a topological summary of the shape of the data (e.g., features such as holes) at multiple scales. A key success of persistent homology is the ability to provide robust results, even if the data are noisy. There are theoretical and computational challenges in the application of these algorithms to large scale, real-world data.
The aim of this project is to build on current persistent homology tools, extending it theoretically, computationally, and adapting it for practical applications. Our core team is composed of experts in pure and applied mathematicians, computer scientists, and statisticians whose combined expertise covers cutting edge pure mathematics, mathematical modeling, algorithm design and data analysis. This core team will work closely with our collaborators in a range of scientific and industrial domains. Some of the application challenges we have set out include:
Can we detect a tumor by looking at the shape of images of blood vessels? Can we design new materials by looking at the shape of molecules using topology? How can we design such molecules? Can we detect anomalies in security data? And importantly, how can we accelerate algorithms to obtain topological characteristics of data in real time?
vessels; statistics alone cannot quantify this shape because it is the shape that matters. The focus of this proposal is to study the shape of data, through the development of new mathematics and algorithms, and build on existing data science techniques in order to obtain and interpret the shape of data. A theoretical field of mathematics that enables the study of shapes is topology. The ability to compute the shape (its topology) of complicated shapes is only possible with advanced mathematics and algorithms. The field known as topological data analysis (TDA), enables one to use topology to study the shape of data, such as loops in a blood vessel network. In particular, an algorithm within TDA known as persistent homology, provides a topological summary of the shape of the data (e.g., features such as holes) at multiple scales. A key success of persistent homology is the ability to provide robust results, even if the data are noisy. There are theoretical and computational challenges in the application of these algorithms to large scale, real-world data.
The aim of this project is to build on current persistent homology tools, extending it theoretically, computationally, and adapting it for practical applications. Our core team is composed of experts in pure and applied mathematicians, computer scientists, and statisticians whose combined expertise covers cutting edge pure mathematics, mathematical modeling, algorithm design and data analysis. This core team will work closely with our collaborators in a range of scientific and industrial domains. Some of the application challenges we have set out include:
Can we detect a tumor by looking at the shape of images of blood vessels? Can we design new materials by looking at the shape of molecules using topology? How can we design such molecules? Can we detect anomalies in security data? And importantly, how can we accelerate algorithms to obtain topological characteristics of data in real time?
Planned Impact
IMPACT
The proposed centre involves a number of collaborators, providing some immediate pathways to impact. Each will provide access to appropriate data and will evaluate research and outcomes from the viewpoint of potential exploiters (potential users and investors) rather than only from mathematical and computing perspectives.
(1) GCHQ has pointed us towards relevant data sets within the public domain for security-research.
(2) BSMbench have supplied data sets appropriate to PH, from their own sector, including data previously used to benchmark other analytics methods.
(3) We have access to time series data sets; and are discussing interest in TDA with IFPEN.
We will arrange meetings with commercial data-analytics experts from a variety of commercial companies that have already expressed their need to understand the possibilities that TDA may hold. These include Tesco/Dunnhumby, Lloyds Bank, Morgan Stanley, GSK, HSBC, iProspect, Unilever, BT, and others.
We will work with one SME initially, delivering B2B services, while aiming to grow this further: Kognitio is a specialist in parallel processing.
To build upon the state-of-the-art in domain-specific data analysis techniques, we will also closely collaboration with the following academic end-users to maximise impact and translation of our research framework:
(4) High-resolution, spatio-temporal vascular image data, Dept of Oncology (Oxford)
(5) Databases of hypothetical nano-crystal structures from Materials Innovation Factory (Liverpool) and Laboratory of Molecular Simulations (EPFL)
(6) Data from Monte Carlo simulations of phases of matter, Dept of Physics (Swansea)
Through the co-creation of new theory that is implemented to provide scientific breakthroughs, such advances will impact the mathematical, computational, scientific, and corporate sectors.
The centre will host two large conferences for researchers and an international conference to propagate PH methods across UK HEIs. We will disseminate our research both in generalist journals as well as specialised journals so that the developed framework is widely disseminated. Our goal is to catalyse an active application-driven TDA community within the UK through annual meetings with presentation of progress and papers. We aim to build a strong UK community focussed on research and translation of next generation TDA concepts and technologies.
The proposed centre involves a number of collaborators, providing some immediate pathways to impact. Each will provide access to appropriate data and will evaluate research and outcomes from the viewpoint of potential exploiters (potential users and investors) rather than only from mathematical and computing perspectives.
(1) GCHQ has pointed us towards relevant data sets within the public domain for security-research.
(2) BSMbench have supplied data sets appropriate to PH, from their own sector, including data previously used to benchmark other analytics methods.
(3) We have access to time series data sets; and are discussing interest in TDA with IFPEN.
We will arrange meetings with commercial data-analytics experts from a variety of commercial companies that have already expressed their need to understand the possibilities that TDA may hold. These include Tesco/Dunnhumby, Lloyds Bank, Morgan Stanley, GSK, HSBC, iProspect, Unilever, BT, and others.
We will work with one SME initially, delivering B2B services, while aiming to grow this further: Kognitio is a specialist in parallel processing.
To build upon the state-of-the-art in domain-specific data analysis techniques, we will also closely collaboration with the following academic end-users to maximise impact and translation of our research framework:
(4) High-resolution, spatio-temporal vascular image data, Dept of Oncology (Oxford)
(5) Databases of hypothetical nano-crystal structures from Materials Innovation Factory (Liverpool) and Laboratory of Molecular Simulations (EPFL)
(6) Data from Monte Carlo simulations of phases of matter, Dept of Physics (Swansea)
Through the co-creation of new theory that is implemented to provide scientific breakthroughs, such advances will impact the mathematical, computational, scientific, and corporate sectors.
The centre will host two large conferences for researchers and an international conference to propagate PH methods across UK HEIs. We will disseminate our research both in generalist journals as well as specialised journals so that the developed framework is widely disseminated. Our goal is to catalyse an active application-driven TDA community within the UK through annual meetings with presentation of progress and papers. We aim to build a strong UK community focussed on research and translation of next generation TDA concepts and technologies.
Organisations
- University of Oxford (Lead Research Organisation)
- IBM (Collaboration)
- UNIVERSITY OF READING (Collaboration)
- National Institute for Nuclear Physics (Collaboration)
- The National Institute for Research in Computer Science and Control (INRIA) (Collaboration)
- Technical University of Munich (Collaboration)
- University of York (Collaboration)
- Baylor College of Medicine (Collaboration)
- Norwegian University of Science and Technology (NTNU) (Collaboration)
- UNIVERSITY OF STRATHCLYDE (Collaboration)
- Massachusetts Institute of Technology (Collaboration)
- University of California, Berkeley (Collaboration)
- DURHAM UNIVERSITY (Collaboration)
- University of Bath (Collaboration)
- ANEURIN BEVAN UNIVERSITY HEALTH BOARD (Collaboration)
- University of Bremen (Collaboration)
- University of Ibadan (Collaboration)
- UNIVERSITY OF SOUTHAMPTON (Collaboration)
- Technion - Israel Institute of Technology (Collaboration)
- Cardinal Stefan Wyszynski University in Warsaw (Collaboration)
- Jagiellonian University (Collaboration)
- Technical University Berlin (Collaboration)
- HARVARD UNIVERSITY (Collaboration)
- University of Florida (Collaboration)
- University of Notre Dame (Collaboration)
- Santa Clara University (Collaboration)
- American University of Sharjah (Collaboration)
- Australian National University (ANU) (Collaboration)
- Argentinean National Agency for Science and Technology (Collaboration)
- Tech Against Terrorism (Collaboration)
- QUEEN'S UNIVERSITY BELFAST (Collaboration)
- UNIVERSITY OF CAMBRIDGE (Collaboration)
- UNIVERSITY OF EXETER (Collaboration)
- UNIVERSITY OF OXFORD (Collaboration)
- George Mason University (Collaboration)
- Alan Turing Institute (Collaboration)
- Google (Collaboration)
- Leloir Institute (Collaboration)
- Chinese Academy of Sciences (Collaboration)
- University of Melbourne (Collaboration)
- North Carolina State University (Collaboration)
- S&P Global (Collaboration)
- Southern Methodist University (Collaboration)
- Yale University (Collaboration)
- SWANSEA UNIVERSITY (Collaboration)
- University of Massachusetts Amherst (Collaboration)
- University of Cadiz (Collaboration)
- UNIVERSITY OF BRITISH COLUMBIA (Collaboration)
- St. Pölten University of Applied Sciences (Collaboration)
- Texas A&M University (Collaboration)
- University of Glasgow (Collaboration)
- University of Udine (Collaboration)
- University of Castile-La Mancha (Collaboration)
- NTNU University Museum (Collaboration)
- University of Michigan (Collaboration)
- University at Buffalo (Collaboration)
- University of Padova (Collaboration)
- European Organization for Nuclear Research (CERN) (Collaboration)
- University of Maryland, College Park (Collaboration)
- AstraZeneca (Collaboration)
- QUEEN MARY UNIVERSITY OF LONDON (Collaboration)
- UNIVERSITY OF EDINBURGH (Collaboration)
- Yeshiva University (Collaboration)
- Max Planck Society (Collaboration)
- Ohio State University (Collaboration)
- Rutgers, The State University of New Jersey (Collaboration)
- Roche Pharmaceuticals (Collaboration)
- Cambridge Crystallographic Data Centre (Collaboration)
- GlaxoSmithKline (GSK) (Collaboration)
- Gdansk University of Technology (Collaboration)
- University of Arizona (Collaboration)
- University of Buenos Aires (Collaboration)
- Spotify (Collaboration)
- University of Trento (Collaboration)
- University of California, Los Angeles (UCLA) (Collaboration)
- Bentley University (Collaboration)
- Ludwig Institute for Cancer Research (Collaboration)
- IMPERIAL COLLEGE LONDON (Collaboration)
- University of Malaysia, Terengganu (Collaboration)
- Princeton University (Collaboration)
- University of Delaware (Collaboration)
- Swiss Federal Institute of Technology in Lausanne (EPFL) (Collaboration)
- University of Hawai'i at Manoa (Collaboration)
- BANGOR UNIVERSITY (Collaboration)
- Colorado State University (Collaboration)
- Cornell University (Collaboration)
- Clemson University (Collaboration)
Publications
Adamson D
(2022)
On the Hardness of Energy Minimisation for Crystal Structure Prediction*
in Fundamenta Informaticae
Alexandros Dimitrios Keros
(2021)
Dist2Cycle: A Simplicial Neural Network for Homology Localization
in arxiv
Ali D
(2023)
A Survey of Vectorization Methods in Topological Data Analysis
in IEEE Transactions on Pattern Analysis and Machine Intelligence
Anastasiou A
(2023)
Stein's Method Meets Computational Statistics: A Review of Some Recent Developments
in Statistical Science
Anastasiou A
(2020)
Bounds for the asymptotic distribution of the likelihood ratio
in The Annals of Applied Probability
Anna Seigal
(2021)
Principal Components along Quiver Representations
in arxiv
Anosova O
(2022)
Algorithms for continuous metrics on periodic crystals
in arxiv
| Description | Persistent homology is a popular tool in topological data analysis (TDA) that allows one to identify and quantify geometrical features in (high dimensional) data. These features are related to connected components, holes and cavities. We extend the theoretical aspects of TDA and build new algorithms beyond the standard persistent homology (PH) to tackle concrete data science questions arising from applications. Thus far, there are nearly 300 research manuscripts. 1. Theoretical advances - mathematical theorems for data on manifolds/non-manifolds, - development of three new invariants for multi-parameter persistent homology - random topology of manifolds in presence of boundary - asymptotic bounds for the vanishing and non-vanishing regions of the first Betti number of the path homology of random directed graphs - development of a new stable invariant from path homology for graphs - smoothness and persistence map for application in machine learning. Specifically, proved that persistent homology has a derivative almost everywhere, - proposed a new isometry invariant that is faithful (almost always) and stable, refining persistent homology - analysed information loss for persistent homology - considered the space of barcodes and found 'matching' for maps between barcodes that are not nested 2. Algorithms and software - compute barcode bases of persistence modules, - bridge between TDA and other techniques in algebraic topology (sparse oracle linear algebra in rust (SOLAR) and exhact homological algebra for computational topology (exhact) - topological approach to distinguish and compare posterior distributions, - topological methods to study knots and open knots, - algorithmic reconstruction of the fiber of persistent homology on cell complexes - software for multi-parameter persistence landscapes - software to compute HN-filtration invariants for multi parameter persistent homology 3. Applications and comparing datasets - protein-protein interactions, - commercial data, - biological spatial networks (vascular), - multi-cellular organisation (eg different immune cell patterns) - folding and structure of knotted proteins - topological phase transitions in statistical physics at different parameter values (eg critical temperature and exponents), - neurons by studying topology of the dynamics of Grid cells, - neurons by studying the 3D tree structure, - modelling proteins and periodic structures of solid crystalline materials using geometric data science (complete and continuous classifications up to isometry and other geometric similarities for any finite sets). |
| Exploitation Route | Other mathematicians may use the connections we've made between topological data analysis and other areas of mathematics ranging from mathematical models, dynamical systems, machine learning, differential geometry, Morse theory, sheaf theory and homotopy theory. We demonstrate that computations are possible for larger and more complicated data. These outcomes have opened the possibilities to other application areas (eg tumour vasculature, urban social structures, biological (proteome) network structures, statistical physics and chemical/material structures). The release of well documented code in openly available repositories has led to researchers outside the Centre for TDA to their use for protein structure analysis, vascular network quantification, and tumour/immune heterogeneity. Other potential areas include neuroscience, crystal structure prediction, protein structure prediction, spatio-temporal parameter inference, directed graph hypothesis testing, and superconducting materials. Researchers in industry and academia that are generating high-throughput spatial, temporal and genomic data are interested in TDA, which has a broad range of applications, including cancer research, immunology and developmental biology. We have released material to increase the accessibility of TDA: - TDA minicourse for non-mathematicians: https://youtu.be/QCyhs9aX-PQ - Review what are higher order networks? https://arxiv.org/abs/2104.11329 - Lecture notes of Computational Algebraic Topology: https://people.maths.ox.ac.uk/nanda/cat/TDANotes.pdf - Discrete Morse theory 2.0: https://www.youtube.com/watch?v=mZ2FIyg7NJ4 - Intrinsic persistent homology: https://www.youtube.com/watch?v=1lP9ndiM60o and much more. |
| Sectors | Chemicals Environment Healthcare Manufacturing including Industrial Biotechology Pharmaceuticals and Medical Biotechnology Retail Security and Diplomacy Transport |
| URL | https://www.maths.ox.ac.uk/groups/topological-data-analysis |
| Description | The non-academic impacts are wide ranging from theoretical foundations of the methodology and algorithms to applications in other sectors. The tutorials, TDA mini-course for industry and non-mathematicians, and lectures to companies' research groups has resulted in interest from clinical, pharmaceutical, and the wider B2C sector. There are concrete applications to the world's largest crystal structural database, where the geometric data analysis methods have detected five pairs of suspicious entries and now under investigation. Topological data analysis was one of the data integration methods used in the analysis of a COVID-19 patient dataset to predict disease severity. TDA has also been investigated improve clinical detection and prognosis in cancer and neuroscience. We have received follow-on grants from technology companies and pharmaceuticals, both interested in applications of TDA to biomedical problems. |
| First Year Of Impact | 2021 |
| Sector | Chemicals,Healthcare,Manufacturing, including Industrial Biotechology,Pharmaceuticals and Medical Biotechnology,Retail |
| Impact Types | Societal |
| Description | DSTL Topological Analysis of Maritime Data |
| Amount | £250,000 (GBP) |
| Organisation | Alan Turing Institute |
| Sector | Academic/University |
| Country | United Kingdom |
| Start | 03/2020 |
| End | 03/2020 |
| Description | Network Stochastic Processes and Time Series (NeST) |
| Amount | £6,451,752 (GBP) |
| Funding ID | EP/X002195/1 |
| Organisation | Engineering and Physical Sciences Research Council (EPSRC) |
| Sector | Public |
| Country | United Kingdom |
| Start | 01/2023 |
| End | 12/2028 |
| Description | PhD studentship "A rigorous identification of all metastable polymorphs for better and safer drugs" supervised by Dr Vitaliy Kurlin |
| Amount | £34,000 (GBP) |
| Organisation | Cambridge Crystallographic Data Centre |
| Sector | Academic/University |
| Country | United Kingdom |
| Start | 09/2020 |
| End | 09/2023 |
| Description | PhD studentship "Data Driven Discovery of Functional Molecular Co-crystals" of Katerina Vriza co-supervised by Dr Vitaliy Kurlin |
| Amount | £30,000 (GBP) |
| Organisation | Cambridge Crystallographic Data Centre |
| Sector | Academic/University |
| Country | United Kingdom |
| Start | 09/2018 |
| End | 09/2021 |
| Description | Royal Society International Exchanges with Prof Edelsbrunner |
| Amount | £12,000 (GBP) |
| Funding ID | IES/R2/170039 |
| Organisation | The Royal Society |
| Sector | Charity/Non Profit |
| Country | United Kingdom |
| Start | 12/2017 |
| End | 12/2019 |
| Description | TOPMAP Platform for predicting biomarkers for patient stratification |
| Amount | $200,000 (USD) |
| Organisation | Emerson Collective |
| Sector | Private |
| Country | United States |
| Start | 12/2019 |
| End | 12/2021 |
| Title | Ball Mapper, tool for topological data analysis |
| Description | A tool for multi dimension data visualization |
| Type Of Material | Improvements to research infrastructure |
| Year Produced | 2019 |
| Provided To Others? | Yes |
| Impact | Too soon to tell. |
| URL | https://cran.r-project.org/web/packages/BallMapper/index.html |
| Title | Detecting interfaces/geometric anomalies in data (Heather Harrington, Vidit Nanda, Bernadette Stolz) |
| Description | Persistent co-homology detects annomalies in data, for example, intersections of two shapes |
| Type Of Material | Improvements to research infrastructure |
| Year Produced | 2019 |
| Provided To Others? | Yes |
| Impact | We were able to detect annomalies in 24 dimensional dataset of cyclo-octane |
| URL | https://arxiv.org/abs/1908.09397 |
| Title | Knoto-EMD, tool for comparing entanglement of open curves |
| Description | A statistical distance to compare entanglement of open curves |
| Type Of Material | Improvements to research infrastructure |
| Year Produced | 2021 |
| Provided To Others? | Yes |
| Impact | We were able to obstruct folding pathways for a family of trefoil proteins |
| URL | https://www.mdpi.com/2073-8994/13/9/1670 |
| Title | CCDC 2014576: Experimental Crystal Structure Determination |
| Description | Related Article: Aikaterini Vriza, Angelos B. Canaj, Rebecca Vismara, Laurence J. Kershaw Cook, Troy D. Manning, Michael W. Gaultois, Peter A. Wood, Vitaliy Kurlin, Neil Berry, Matthew S. Dyer, Matthew J. Rosseinsky|2021|Chemical Science|12|1702|doi:10.1039/D0SC04263C |
| Type Of Material | Database/Collection of data |
| Year Produced | 2020 |
| Provided To Others? | Yes |
| URL | http://www.ccdc.cam.ac.uk/services/structure_request?id=doi:10.5517/ccdc.csd.cc25mbbh&sid=DataCite |
| Title | CCDC 2014577: Experimental Crystal Structure Determination |
| Description | Related Article: Aikaterini Vriza, Angelos B. Canaj, Rebecca Vismara, Laurence J. Kershaw Cook, Troy D. Manning, Michael W. Gaultois, Peter A. Wood, Vitaliy Kurlin, Neil Berry, Matthew S. Dyer, Matthew J. Rosseinsky|2021|Chemical Science|12|1702|doi:10.1039/D0SC04263C |
| Type Of Material | Database/Collection of data |
| Year Produced | 2020 |
| Provided To Others? | Yes |
| URL | http://www.ccdc.cam.ac.uk/services/structure_request?id=doi:10.5517/ccdc.csd.cc25mbcj&sid=DataCite |
| Title | CCDC 2157172: Experimental Crystal Structure Determination |
| Description | Related Article: Qiang Zhu, Jay Johal, Daniel E. Widdowson, Zhongfu Pang, Boyu Li, Christopher M. Kane, Vitaliy Kurlin, Graeme M. Day, Marc A. Little, Andrew I. Cooper|2022|J.Am.Chem.Soc.|144|9893|doi:10.1021/jacs.2c02653 |
| Type Of Material | Database/Collection of data |
| Year Produced | 2022 |
| Provided To Others? | Yes |
| URL | http://www.ccdc.cam.ac.uk/services/structure_request?id=doi:10.5517/ccdc.csd.cc2bdq6p&sid=DataCite |
| Title | CCDC 2157173: Experimental Crystal Structure Determination |
| Description | Related Article: Qiang Zhu, Jay Johal, Daniel E. Widdowson, Zhongfu Pang, Boyu Li, Christopher M. Kane, Vitaliy Kurlin, Graeme M. Day, Marc A. Little, Andrew I. Cooper|2022|J.Am.Chem.Soc.|144|9893|doi:10.1021/jacs.2c02653 |
| Type Of Material | Database/Collection of data |
| Year Produced | 2022 |
| Provided To Others? | Yes |
| URL | http://www.ccdc.cam.ac.uk/services/structure_request?id=doi:10.5517/ccdc.csd.cc2bdq7q&sid=DataCite |
| Title | GrPPHATI |
| Description | Library for the implementation of grounded pipelines for weighted digraphs. |
| Type Of Material | Computer model/algorithm |
| Year Produced | 2023 |
| Provided To Others? | Yes |
| Impact | Experimental verification of proved theorems + simplification of known counter-examples. |
| URL | https://github.com/tomchaplin/grpphati |
| Title | Lie algebra constructor |
| Description | Computational methods and algorithms for classification of Lie algebras |
| Type Of Material | Computer model/algorithm |
| Year Produced | 2022 |
| Provided To Others? | Yes |
| Impact | Used to solve a conjecture that was open for 35 years. |
| URL | https://github.com/winsy17/Sympathetic_Lie_Algebras |
| Title | Multiscale Laplacian Score |
| Description | Algorithm and Software for testing consistent expression of genes in scRNA data. |
| Type Of Material | Computer model/algorithm |
| Year Produced | 2022 |
| Provided To Others? | Yes |
| Impact | Identified a number of genes on benchmark data sets that are known to be involved in the promotion of cancers. |
| URL | https://github.com/osumray/multiscale-signal-selection-single-cell |
| Title | OxCOVID19 Database |
| Description | A large, single-centre, multimodal relational database consisting of information related to COVID-19. It facilitates the global analysis of the spread of SARS-CoV-2 virus and to assess the effects of non-pharmaceutical interventions to reduce the impact of the pandemic |
| Type Of Material | Data handling & control |
| Year Produced | 2020 |
| Provided To Others? | Yes |
| Impact | N/A |
| URL | https://covid19.eng.ox.ac.uk/ |
| Title | Probing center vortices and deconfinement in SU(2) lattice gauge theory with persistent homology - data release |
| Description | This release contains all data used to prepare the publication Probing center vortices and deconfinement in SU(2) lattice gauge theory with persistent homology. Included are: The raw log output from the simulations and computed persistence images for the analysis in Section IV.B of the paper in 'raw_data.zip'. The values of the action and Polyakov loop from the above logs, along with the persistence images restructured into netCDF4 format for convenience, in the files 'Nt=*_Ns=*_pis_actions_polyakovs.nc'. The values of the observable m_2 (as defined in the paper) for configurations for the twisted boundary conditions analysis in netCDF4 format in 'Nt=4_Ns=12_16_20_m2.nc'. The example persistence diagrams used in the paper in netCDF4 format in 'Nt=4_Ns=12_example_pds.nc'. |
| Type Of Material | Database/Collection of data |
| Year Produced | 2022 |
| Provided To Others? | Yes |
| URL | https://zenodo.org/record/7060073 |
| Title | Probing center vortices and deconfinement in SU(2) lattice gauge theory with persistent homology - data release |
| Description | This release contains all data used to prepare the publication Probing center vortices and deconfinement in SU(2) lattice gauge theory with persistent homology. Included are: The raw log output from the simulations and computed persistence images for the analysis in Section IV.B of the paper in 'raw_data.zip'. The values of the action and Polyakov loop from the above logs, along with the persistence images restructured into netCDF4 format for convenience, in the files 'Nt=*_Ns=*_pis_actions_polyakovs.nc'. The values of the observable m_2 (as defined in the paper) for configurations for the twisted boundary conditions analysis in netCDF4 format in 'Nt=4_Ns=12_16_20_m2.nc'. The example persistence diagrams used in the paper in netCDF4 format in 'Nt=4_Ns=12_example_pds.nc'. |
| Type Of Material | Database/Collection of data |
| Year Produced | 2022 |
| Provided To Others? | Yes |
| URL | https://zenodo.org/record/7060072 |
| Title | S-DBSCAN/S-HDBSCAN |
| Description | Algorithm for a geometric reconstruction of density based clusterings DBSCAN/HDBSCAN |
| Type Of Material | Computer model/algorithm |
| Year Produced | 2022 |
| Provided To Others? | Yes |
| Impact | Allows the clustering of massive datasets, two orders of magnitude larger than existing methods. |
| URL | https://arxiv.org/pdf/2203.08020.pdf |
| Title | TopACT |
| Description | Algorithm and implementation for automatic cell type identification from subcellular spatial transcriptomics. |
| Type Of Material | Computer model/algorithm |
| Year Produced | 2022 |
| Provided To Others? | Yes |
| Impact | State of the art accuracy in problem class |
| URL | https://gitlab.com/kfbenjamin/topact/ |
| Description | Accelerated Crystal Structure Prediction |
| Organisation | Cambridge Crystallographic Data Centre |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Vitaliy Kurlin and his team at the University of Liverpool develops a continuous approach to a similarity of crystals, which were studied in the past only by discrete invariants such as symmetry groups |
| Collaborator Contribution | Cambridge Crystallographic Data Centre has contributed £64K to 2 PhD projects supervised by Vitaliy Kurlin at the University of Liverpool, and provides advice on the state-of-the-art in Crystal Structure Prediction and access to the Cambridge Structural Database. |
| Impact | Two PhD scholarships |
| Start Year | 2019 |
| Description | Agnese Barbensi - Dimos Goundaroulis |
| Organisation | Baylor College of Medicine |
| Country | United States |
| Sector | Hospitals |
| PI Contribution | We're looking at simplification pathways on the graph associated to the knotoid spectrum of a knotted protein. |
| Collaborator Contribution | DG provides software and collaborates with mathematical ideas |
| Impact | Publication |
| Start Year | 2019 |
| Description | Agnese Barbensi - Luca Tubiana |
| Organisation | University of Trento |
| Country | Italy |
| Sector | Academic/University |
| PI Contribution | Topological methods for open polymers |
| Collaborator Contribution | Topological methods for open polymers |
| Impact | Non as yet |
| Start Year | 2021 |
| Description | Agnese Barbensi - Oliver VIpond, Barbara Mahler, Naya Yeroleou, Dimos Goundaroulis, Pawel Dabrowsli |
| Organisation | Baylor College of Medicine |
| Country | United States |
| Sector | Hospitals |
| PI Contribution | Knotoids and proteins folding |
| Collaborator Contribution | Expertise |
| Impact | None as yet |
| Start Year | 2020 |
| Description | Agnese Barbensi - Oliver VIpond, Barbara Mahler, Naya Yeroleou, Dimos Goundaroulis, Pawel Dabrowsli |
| Organisation | Cardinal Stefan Wyszynski University in Warsaw |
| Country | Poland |
| Sector | Academic/University |
| PI Contribution | Knotoids and proteins folding |
| Collaborator Contribution | Expertise |
| Impact | None as yet |
| Start Year | 2020 |
| Description | Agnese Barbensi, Heather Harrington, Christian Madsen |
| Organisation | University of Melbourne |
| Country | Australia |
| Sector | Academic/University |
| PI Contribution | TDA for PL curves |
| Collaborator Contribution | Expertise in this area |
| Impact | Non as yet |
| Start Year | 2022 |
| Description | Agnese Barbensi, Heather Harrington, Deborah Olayide Ajayi |
| Organisation | University of Ibadan |
| Country | Nigeria |
| Sector | Academic/University |
| PI Contribution | TDA for PL curves |
| Collaborator Contribution | Expertise |
| Impact | Non as Yet |
| Start Year | 2022 |
| Description | Agnese Barbensi, Heather Harrington, Michael Stumpf |
| Organisation | University of Melbourne |
| Country | Australia |
| Sector | Academic/University |
| PI Contribution | TDA for PL curves |
| Collaborator Contribution | Expertise |
| Impact | Non as yet |
| Start Year | 2022 |
| Description | Agnese Barbensi, Naya Yerolemou, Dimos Goundaroulis |
| Organisation | Baylor College of Medicine |
| Country | United States |
| Sector | Hospitals |
| PI Contribution | Knotoids and open curves |
| Collaborator Contribution | Knotoids and open curves |
| Impact | Paper: A Topological Selection of Folding Pathways from Native States of Knotted Proteins |
| Start Year | 2020 |
| Description | Agnese Barbensi, Naya Yerolemou, Pawel Dabrowsky-Tumanski |
| Organisation | Cardinal Stefan Wyszynski University in Warsaw |
| Country | Poland |
| Sector | Academic/University |
| PI Contribution | Knotoids and open curves |
| Collaborator Contribution | Knotoids and open curves |
| Impact | Paper: A Topological Selection of Folding Pathways from Native States of Knotted Proteins |
| Start Year | 2020 |
| Description | Agnese Barbensi,Heather Harrington, Kate Benjamin, Christopher Prior, Arron Bale |
| Organisation | Durham University |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | TDA proteins |
| Collaborator Contribution | TDA proteins |
| Impact | Non as yet |
| Start Year | 2022 |
| Description | Agnese Barbensi,Heather Harrington, Katherine Benjamin, Iris Yoon |
| Organisation | University of Delaware |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | TDA proteins |
| Collaborator Contribution | TDA proteins |
| Impact | Iris Yoon will be joining the centre as a post-doc in April. |
| Start Year | 2022 |
| Description | Amit Pavel |
| Organisation | Colorado State University |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Vidit Nanda contributed Higher persistence and stability. |
| Collaborator Contribution | Amit Patel contributed bisheaves and local systems. |
| Impact | As listed |
| Start Year | 2019 |
| Description | Bernadette Stolz - Florian Lipsmeier, and Franziska Mech |
| Organisation | Roche Pharmaceuticals |
| Country | Global |
| Sector | Private |
| PI Contribution | I extracted a data set from Roche from segmented images using machine learning software, analysed the data using TDA and a radial filtration and performed statistical analyses of the results. |
| Collaborator Contribution | Roche funded part of my DPhil and provided a data set as well as feedback on my work. |
| Impact | As listed. |
| Start Year | 2014 |
| Description | Bernadette Stolz-Pretzer - Emma L Brown, Thierry L Lefebvre, Paul W Sweeney, Janek Gröhl, Lina Hacker, Ziqiang Huang, Heather Harrington, Helen Byrne, |
| Organisation | University of Cambridge |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Expertise in TDA for vascular networks |
| Collaborator Contribution | Expertise in photoacoustic imaging of vascular networks |
| Impact | Resulted in multi-disciplinary publication (mathematics, biology/medicine) |
| Start Year | 2020 |
| Description | Bernadette Stolz-Pretzer - Jesus Bosque Martinez |
| Organisation | University of Castile-La Mancha |
| Country | Spain |
| Sector | Academic/University |
| PI Contribution | Design of methods from TDA for histology data |
| Collaborator Contribution | Application of TDA to histology data |
| Impact | None as yet |
| Start Year | 2021 |
| Description | Bernadette Stolz-Pretzer - Omer Bobrowski |
| Organisation | Queen Mary University of London |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | PH Landmarks |
| Collaborator Contribution | Cycle registration |
| Impact | None as yet |
| Start Year | 2021 |
| Description | Bernadette Stolz-Pretzer - SImon Needham |
| Organisation | University of Oxford |
| Department | Nuffield Department of Medicine |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Design of methods from TDA for multiplex imaging data |
| Collaborator Contribution | Application of TDA to multiplex imaging data |
| Impact | Non as yet |
| Start Year | 2022 |
| Description | Bernadette Stolz-Pretzer - Salvador Chulian, Victor M Perez-Garcia, Helen Byrne |
| Organisation | University of Cadiz |
| Country | Spain |
| Sector | Academic/University |
| PI Contribution | Design of methods from TDA for leukaemia data |
| Collaborator Contribution | Application of TDA to leukaemia data |
| Impact | Resulted in multi-disciplinary publication (mathematics, biology/medicine) |
| Start Year | 2020 |
| Description | Bernadette Stolz-Pretzer - Salvador Chulian, Victor M Perez-Garcia, Helen Byrne |
| Organisation | University of Castile-La Mancha |
| Country | Spain |
| Sector | Academic/University |
| PI Contribution | Design of methods from TDA for leukaemia data |
| Collaborator Contribution | Application of TDA to leukaemia data |
| Impact | Resulted in multi-disciplinary publication (mathematics, biology/medicine) |
| Start Year | 2020 |
| Description | Biagio Lucini, Davide Vadacchino |
| Organisation | National Institute for Nuclear Physics |
| Department | National Institute for Nuclear Physics - Torino |
| Country | Italy |
| Sector | Academic/University |
| PI Contribution | Pawel Dlotko, Tak-Shing Chan are investigating the use of cubical complexes for statistical physics |
| Collaborator Contribution | BL and DV will be providing their statistical physics expertise including sharing their implementations, data and analysis |
| Impact | As listed |
| Start Year | 2019 |
| Description | Emilie Dufresne |
| Organisation | University of York |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Lewis Marsh conducted a several model reductions and rigorously compared them, designed and implemented a Bayesian inference on this data |
| Collaborator Contribution | Emilie Dufresne studied the identifiability of the model and its reductions |
| Impact | As listed |
| Start Year | 2019 |
| Description | Florian Lipsmeier, Franziska Mech, Bernadette Stolz-Pretzer |
| Organisation | Roche Pharmaceuticals |
| Country | Global |
| Sector | Private |
| PI Contribution | Expertise in TDA of MRI data |
| Collaborator Contribution | Expertise of Florian Lipsmeier and Franziska Mech of Roche |
| Impact | A paper published in May 2021 Topological data analysis of task-based fMRI data from experiments on schizophrenia |
| Start Year | 2019 |
| Description | Heather Harrington - Anna Seigal |
| Organisation | Harvard University |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Expert/Intellectual input |
| Collaborator Contribution | Expert/Intellectual input |
| Impact | Hooke Research Fellowship, 2019 |
| Start Year | 2019 |
| Description | Heather Harrington - Christian Bick |
| Organisation | University of Exeter |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Expert/Intellectual input |
| Collaborator Contribution | Expert/Intellectual input |
| Impact | As listed. |
| Start Year | 2019 |
| Description | Heather Harrington - Dane Taylor |
| Organisation | University at Buffalo |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Expert/Intellectual input |
| Collaborator Contribution | Expert/Intellectual input |
| Impact | As listed. |
| Start Year | 2018 |
| Description | Heather Harrington - Dimitra Kosta |
| Organisation | University of Glasgow |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Expert/Intellectual input |
| Collaborator Contribution | Expert/Intellectual input |
| Impact | As listed. |
| Start Year | 2018 |
| Description | Heather Harrington - Emilie Dufresne |
| Organisation | University of York |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Expert/Intellectual input |
| Collaborator Contribution | Expert/Intellectual input |
| Impact | London Mathematical Society Seminar |
| Start Year | 2018 |
| Description | Heather Harrington - Fabian Ruehle |
| Organisation | European Organization for Nuclear Research (CERN) |
| Department | Theoretical Physics Unit |
| Country | Switzerland |
| Sector | Academic/University |
| PI Contribution | Expert/Intellectual input |
| Collaborator Contribution | Expert/Intellectual input |
| Impact | As listed. |
| Start Year | 2019 |
| Description | Heather Harrington - Kathryn Hess/Wojciech Reise |
| Organisation | Swiss Federal Institute of Technology in Lausanne (EPFL) |
| Country | Switzerland |
| Sector | Public |
| PI Contribution | Expert/Intellectual input |
| Collaborator Contribution | Expert/Intellectual input |
| Impact | Wojciech Reise research trip in collaboration with Spotify at Oxford Mathematics. |
| Start Year | 2019 |
| Description | Heather Harrington - Lior Horesh |
| Organisation | IBM |
| Department | IBM T. J. Watson Research Center, Yorktown Heights |
| Country | United States |
| Sector | Private |
| PI Contribution | Expert/Intellectual input |
| Collaborator Contribution | Expert/Intellectual input |
| Impact | As listed. |
| Start Year | 2019 |
| Description | Heather Harrington - Maria Bruna |
| Organisation | University of Cambridge |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Expert/Intellectual input |
| Collaborator Contribution | Expert/Intellectual input |
| Impact | As listed. |
| Start Year | 2018 |
| Description | Heather Harrington - Mariano Beguerisse |
| Organisation | Spotify |
| Country | Sweden |
| Sector | Private |
| PI Contribution | Expert/Intellectual input |
| Collaborator Contribution | Expert/Intellectual input |
| Impact | As listed |
| Start Year | 2018 |
| Description | Heather Harrington - Matthew Macauley |
| Organisation | Clemson University |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Expertise/Intellectual input |
| Collaborator Contribution | Expertise/Intellectual input |
| Impact | As listed |
| Start Year | 2019 |
| Description | Heather Harrington - Michael Schaub |
| Organisation | Massachusetts Institute of Technology |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Expert/Intellectual input |
| Collaborator Contribution | Expert/Intellectual input |
| Impact | As listed |
| Start Year | 2019 |
| Description | Heather Harrington - Michael Schaub |
| Organisation | University of Oxford |
| Department | Department of Engineering Science |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Expert/Intellectual input |
| Collaborator Contribution | Expert/Intellectual input |
| Impact | As listed |
| Start Year | 2019 |
| Description | Heather Harrington - Nicolette Meshkat |
| Organisation | Santa Clara University |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Expertise/Intellectual input |
| Collaborator Contribution | Expertise/Intellectual input |
| Impact | The following publications: 1) Joining and decomposing reaction networks 2020, 2) Identifiability and numerical algebraic geometry, Dec 2019, 3) A Parameter-Free Model Comparison Test Using Differential Algebra Feb 2019 |
| Start Year | 2016 |
| Description | Heather Harrington - Nina Otter |
| Organisation | University of California, Los Angeles (UCLA) |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Expert/Intellectual input |
| Collaborator Contribution | Expert/Intellectual input |
| Impact | As listed. |
| Start Year | 2018 |
| Description | Heather Harrington - Peter Bubenik |
| Organisation | University of Florida |
| Department | College of Liberal Arts and Sciences |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Expert/intellectual input |
| Collaborator Contribution | Expert/intellectual input |
| Impact | As listed. |
| Start Year | 2019 |
| Description | Heather Harrington - Priya Subramanian |
| Organisation | University of Oxford |
| Department | Mathematical Institute Oxford |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Expert/Intellectual input |
| Collaborator Contribution | Expert/Intellectual input |
| Impact | As listed. |
| Start Year | 2019 |
| Description | Heather Harrington - Prof. Andreas Münch |
| Organisation | University of Oxford |
| Department | Mathematical Institute Oxford |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Expert/Intellectual input |
| Collaborator Contribution | Expert/Intellectual input |
| Impact | As listed. |
| Start Year | 2019 |
| Description | Heather Harrington - Professor Anne J Shiu |
| Organisation | Texas A&M University |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Expertise/Intellectual input |
| Collaborator Contribution | Expertise/Intellectual input |
| Impact | The following publications: 1) Joining and decomposing reaction networks,2020. 2) Linear compartmental models: input-output equations and operations that preserve identifiability, (2019). 3) |
| Start Year | 2016 |
| Description | Heather Harrington - Professor Antonis Papachristodoulou |
| Organisation | University of Oxford |
| Department | Department of Engineering Science |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Expert/intellectual input |
| Collaborator Contribution | Expert/intellectual input |
| Impact | As listed. |
| Start Year | 2019 |
| Description | Heather Harrington - Professor Balazs Szendroi |
| Organisation | University of Oxford |
| Department | Mathematical Institute Oxford |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Expertise/Intellectual input |
| Collaborator Contribution | Expterise/Intellectual input |
| Impact | EPSRC Grant EP/T001968/1 Capacity building in Africa via technology-driven research in algebraic and arithmetic geometry. |
| Start Year | 2019 |
| Description | Heather Harrington - Professor Bernd Sturmfels |
| Organisation | Max Planck Society |
| Department | Max Planck Society Leipzig |
| Country | Germany |
| Sector | Academic/University |
| PI Contribution | Expert/Intellectual input |
| Collaborator Contribution | Expert/Intellectual input |
| Impact | As listed. |
| Start Year | 2018 |
| Description | Heather Harrington - Professor Elizabeth Gross |
| Organisation | University of Hawai'i at Manoa |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Expertise/Intellectual input |
| Collaborator Contribution | Expertise/Intellectual input |
| Impact | The following publications: 1) Joining and decomposing reaction networks, with Heather Harrington, Nicolette Meshkat, and Anne Shiu, 2) Linear compartmental models: input-output equations and operations that preserve identifiability, with Heather Harrington, Nicolette Meshkat, and Anne Shiu, SIAM Journal on Applied Mathematics. |
| Start Year | 2016 |
| Description | Heather Harrington - Professor Jared Tanner |
| Organisation | University of Oxford |
| Department | Mathematical Institute Oxford |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Expert/Intellectual input |
| Collaborator Contribution | Expert/Intellectual input |
| Impact | As listed. |
| Start Year | 2018 |
| Description | Heather Harrington - Professor Joe Howard |
| Organisation | Yale University |
| Department | Howard Lab |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Expertise/Intellectual input |
| Collaborator Contribution | Expertise/Intellectual input |
| Impact | The Howard Lab is a highly interdisciplinary group of biologists, physicists, chemists and engineers, combining optical, mechanical and biochemical experiments with theory and computation. |
| Start Year | 2018 |
| Description | Heather Harrington - Professor Jon Hauenstein |
| Organisation | University of Notre Dame |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Expertise/Intellectual input |
| Collaborator Contribution | Expertise/Intellectual input |
| Impact | As listed. |
| Start Year | 2018 |
| Description | Heather Harrington - Professor Konstantin Michaikow |
| Organisation | Rutgers University |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Expert/Intellectual input |
| Collaborator Contribution | Expert/Intellectual input |
| Impact | As listed. |
| Start Year | 2019 |
| Description | Heather Harrington - Professor Marc Lackenby |
| Organisation | University of Oxford |
| Department | Mathematical Institute Oxford |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Expert/Intellectual input |
| Collaborator Contribution | Marc Lackenby |
| Impact | As listed. |
| Start Year | 2019 |
| Description | Heather Harrington - Professor Martin Wuhr |
| Organisation | Princeton University |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Expert/Intellectual input |
| Collaborator Contribution | Expert/Intellectual input |
| Impact | As listed. |
| Start Year | 2019 |
| Description | Heather Harrington - Professor Mauricio Barahona |
| Organisation | Imperial College London |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Expertise / intellectual input |
| Collaborator Contribution | Expertise / intellectual input |
| Impact | As listed. |
| Start Year | 2018 |
| Description | Heather Harrington - Professor Michael E. Stillman |
| Organisation | Cornell University |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Expert/intellectual input |
| Collaborator Contribution | Expert/intellectual input |
| Impact | As listed |
| Start Year | 2019 |
| Description | Heather Harrington - Professor Panos Kevrekedis |
| Organisation | University of Massachusetts Amherst |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Expert/Intellectual input |
| Collaborator Contribution | Expert/Intellectual input |
| Impact | Professor Kevrekedis has spent a year in Oxford Mathematics to give a colloquium, a seminar and in collaboration on aspects of research |
| Start Year | 2019 |
| Description | Heather Harrington - Professor Sharad Ramanathan |
| Organisation | Harvard University |
| Department | Department of Stem Cell and Regenerative Biology |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Expert/Intellectual input |
| Collaborator Contribution | Expert/Intellectual input |
| Impact | As listed. |
| Start Year | 2019 |
| Description | Heather Harrington - Professor Shelby Wilson |
| Organisation | University of Maryland, College Park |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Expertise/Intellectual input |
| Collaborator Contribution | Expertise/Intellectual input |
| Impact | None as yet |
| Start Year | 2018 |
| Description | Heather Harrington - Professor Stanislav Shvartsman |
| Organisation | Princeton University |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | My expertise, and intellectual input. |
| Collaborator Contribution | Expertise, and intellectual input. |
| Impact | Publications as listed. |
| Start Year | 2018 |
| Description | Heather Harrington - Professor Stephen Taylor |
| Organisation | University of Oxford |
| Department | Weatherall Institute of Molecular Medicine (WIMM) |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Expertise/intellectual input |
| Collaborator Contribution | Expertise/intellectual input |
| Impact | Molecular biology, data science, data visualisation, computational biology. |
| Start Year | 2018 |
| Description | Heather Harrington - Rachel Neville |
| Organisation | University of Arizona |
| Department | Department of Mathematics |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Expert/Intellectual input |
| Collaborator Contribution | Expert/Intellectual input |
| Impact | As listed. |
| Start Year | 2019 |
| Description | Heather Harrington - Sarah Filippi |
| Organisation | Imperial College London |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Expertise/Intellectual input |
| Collaborator Contribution | Expertise/Intellectual input |
| Impact | As listed. |
| Start Year | 2019 |
| Description | Heather Harrington, Agnese Barbensi, Dorothy Buck |
| Organisation | University of Bath |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Applications of Knot theory |
| Collaborator Contribution | Dorothy Buck is Co-Director of the Centre for Mathematical Biology at the University of Bath, with her specialisation in forms of proteins in DNA. |
| Impact | An initial publication and ongoing discussions. |
| Start Year | 2018 |
| Description | Heather Harrington, Helen Byrne - Xin Liu |
| Organisation | Chinese Academy of Sciences |
| Department | State Key Laboratory of Scientific and Engineering Computing (LSEC) |
| Country | China |
| Sector | Academic/University |
| PI Contribution | Expert/Intellectual input |
| Collaborator Contribution | Expert/Intellectual input |
| Impact | As listed. |
| Start Year | 2019 |
| Description | Heather Harrington, Helen Byrne, Bernadette Stolz-Pretzer - Professor Ruth Muschel |
| Organisation | University of Oxford |
| Department | CRUK/MRC Oxford Institute for Radiation Oncology |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Expert/Intellectual input |
| Collaborator Contribution | Expert/Intellectual input |
| Impact | As listed. |
| Start Year | 2019 |
| Description | Heather Harrington, Helen Byrne, Oliver Vipond - Chris Pugh |
| Organisation | University of Oxford |
| Department | Nuffield Department of Medicine |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Expert/Intellectual input |
| Collaborator Contribution | Expert/Intellectual input |
| Impact | As listed |
| Start Year | 2019 |
| Description | Heather Harrington, Helen Byrne, Oliver Vipond - Joshua Adam Bull |
| Organisation | University of Oxford |
| Department | Mathematical Institute Oxford |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Expert/Intellectual input |
| Collaborator Contribution | Expert/Intellectual input |
| Impact | As listed |
| Start Year | 2019 |
| Description | Heather Harrington, Helen Byrne, Oliver Vipond - Philip Macklin |
| Organisation | University of Oxford |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Expert/Intellectual input |
| Collaborator Contribution | Expert/Intellectual input |
| Impact | As listed. |
| Start Year | 2019 |
| Description | Heather Harrington, Helen Byrne, Renee Hoekzema, Otto Sumray, Lewis Marsh - Xin Lu |
| Organisation | Ludwig Institute for Cancer Research |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Single cell modelling |
| Collaborator Contribution | Single cell modelling |
| Impact | a grant award from Emerson |
| Start Year | 2021 |
| Description | Heather Harrington, Kelly Spendlove - Professor Doyne Farmer |
| Organisation | University of Oxford |
| Department | Oxford Martin School |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Expert/Intellectual input |
| Collaborator Contribution | Expert/Intellectual input |
| Impact | As listed. |
| Start Year | 2020 |
| Description | Heather Harrinton - Richard Tanburn |
| Organisation | |
| Country | United States |
| Sector | Private |
| PI Contribution | Expert/intellectual input |
| Collaborator Contribution | Expert/intellectual input |
| Impact | As listed. |
| Start Year | 2019 |
| Description | Heather harrington - Rosanna Neuhausler |
| Organisation | University of California, Berkeley |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Expert/Intellectual input |
| Collaborator Contribution | Expert/Intellectual input |
| Impact | As listed. |
| Start Year | 2019 |
| Description | Henry-Louis de Kergolay |
| Organisation | Alan Turing Institute |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Oliver Vipond - Random Geometric Complexes Paper joint work (expertise algebraic topology) |
| Collaborator Contribution | Henry-Louis de Kergolay - Random Geometric Complexes Paper joint work (expertise probability) |
| Impact | As listed |
| Start Year | 2018 |
| Description | Integrating barcodes |
| Organisation | Bentley University |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | This is a theoretical project to give a new kind of invariants for multiparameter persistence problems. Jeffrey Giansiracusa has been working out the algebraic foundations for these invariants. |
| Collaborator Contribution | Noah Giansiracusa (Bentley University), Chul Moon (Southern Methodist University, USA). CM will be proving computational expertise in developing an R/Python package implementation of these invariants. NG collaborates on mathematical ideas. |
| Impact | As listed |
| Start Year | 2018 |
| Description | Integrating barcodes |
| Organisation | Southern Methodist University |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | This is a theoretical project to give a new kind of invariants for multiparameter persistence problems. Jeffrey Giansiracusa has been working out the algebraic foundations for these invariants. |
| Collaborator Contribution | Noah Giansiracusa (Bentley University), Chul Moon (Southern Methodist University, USA). CM will be proving computational expertise in developing an R/Python package implementation of these invariants. NG collaborates on mathematical ideas. |
| Impact | As listed |
| Start Year | 2018 |
| Description | Jacob Leygonie |
| Organisation | University of Oxford |
| Department | Department of Engineering Science |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Intellectual expertise. |
| Collaborator Contribution | A presentation based on the preprint, entitled, 'Differential calculus on persistence barcodes.' https://www.youtube.com/watch?v=8LKpPq2HqY8 |
| Impact | The presentation - available on youtube - based on the preprint https://arxiv.org/pdf/1910.00960.pdf |
| Start Year | 2020 |
| Description | Jeffrey Giansiracusa & Ximena Fernandez - Topological measurements geospatial habitat data |
| Organisation | Bangor University |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | JG is developing topological descriptors for measuring habitat integrity and fragmentation using persistent homology. |
| Collaborator Contribution | Florian Pausinger (Queens Belfast), Isabel Rosa (Bangor). This collaboration has brought in-kind access to geospatial data. IR provides datasets, domain knowledge. FP collaborates on mathematical ideas. |
| Impact | N/A |
| Start Year | 2020 |
| Description | Jeffrey Giansiracusa & Ximena Fernandez - Topological measurements geospatial habitat data |
| Organisation | Queen's University Belfast |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | JG is developing topological descriptors for measuring habitat integrity and fragmentation using persistent homology. |
| Collaborator Contribution | Florian Pausinger (Queens Belfast), Isabel Rosa (Bangor). This collaboration has brought in-kind access to geospatial data. IR provides datasets, domain knowledge. FP collaborates on mathematical ideas. |
| Impact | N/A |
| Start Year | 2020 |
| Description | Jeffrey Giansiracusa - Cancer therapy models |
| Organisation | AstraZeneca |
| Country | United Kingdom |
| Sector | Private |
| PI Contribution | JG provide mathematical methods for model comparison and selection via persistent homology and related methods. |
| Collaborator Contribution | AstraZeneca provides data and motivation, domain knowledge |
| Impact | N/A |
| Start Year | 2021 |
| Description | Jeffrey Giansiracusa - Hospital bed state data analysis |
| Organisation | Aneurin Bevan University Health Board |
| Country | United Kingdom |
| Sector | Public |
| PI Contribution | JG provide mathematical methods for exploratory data analysis |
| Collaborator Contribution | Health Board provides access to data and clinical expertise |
| Impact | N/A |
| Start Year | 2021 |
| Description | Jeffrey Giansiracusa - Identifying terrorist content on the internet |
| Organisation | Tech Against Terrorism |
| Country | United Kingdom |
| Sector | Public |
| PI Contribution | JG provide mathematical methods |
| Collaborator Contribution | Domain expertise and data sets |
| Impact | N/A |
| Start Year | 2021 |
| Description | Jeffrey Giansiracusa - Integrating barcodes |
| Organisation | Bentley University |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | This is a theoretical project to give a new kind of invariants for multiparameter persistence problems. JG has been working out the algebraic foundations for these invariants. |
| Collaborator Contribution | Noah Giansiracusa (Bentley University), Chul Moon (Southern Methodist University, USA) CM will be proving computational expertise in developing an R/Python package implementation of these invariants. NG collaborates on mathematical ideas. |
| Impact | N/A |
| Start Year | 2018 |
| Description | Jeffrey Giansiracusa - Integrating barcodes |
| Organisation | Southern Methodist University |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | This is a theoretical project to give a new kind of invariants for multiparameter persistence problems. JG has been working out the algebraic foundations for these invariants. |
| Collaborator Contribution | Noah Giansiracusa (Bentley University), Chul Moon (Southern Methodist University, USA) CM will be proving computational expertise in developing an R/Python package implementation of these invariants. NG collaborates on mathematical ideas. |
| Impact | N/A |
| Start Year | 2018 |
| Description | Jeffrey Giansiracusa - Lolo Jones |
| Organisation | Durham University |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Mathematical exploration of novel deep learning techniques for strutured data |
| Collaborator Contribution | Expertise |
| Impact | none as yet |
| Start Year | 2021 |
| Description | John Harvey - Mapping sensor data in blast furnaces |
| Organisation | Swansea University |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Using mapper software to analyse sensor data |
| Collaborator Contribution | Providing and interpreting data |
| Impact | None as yet. |
| Start Year | 2021 |
| Description | Josh Bull, Philip Macklin |
| Organisation | Ludwig Institute for Cancer Research |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Oliver Vipon contributed Topological Data Analusis on Histology data. |
| Collaborator Contribution | Philip Macklin provides clinical data. Josh Bull develops algorithms to convert raw data to point cloud data. |
| Impact | As listed |
| Start Year | 2018 |
| Description | Kelly Spendlove - Matt Kahle, Professor Bob MacPherson, Professor Ulrich Bauer, Hannah Alpert |
| Organisation | Ohio State University |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Computational Morse Theory |
| Collaborator Contribution | Homology of Configuration Spaces |
| Impact | As listed |
| Start Year | 2019 |
| Description | Kelly Spendlove - Matt Kahle, Professor Bob MacPherson, Professor Ulrich Bauer, Hannah Alpert |
| Organisation | Princeton University |
| Department | Institute for Advanced Study |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Computational Morse Theory |
| Collaborator Contribution | Homology of Configuration Spaces |
| Impact | As listed |
| Start Year | 2019 |
| Description | Kelly Spendlove - Matt Kahle, Professor Bob MacPherson, Professor Ulrich Bauer, Hannah Alpert |
| Organisation | Technical University of Munich |
| Country | Germany |
| Sector | Academic/University |
| PI Contribution | Computational Morse Theory |
| Collaborator Contribution | Homology of Configuration Spaces |
| Impact | As listed |
| Start Year | 2019 |
| Description | Kelly Spendlove - Matt Kahle, Professor Bob MacPherson, Professor Ulrich Bauer, Hannah Alpert |
| Organisation | University of British Columbia |
| Country | Canada |
| Sector | Academic/University |
| PI Contribution | Computational Morse Theory |
| Collaborator Contribution | Homology of Configuration Spaces |
| Impact | As listed |
| Start Year | 2019 |
| Description | Lewis Marsh - Sarah Filippi |
| Organisation | Imperial College London |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Lewis Marsh conducted a several model reductions and rigorously compared them, designed and implemented a Bayesian inference on this data |
| Collaborator Contribution | Sarah Filippi assisted with design of Bayesian inference |
| Impact | As listed |
| Start Year | 2019 |
| Description | Lewis Marsh - Stanislav Y Shvartsman, Eyan Yeung, Sarah McFann, Martin Wuhr |
| Organisation | Princeton University |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Lewis Marsh conducted several model reductions and rigorously compared them, designed and implemented a Bayesian inference on this data |
| Collaborator Contribution | Princeton (no direct financial contribution; resulted in a publication, research on the shared data still ongoing) |
| Impact | As listed |
| Start Year | 2019 |
| Description | Lewis Marsh, Sarah Filippi |
| Organisation | Imperial College London |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Expertise in TDA |
| Collaborator Contribution | Expertise and data |
| Impact | Resulted in publication |
| Start Year | 2020 |
| Description | Martin Helmer |
| Organisation | Australian National University (ANU) |
| Country | Australia |
| Sector | Academic/University |
| PI Contribution | Vidit Nanda contributed Euler obstructions |
| Collaborator Contribution | Martin Helmer contributed Cellular models for 2-vector bundles |
| Impact | As listed |
| Start Year | 2019 |
| Description | Nicola Richmond |
| Organisation | GlaxoSmithKline (GSK) |
| Department | GlaxoSmithKline Medicines Research Centre |
| Country | United Kingdom |
| Sector | Private |
| PI Contribution | Sharing expertise, intellectual input. Visualization of biochemical design. |
| Collaborator Contribution | Nicola Richmond is a member of our Scientific Advisory Board. |
| Impact | None |
| Start Year | 2019 |
| Description | Oliver Vipond - Henry-Louis de Kergolay |
| Organisation | Alan Turing Institute |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Random Geometric Complexes Paper joint work (expertise algebraic topology) |
| Collaborator Contribution | Random Geometric Complexes Paper joint work (expertise probability) |
| Impact | N/A |
| Start Year | 2018 |
| Description | Oliver Vipond - Henry-Louis de Kergolay |
| Organisation | University of Edinburgh |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Random Geometric Complexes Paper joint work (expertise algebraic topology) |
| Collaborator Contribution | Random Geometric Complexes Paper joint work (expertise probability) |
| Impact | N/A |
| Start Year | 2018 |
| Description | Oliver Vipond - Omer Bobrowski |
| Organisation | Technion - Israel Institute of Technology |
| Country | Israel |
| Sector | Academic/University |
| PI Contribution | Random Geometric Complexes |
| Collaborator Contribution | Random Geometric Complexes |
| Impact | N/A |
| Start Year | 2019 |
| Description | Oliver Vipond- Josh Bull, Philip Macklin |
| Organisation | University of Oxford |
| Department | Mathematical Institute Oxford |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | TDA on Histology data |
| Collaborator Contribution | PM provides clinical data. JB develops algorithms to convert raw data to point cloud data. |
| Impact | N/A |
| Start Year | 2018 |
| Description | Omer Bobrowski |
| Organisation | Technion - Israel Institute of Technology |
| Country | Israel |
| Sector | Academic/University |
| PI Contribution | Oliver Vipond contributed random geometric complexes |
| Collaborator Contribution | Omer also contributed random geometric complexes |
| Impact | As listed |
| Start Year | 2019 |
| Description | Pawel Dlotko - Bartosz Zielinski |
| Organisation | Jagiellonian University |
| Country | Poland |
| Sector | Academic/University |
| PI Contribution | Vectorizations of persistence diagrams |
| Collaborator Contribution | How to interface topology to machine learning |
| Impact | As listed |
| Start Year | 2019 |
| Description | Pawel Dlotko - Berent Smit |
| Organisation | Swiss Federal Institute of Technology in Lausanne (EPFL) |
| Country | Switzerland |
| Sector | Public |
| PI Contribution | Topological descriptors of nanoporous materials |
| Collaborator Contribution | Building better tools to compare databases of materials |
| Impact | As listed |
| Start Year | 2019 |
| Description | Pawel Dlotko - Davide Gurnari |
| Organisation | University of Padova |
| Department | Department of Mathematics |
| Country | Italy |
| Sector | Academic/University |
| PI Contribution | Supported an Erasmus financed Masters student |
| Collaborator Contribution | Distributed computations of Euler characteristics |
| Impact | As lited. |
| Start Year | 2020 |
| Description | Pawel Dlotko - Dmitry Feichtner-Kozlov |
| Organisation | University of Bremen |
| Country | Germany |
| Sector | Academic/University |
| PI Contribution | Explore the relations of Morse theory and persistence |
| Collaborator Contribution | How hard instances in Morse theory correspond to hard instances in persistence |
| Impact | As listed. |
| Start Year | 2019 |
| Description | Pawel Dlotko - Florian Pausinger |
| Organisation | Queen Mary University of London |
| Department | School of Mathematical Sciences |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Geographical time series |
| Collaborator Contribution | Examine how to reconstruct the dymanics leading geographical processes |
| Impact | As listed |
| Start Year | 2019 |
| Description | Pawel Dlotko - Frank H. Lutz |
| Organisation | Technical University Berlin |
| Country | Germany |
| Sector | Academic/University |
| PI Contribution | Explore the relation of Morse theory and persistence |
| Collaborator Contribution | How hard instances in Morse theory correspond to hard instances in persistence |
| Impact | As listed |
| Start Year | 2019 |
| Description | Pawel Dlotko - Jacek Brodzki |
| Organisation | University of Southampton |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Topology of neural networks |
| Collaborator Contribution | Interactions of topology and ANNs |
| Impact | As listed |
| Start Year | 2019 |
| Description | Pawel Dlotko - Michael Grinfeld |
| Organisation | University of Strathclyde |
| Department | Mathematics and Statistics Strathclyde |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Phase separation in alloys |
| Collaborator Contribution | Topological signatures of phase separations |
| Impact | As listed |
| Start Year | 2019 |
| Description | Pawel Dlotko - Professor Fred Chazal |
| Organisation | The National Institute for Research in Computer Science and Control (INRIA) |
| Department | Saclay |
| Country | France |
| Sector | Charity/Non Profit |
| PI Contribution | Creating a Topological Data Analysis library - the Gudhi library resource. |
| Collaborator Contribution | Requested the development of a open source library of topological data analysis tutorials. |
| Impact | In progress |
| Start Year | 2019 |
| Description | Pawel Dlotko - Professor Grzegorz Graff |
| Organisation | Gdansk University of Technology |
| Department | Faculty of Appied Physics and Mathematics |
| Country | Poland |
| Sector | Academic/University |
| PI Contribution | Time series of breaching |
| Collaborator Contribution | Using TDA to predict pulmunology diseases |
| Impact | As listed |
| Start Year | 2019 |
| Description | Pawel Dlotko - Professor Marian Gidea |
| Organisation | Yeshiva University |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Topology of time series |
| Collaborator Contribution | Measuring the predictability of financial crashes |
| Impact | As listed |
| Start Year | 2019 |
| Description | Pawel Dlotko - Professor Matthias Zeppelzauer |
| Organisation | St. Pölten University of Applied Sciences |
| Country | Austria |
| Sector | Academic/University |
| PI Contribution | Vectorizations of persistence diagrams |
| Collaborator Contribution | How to interface topology to machine learning |
| Impact | As listed |
| Start Year | 2019 |
| Description | Pawel Dlotko - Professor Ruben Specogna |
| Organisation | University of Udine |
| Country | Italy |
| Sector | Academic/University |
| PI Contribution | Topology to speed up Maxwells equations computations |
| Collaborator Contribution | Providing new tools for better electromagnetic modelling |
| Impact | As listed |
| Start Year | 2019 |
| Description | Pawel Dlotko - Professor Slawomir Nasuto |
| Organisation | University of Reading |
| Department | School of Biological Sciences Reading |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Sharing expertise and intellectual inputs on the application of topological networks to neurons and complicated systems |
| Collaborator Contribution | Sharing expertise and intellectual inputs on applying topological measures to networks and artificially grown neurons |
| Impact | As listed. |
| Start Year | 2019 |
| Description | Pawel Dlotko - Radmila Sazdanovic |
| Organisation | North Carolina State University |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Properties of knots |
| Collaborator Contribution | How different knot invariants interact |
| Impact | As listed |
| Start Year | 2019 |
| Description | Pawel Dlotko - Reem Khalil |
| Organisation | American University of Sharjah |
| Country | United Arab Emirates |
| Sector | Academic/University |
| PI Contribution | Shape of pyramidal neurons |
| Collaborator Contribution | Determining distribution of different piramidal neurons |
| Impact | As listed |
| Start Year | 2020 |
| Description | Pawel Dlotko - Sadok Kallel |
| Organisation | American University of Sharjah |
| Country | United Arab Emirates |
| Sector | Academic/University |
| PI Contribution | Topological descriptor of graphs |
| Collaborator Contribution | How to plot a graph to a learning procedure |
| Impact | As listed. |
| Start Year | 2018 |
| Description | Pawel Dlotko - Simon Rudkin |
| Organisation | Swansea University |
| Department | School of Management |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Sharing expertise and intellectual inputs into the applications of topology to economics |
| Collaborator Contribution | Sharing expertise and intellectual inputs into the applications of topology to economics |
| Impact | As listed. |
| Start Year | 2019 |
| Description | Pawel Dlotko - Thomas Wanner |
| Organisation | George Mason University |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Rigorous approximation of topology of function |
| Collaborator Contribution | How to approximate with controled error bound topology of functions |
| Impact | As lited. |
| Start Year | 2019 |
| Description | Pawel Dlotko - Yuri Katz |
| Organisation | S&P Global |
| Country | United States |
| Sector | Private |
| PI Contribution | Toplogy of time series |
| Collaborator Contribution | Measuring the predictability of financial crashes |
| Impact | As listed. |
| Start Year | 2019 |
| Description | Pawel Dlotko, Tak-Shing Chan, R.U. Gobithaasan |
| Organisation | University of Malaysia, Terengganu |
| Country | Malaysia |
| Sector | Academic/University |
| PI Contribution | Expertise in TDA |
| Collaborator Contribution | Expertise |
| Impact | A grant from Malaysian goverment to use TDA to examine meteorological time series |
| Start Year | 2019 |
| Description | Professor Frances Kirwan FRS |
| Organisation | University of Oxford |
| Department | Mathematical Institute Oxford |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Vidit Nanda contributed Symplectic quotients of persistence modules |
| Collaborator Contribution | Frances Kirwan contributed interactions of geometric invariant theory with persistent homology |
| Impact | As listed |
| Start Year | 2019 |
| Description | Professor Nils Baas |
| Organisation | NTNU University Museum |
| Country | Norway |
| Sector | Charity/Non Profit |
| PI Contribution | Vidit Nanda contributed Persistent K-theory |
| Collaborator Contribution | Nil Baas contributed Cellular models for 2-vector bundles |
| Impact | As listed |
| Start Year | 2019 |
| Description | R.U. Gobithaasan |
| Organisation | University of Malaysia, Terengganu |
| Country | Malaysia |
| Sector | Academic/University |
| PI Contribution | Pawel Dlotko, Tak-Shing Chan have been awarded a joint grant from the Malaysian government to use TDA to examine meteorological time series. |
| Collaborator Contribution | Malaysian government have supported this financially |
| Impact | Not as yet |
| Start Year | 2019 |
| Description | Renee Hoekzema & Otto Sumray |
| Organisation | University of Oxford |
| Department | Mathematical Institute Oxford |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Spectral methods for deconvolution |
| Collaborator Contribution | Spectral methods for deconvolution |
| Impact | None as yet |
| Start Year | 2022 |
| Description | Renee Hoekzema & Peter Bubenik - Multi-persistence |
| Organisation | University of Florida |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Elementary cobordisms from extended 2D topological field theory |
| Collaborator Contribution | Two-parameter persistence for manifolds |
| Impact | None as yet |
| Start Year | 2022 |
| Description | Renee Hoekzema, Katherine Turner - TDA for palaeontology |
| Organisation | Australian National University (ANU) |
| Country | Australia |
| Sector | Academic/University |
| PI Contribution | Palaeontological expertise and datasets |
| Collaborator Contribution | TDA image analysis methods |
| Impact | None as yet |
| Start Year | 2022 |
| Description | Topological measurements geospatial habitat data |
| Organisation | Bangor University |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Jeffrey Giansiracusa is developing topological descriptors for measuring habitat integrity and fragmentation using persistent homology. |
| Collaborator Contribution | Florian Pausinger (Queens Belfast), Isabel Rosa (Bangor). This collaboration has brought in-kind access to geospatial data. IR provides datasets, domain knowledge. FP collaborates on mathematical ideas. |
| Impact | as listed |
| Start Year | 2020 |
| Description | Topological measurements geospatial habitat data |
| Organisation | Queen's University Belfast |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Jeffrey Giansiracusa is developing topological descriptors for measuring habitat integrity and fragmentation using persistent homology. |
| Collaborator Contribution | Florian Pausinger (Queens Belfast), Isabel Rosa (Bangor). This collaboration has brought in-kind access to geospatial data. IR provides datasets, domain knowledge. FP collaborates on mathematical ideas. |
| Impact | as listed |
| Start Year | 2020 |
| Description | Vidit Nanda - Amit Patel |
| Organisation | Colorado State University |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Higher persistence and stability |
| Collaborator Contribution | Bisheaves and local systems |
| Impact | N/A |
| Start Year | 2019 |
| Description | Vidit Nanda - Francis Kirwan |
| Organisation | University of Oxford |
| Department | Mathematical Institute Oxford |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Symplectic quotients of persistence modules |
| Collaborator Contribution | Interactions of geometric invariant theory with persistent homology |
| Impact | N/A |
| Start Year | 2019 |
| Description | Vidit Nanda - Martin Helmer |
| Organisation | Australian National University (ANU) |
| Country | Australia |
| Sector | Academic/University |
| PI Contribution | Euler obstructions |
| Collaborator Contribution | Using TDA for computational algebraic geometry and intersection theory |
| Impact | N/A |
| Start Year | 2019 |
| Description | Vidit Nanda - Nils Baas |
| Organisation | Norwegian University of Science and Technology (NTNU) |
| Country | Norway |
| Sector | Academic/University |
| PI Contribution | Persistent K-theory |
| Collaborator Contribution | Cellular models for 2-vector bundles |
| Impact | Persistent K-theory |
| Start Year | 2019 |
| Description | Vitaliy Kurlin - Cambridge Crystallographic Data Centre |
| Organisation | Cambridge Crystallographic Data Centre |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Developed isometry invariants that distinguished all crystals in the world's largest Cambridge Structural Database and found five pairs of physically impossible crystals that have identical chemistry but differ by a single atom. |
| Collaborator Contribution | The CCDC colleagues have initiated the investigation in to data integrity with five journals that published underlying papers claiming geometrically identical crystals. Cambridge Crystallographic Data Centre has contributed £64K to 2 PhD projects supervised by Vitaliy Kurlin at the University of Liverpool |
| Impact | First paper co-authored with the CCDC: http://kurlin.org/projects/periodic-geometry-topology.php#MATCH2022 |
| Start Year | 2019 |
| Description | Ximena Fernández - Emilio Kropff and Sabrina Benas |
| Organisation | Leloir Institute |
| Country | Argentina |
| Sector | Charity/Non Profit |
| PI Contribution | Model of neural activity of grid cells for different topological architectures in the neural network |
| Collaborator Contribution | Expertise |
| Impact | None as yet |
| Start Year | 2021 |
| Description | Ximena Fernández - Epilepsy and time series |
| Organisation | Argentinean National Agency for Science and Technology |
| Country | Argentina |
| Sector | Public |
| PI Contribution | Topological analysis in real time of time series from EEG and MEG for real time detection of epileptic seizures |
| Collaborator Contribution | Expertise |
| Impact | None as yet |
| Start Year | 2021 |
| Description | Ximena Fernández - Pablo Groisman, Gabriel Mindlin, Eugenio Borghini |
| Organisation | University of Buenos Aires |
| Country | Argentina |
| Sector | Academic/University |
| PI Contribution | TDA on manifolds |
| Collaborator Contribution | Dynamical systems, probabilistic inference |
| Impact | Resulted in publication (see relevant section) |
| Start Year | 2020 |
| Description | Ximena Fernández - Steve Damelin |
| Organisation | University of Michigan |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | TDA on data with noise |
| Collaborator Contribution | Probabilistic inference |
| Impact | N/A |
| Start Year | 2021 |
| Description | Ximena Fernandez - Travis Thompson & Christoffer Alexandersen |
| Organisation | University of Oxford |
| Department | Mathematical Institute Oxford |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Topological encoding of the evolution of neurodegenerative deseases |
| Collaborator Contribution | Expertise in neurogenerative mechanics |
| Impact | None as yet |
| Start Year | 2022 |
| Title | Ball Mapper (MATLAB) (Tak-Shing Chan) |
| Description | MATLAB version of Ball Mapper |
| Type Of Technology | Software |
| Year Produced | 2019 |
| Open Source License? | Yes |
| Impact | MATLAB version of Ball Mapper |
| Title | Ball Mapper algorithm |
| Description | Ball Mapper algorithm, R package published on CRAN (The Comprehensive R Archive Network). A GPL tool to visualize and analyze high dimensional datasets. |
| Type Of Technology | Webtool/Application |
| Year Produced | 2019 |
| Open Source License? | Yes |
| Impact | See listed. |
| URL | https://CRAN.R-project.org/package=BallMapper |
| Title | Ball Mapper algorithm, R package published on CRAN (The Comprehensive R Archive Network) |
| Description | A GPL tool to visualize and analyze high dimensional datasets. |
| Type Of Technology | Software |
| Year Produced | 2019 |
| Open Source License? | Yes |
| Impact | Accessible to statisticians. |
| Title | Code and data for "Homology of homologous knotted proteins" |
| Description | Code and data for the paper "Homology of homologous knotted proteins" |
| Type Of Technology | Software |
| Year Produced | 2023 |
| Open Source License? | Yes |
| URL | https://zenodo.org/record/7799280 |
| Title | DESR (Heather Harrington, Siddarth Kumar) |
| Description | Symmetry reduction of dynamical systems and nondimensionalisation |
| Type Of Technology | Software |
| Year Produced | 2020 |
| Open Source License? | Yes |
| Impact | Enables automatic nondimensionalisation |
| Title | Epsilon-dense samples for TDA given equations (Heather Harrington) |
| Description | provides epsilon-dense samples for TDA |
| Type Of Technology | Software |
| Year Produced | 2020 |
| Open Source License? | Yes |
| Impact | provides epsilon-dense samples for TDA |
| Title | Greg Henselman-Petrusek - Geometric analysis of distributed neural feature representations |
| Description | Discriminates between neural feature represenations which do or do not vary according to task context |
| Type Of Technology | New/Improved Technique/Technology |
| Year Produced | 2020 |
| Open Source License? | Yes |
| Impact | N/A |
| URL | https://github.com/Eetion/cogsci2021_code.git |
| Title | HoPeS: Homologically Persistent Skeleton |
| Description | For a given 2D cloud of points, the HoPeS algorithm computes a Homologically Persistent Skeleton that optimally captures 1-dimensional cycles corresponding to all dots in the 1D persistence diagram as described in the paper by Philip Smith, Vitaliy Kurlin. Skeletonisation Algorithms with Theoretical Guarantees for Unorganised Point Clouds with High Levels of Noise, https://arxiv.org/abs/1901.03319. |
| Type Of Technology | Software |
| Year Produced | 2019 |
| Impact | none yet |
| URL | https://arxiv.org/abs/1901.03319 |
| Title | PRIM: Persistence-based Resolution-Independent Meshes (Vitaly Kurlin) |
| Description | For a given image and a number k of line segments, the PRIM algorithms finds k most persistent line segments and extends them to a polygonal mesh |
| Type Of Technology | Software |
| Year Produced | 2019 |
| Open Source License? | Yes |
| Impact | For a given image and a number k of line segments, the PRIM algorithms finds k most persistent line segments and extends them to a polygonal mesh |
| Title | Pawel Dlotko, Tak-Shing Chan, John Harvey Oxford COVID-19 (OxCOVID19) Data Fetcher Repository |
| Description | Web scraper for global COVID-19 data |
| Type Of Technology | Webtool/Application |
| Year Produced | 2020 |
| Open Source License? | Yes |
| Impact | N/A |
| URL | https://github.com/covid19db/fetchers-python |
| Title | Probing center vortices and deconfinement in SU(2) lattice gauge theory with persistent homology - analysis workflow |
| Description | This repository contains the analysis code used to prepare the plots and results included in Probing center vortices and deconfinement in SU(2) lattice gauge theory with persistent homology. The analysis code is split into two Jupyter notebooks: 'twist_analysis.ipynb' and 'knn_analysis.ipynb', covering the Sections IV.A and IV.B of the paper respectively. Additionally, the repository contains some saved calculations in 'intermediate_data.zip' that greatly speed up the computations if the original seeds are used. Running all the code with this intermediate data will take less than a minute, and running it without will take several hours. There is also other useful code including that used to compute the persistent homology of configurations and that used to package the data into netCDF4 format. Further details are given in the file 'README.md'. |
| Type Of Technology | Software |
| Year Produced | 2022 |
| Open Source License? | Yes |
| URL | https://zenodo.org/record/7060223 |
| Title | PyCHomP/Conley-Morse Sheaf (Kelly Spendlove) |
| Description | Enables connection matrix computation over parameter space |
| Type Of Technology | Software |
| Year Produced | 2020 |
| Open Source License? | Yes |
| Impact | Enables connection matrix computation over parameter space |
| Description | AAAI talk |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | talk at AAAI conference |
| Year(s) Of Engagement Activity | 2021 |
| URL | https://crossminds.ai/video/gclr-aaai-2021-talk-by-prof-gesine-reinert-6037d53a7f8edf489ac277d4/ |
| Description | AI @ Oxford |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Study participants or study members |
| Results and Impact | TITLE: ABSTRACT: Discussed possible spinout of TDA |
| Year(s) Of Engagement Activity | 2019 |
| URL | https://www.mpls.ox.ac.uk/upcoming-events/ai-oxford-conference |
| Description | Agnese Barbensi - Eutopia 3rd meeting |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Gave short online talk at aforementioned symposium |
| Year(s) Of Engagement Activity | 2021 |
| Description | Agnese Barbensi - GT GAPS seminars |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Postgraduate students |
| Results and Impact | Online talk, Zoom seminar for graduate students and postdocs interested in geometric topology |
| Year(s) Of Engagement Activity | 2020 |
| URL | https://math.mit.edu/~maggiehm/gtgaps_index.html |
| Description | Agnese Barbensi - Glasgow Topology Seminar |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Professional Practitioners |
| Results and Impact | Glasgow Topology Seminar |
| Year(s) Of Engagement Activity | 2020 |
| Description | Agnese Barbensi - NmS colloquium, Oxford |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Professional Practitioners |
| Results and Impact | Oxford internal colloquium |
| Year(s) Of Engagement Activity | 2020 |
| Description | Agnese Barbensi - SIAM CSE Minisymposium |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | I gave a talk at a Minisymposium inside SIAM conference |
| Year(s) Of Engagement Activity | 2021 |
| URL | https://meetings.siam.org/sess/dsp_programsess.cfm?SESSIONCODE=70073 |
| Description | Agnese Barbensi - Special Session Joint Mathematics Meetings |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Special session inside the JMM |
| Year(s) Of Engagement Activity | 2021 |
| URL | https://meetings.ams.org/math/jmm2021/meetingapp.cgi |
| Description | Agnese Barbensi - Warwick Maths Colloquium |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Professional Practitioners |
| Results and Impact | Warwick Maths Colloquium |
| Year(s) Of Engagement Activity | 2021 |
| Description | Benjamin - Conference talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Postgraduate students |
| Results and Impact | Research talk at British Early Career Mathematicians' Colloqiuium, University of Birmingham |
| Year(s) Of Engagement Activity | 2022 |
| URL | https://web.mat.bham.ac.uk/BYMC/BECMC22/ |
| Description | Benjamin - Seminar talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Postgraduate students |
| Results and Impact | Research talk at Junior Topology and Group Theory seminar, University of Oxford |
| Year(s) Of Engagement Activity | 2022 |
| URL | https://www.maths.ox.ac.uk/node/61301 |
| Description | Benjamin - Summer school tutorial |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Postgraduate students |
| Results and Impact | Tutorial on topological data analysis for attendees of the London Geometry and Machine Learning summer school |
| Year(s) Of Engagement Activity | 2022 |
| URL | https://www.logml.ai/home-2022 |
| Description | Benjamin - Workshop talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Postgraduate students |
| Results and Impact | Research talk at Topology of Data workshop, University of Rome Tor Vergata |
| Year(s) Of Engagement Activity | 2022 |
| URL | https://www.mat.uniroma2.it/Eventi/2022/Topoldata/topoldata.php |
| Description | Biological and Biomedical Physics Seminar, Cambridge (Helen Byrne) |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Postgraduate students |
| Results and Impact | TALK TITLE: Multiscale approaches to modelling vascular tumour growth. ABSTRACT: Understanding how vascular networks deliver nutrients and chemotherapy to solid tumours, how these networks evolve and how they may be manipulated to improve patient outcomes remain a major focus of cancer research. Such knowledge is important accurately to predict a tumour's response to radiotherapy and for establishing whether a particular patient's response can be enhanced by treatment with vascular targeting agents. Mathematical and computational models have the potential to provide valuable insight into the biophysical mechanisms that regulate tumour blood flow, transport and vascular remodelling, and a variety of models have been proposed. In this talk, I will explain how integrating data from in vitro and in vivo experiments within multiscale computational models can be used: (i) to propose new mechanisms for tumour hypoxia, and (ii) to characterise the morphology of vascular networks. This talk is part of the Biological and Biomedical Physics series. |
| Year(s) Of Engagement Activity | 2020 |
| URL | https://www.talks.cam.ac.uk/talk/index/132559 |
| Description | Brown - Conference Talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Research talk at Representation Theory XVII Conference\ |
| Year(s) Of Engagement Activity | 2022 |
| URL | https://web.math.pmf.unizg.hr/congress/Dubrovnik22/ |
| Description | Brown - Seminar Talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Postgraduate students |
| Results and Impact | Research talk at Oxford Algebra Seminar |
| Year(s) Of Engagement Activity | 2022 |
| URL | https://www.maths.ox.ac.uk/node/61354 |
| Description | Brown - TDA Centre Meeting Talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Professional Practitioners |
| Results and Impact | Research talk at TDA Centre Meeting MT 2022 |
| Year(s) Of Engagement Activity | 2022 |
| URL | https://www.maths.ox.ac.uk/node/61267 |
| Description | Byrne - Colloquium |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Professional Practitioners |
| Results and Impact | Centre for Mathematics Applied to the Life Sciences, Glasgow |
| Year(s) Of Engagement Activity | 2022 |
| Description | Byrne - Conference Talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | 2nd Nordic Biomathematics days, Copenhagen, Denmark |
| Year(s) Of Engagement Activity | 2022 |
| Description | Byrne - Conference Talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Maria de Maeztu kick-off meeting, Barcelona, Spain |
| Year(s) Of Engagement Activity | 2022 |
| Description | Byrne - Conference talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Postgraduate students |
| Results and Impact | BioToMath Conference, Torino, Italy |
| Year(s) Of Engagement Activity | 2022 |
| Description | Can calculus cure cancer, Sydney University, (Helen Byrne) |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Study participants or study members |
| Results and Impact | How can mathematical modelling and calculus help us understand how tumours grow and respond to treatments? A public lecture part of the Public Talks at Sydney University, is co-presented with the Sydney Mathematical Research Institute (Faculty of Science, University of Sydney). |
| Year(s) Of Engagement Activity | 2019 |
| URL | https://www.facebook.com/sydney.ideas/videos/live-sydney-ideas-can-calculus-cure-cancer/271010400482... |
| Description | CoCoCo |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Co-organised a workshop on COVID-19 modelling |
| Year(s) Of Engagement Activity | 2020 |
| URL | https://www.statistik.uni-muenchen.de/aktuelles/cococo/index.html |
| Description | Covid talk |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Talk at Bernoulli-IMS One World Symposium 2020 |
| Year(s) Of Engagement Activity | 2020 |
| URL | https://www.worldsymposium2020.org/program/prerecorded-talks |
| Description | Curing Cancer with Calculus by integrating information from bench to bedside (Helen Byrne) |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Regional |
| Primary Audience | Professional Practitioners |
| Results and Impact | Talk title: Mathematical approaches to modelling and remodelling biological tissues |
| Year(s) Of Engagement Activity | 2019 |
| URL | https://gregynogwmc.github.io/Gregynog2019Timetable.pdf |
| Description | Fernandez - Conference talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Professional Practitioners |
| Results and Impact | Contributed talk, 35th British Topology Meeting, Durham University, UK. |
| Year(s) Of Engagement Activity | 2022 |
| Description | Fernandez - Conference talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Invited talk, 3rd International Meeting on Geometric Group Theory and Low Dimensional Topology, Virtual. |
| Year(s) Of Engagement Activity | 2022 |
| Description | Fernandez - Conference talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Contributed talk, 11th International Conference on Geometric and Topological Methods in Computer Science (GETCO 2022), EPITA School of Engineering and Computer Science, Paris, France. |
| Year(s) Of Engagement Activity | 2022 |
| Description | Fernandez - Conference talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Professional Practitioners |
| Results and Impact | Invited talk, 116 Triangle Transpennine Topology Meeting, Liverpool University, UK. |
| Year(s) Of Engagement Activity | 2022 |
| Description | Fernandez - Poster |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Poster, ATMCS 10, Oxford University, UK |
| Year(s) Of Engagement Activity | 2022 |
| Description | Fernandez - Seminar talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Professional Practitioners |
| Results and Impact | Invited talk, Mathematical Brain Modelling Seminar (OxMBM), Oxford University, UK. |
| Year(s) Of Engagement Activity | 2022 |
| Description | Fernandez - Summer school tutorial |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Postgraduate students |
| Results and Impact | International Summer School on Modeling Nature BIOMAT 2022. Multiscale Models and Methods in Life Sciences. Universidad de Granada, Spain |
| Year(s) Of Engagement Activity | 2022 |
| Description | Fernandez - Summer school tutorial |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Postgraduate students |
| Results and Impact | EUropean TOPology Interdisciplinary Action (EUTOPIA) Summer School 2022. Université Paris Cité, Paris, France |
| Year(s) Of Engagement Activity | 2022 |
| Description | Fernandez - TDA Meeting talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Professional Practitioners |
| Results and Impact | Research talk, UK Centre for Topological Data Analysis Group Meeting, Oxford University, UK. |
| Year(s) Of Engagement Activity | 2023 |
| Description | Fernandez - Youtube Seminar talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Invited talk, Applied Topology Seminar, AATRN Youtube Channel, Online. |
| Year(s) Of Engagement Activity | 2022 |
| Description | Garcia-Pulido - Colloquium |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Professional Practitioners |
| Results and Impact | Invited speaker at Colloquium, CIMAT Guanajuato |
| Year(s) Of Engagement Activity | 2022 |
| Description | Garcia-Pulido - Congress talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Invited speaker at Congress of the SMM, Guadalajara |
| Year(s) Of Engagement Activity | 2022 |
| Description | Garcia-Pulido - Seminar talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Professional Practitioners |
| Results and Impact | Invited speaker at Geometry and Topology seminar, Durham |
| Year(s) Of Engagement Activity | 2022 |
| URL | https://maths.durham.ac.uk/seminars/pastseminars.html |
| Description | Garcia-Pulido - Workshop talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Invited speaker at Workshop in Computational Geometry, Nottingham |
| Year(s) Of Engagement Activity | 2022 |
| URL | https://sites.google.com/view/computationalgeometry22/home |
| Description | Garcia-Pulido - Workshop talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Invited speaker at Workshop Geometric Measure Theory and Analysis on Metric Spaces, Warwick |
| Year(s) Of Engagement Activity | 2022 |
| URL | https://warwick.ac.uk/fac/sci/maths/research/events/events2021-22/geometricmeasuretheory/ |
| Description | Greg Henselman-Petrusek - Oregon State University TDA seminar |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Online talk, presenting resent research on Morse-Witten theory for real operators (a spectral approach to discrete Morse theory); Following this talk I had several follow-up meetings with a faculty member, Christine Escher, and her student Chung-Ping, concerning their current work in discrete Morse theory |
| Year(s) Of Engagement Activity | 2020 |
| URL | https://math.oregonstate.edu/events-calendar/month/2021-01 |
| Description | Heather Harrington - Applied Algebra and Geometry Glasgow 8th Meeting |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Study participants or study members |
| Results and Impact | Heather contributes time to this research network brings together UK academics who are interested in applications of algebra and geometry, and related algebraically-minded fields, be it commutative algebra, representation theory, group theory, process algebras, as well as algebraic geometry, category theory, and algebraic topology. The scope extends to computational algebra for applications including data-science, biology, medicine, engineering, physics, etc. |
| Year(s) Of Engagement Activity | 2019 |
| URL | https://sites.google.com/view/appliedalgebraandgeometry/home/8th-meeting-glasgow |
| Description | Heather Harrington - Harvard CMSA Colloquium & Workshop on Dynamics, Randomness, and Control in Molecular and Cellular Networks |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Study participants or study members |
| Results and Impact | TALK TITLE: Algebra, Geometry and Topology of ERK Enzyme Kinetics ABSTRACT: In this talk I will analyse ERK time course data by developing mathematical models of enzyme kinetics. I will present how we can use differential algebra and geometry for model identifiability and topological data analysis to study these the wild type dynamics of ERK and ERK mutants. This work is joint with Lewis Marsh, Emilie Dufresne, Helen Byrne and Stanislav Shvartsman. |
| Year(s) Of Engagement Activity | 2019 |
| URL | https://cmsa.fas.harvard.edu/dynamics-and-randomness/ |
| Description | Heather Harrington - ICIAM Mini-symposium on Higher-order Networks, Valencia |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Study participants or study members |
| Results and Impact | TITLE: Topological data analysis for investigation of dynamics and biological networks ABSTRACT: Persistent homology (PH) is a technique in topological data analysis that allows one to examine features in data across multiple scales in a robust and mathematically principled manner, and it is being applied to an increasingly diverse set of applications. We investigate applications of PH to dynamic biological networks. 1 |
| Year(s) Of Engagement Activity | 2019 |
| URL | https://iciam2019.org/images/site/news/ICIAM2019_PROGRAM_ABSTRACTS_BOOK.pdf |
| Description | Heather Harrington - QMUL Women in Maths |
| Form Of Engagement Activity | A formal working group, expert panel or dialogue |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Postgraduate students |
| Results and Impact | Engaged with students interested in maths |
| Year(s) Of Engagement Activity | 2019 |
| URL | https://doctoralcollege.wordpress.com/2019/03/11/women-in-mathematics-2019-where-could-maths-take-yo... |
| Description | Heather Harrington - SIAM Applied Algebraic Geometry, Bern |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Study participants or study members |
| Results and Impact | I was a member of the Programming Committee for the event. I also gave several talks and chaired several sessions. TALK 1: Algebraic geometry in topological data analysis - with Parker Edwards, Emilie Dufresne, Jonathan D. Hauenstein. TALK 1 ABSTRACT: I will discuss an adaptive algorithm for finding provably dense samples of points on a real algebraic variety given the variety's defining polynomials as input. Our algorithm utilizes methods from numerical algebraic geometry to give formal guarantees about the density of the sampling and it also employs geometric heuristics to reduce the size of the sample. As persistent homology methods consume significant computational resources that scale poorly in the number of sample points, our sampling minimization makes applying these methods more feasible. I will also present results of applying persistent homology to point samples generated by an implementation of the algorithm. CHAIR 1 TITLE: Algebraic geometry, data science and fundamental physics. - with Yang-Hui He, Fabian Ruehle. CHAIR 1 ABSTRACT: There has been an increasing interaction between computational algebraic geometry, data science and fundamental theoretical physics. This is rooted in the tradition that the 2 pillars of theoretical physics- general relativity and the standard model of particle physics, as well as their best candiate unified theory of superstrings - are physical realizations of the study of gauge connections and Riemannian metrics on manifolds. In the last couple of years, problems such as mapping the Calabi-Yau landscape, translating problems in particle theory to precise problems in algebraic and differential geometry, using the latest techniques in machine-learning, etc., have taken off in the theoretical physics community. CHAIR 2&3 TITLE: Geometry and topology in applications - with Jacek Brodzki. Part 1 & 2 CHAIR 2 ABSTRACT for Parts 1 & 2: This symposium will bring together leading practitioners, mid-carreer scientists as well as PhD students and postdoctoral fellows who are interested in the theory and practice of the applications of geometry and topology in real life problems. The spectrum of possible applications is very wide, and covers the sciences, biology, medicine, materials science, and many others. The talks will address the theoretical foundations of the methodology as well as the state of the art of geometric and topological modelling. Impact reported is not listed: As programme committee, I saw the major advances in applied algebra and topology. |
| Year(s) Of Engagement Activity | 2019,2020 |
| URL | https://mathsites.unibe.ch/siamag19/ |
| Description | Heather Harrington - SIAM Conference on Applications of Dynamical Systems - MS87 Topological Data Analysis and Applications in Dynamical Systems - Part I of II |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Study participants or study members |
| Results and Impact | TITLE: Topological Data Analysis for Investigation of Dynamics and Biological Networks. ABSTRACT: Topological Data Analysis for Investigation of Dynamics and Biological Networks Persistent homology (PH) is a technique in topological data analysis that allows one to examine features in data across multiple scales in a robust and mathematically principled manner, and it is being applied to an increasingly diverse set of applications. We investigate applications of PH to dynamic biological networks. |
| Year(s) Of Engagement Activity | 2020 |
| URL | https://www.siam.org/conferences/cm/program/program-and-abstracts/ds19-program-abstracts |
| Description | Heather Harrington - SIAM Keynote Workshop on Network Science: Topological Data Analysis for Investigating Dynamics on and of Biological Networks |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Study participants or study members |
| Results and Impact | Keynote lecture |
| Year(s) Of Engagement Activity | 2019 |
| Description | Heather Harrington - Sheffield Applied Math Colloquium |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Postgraduate students |
| Results and Impact | TITLE: Comparing models and biological data using computational algebra and topology ABSTRACT: Many biological problems, such as tumor-induced angiogenesis (the growth of blood vessels to provide nutrients to a tumor), or signaling pathways involved in the dysfunction of cancer (sets of molecules that interact that turn genes on/off and ultimately determine whether a cell lives or dies), can be modeled using differential equations. There are many challenges with analyzing these types of mathematical models, for example, rate constants, often referred to as parameter values, are difficult to measure or estimate from available data. I will present mathematical methods we have developed to enable us to compare mathematical models with experimental data. Depending on the type of data available, and the type of model constructed, we have combined techniques from computational algebraic geometry and topology, with statistics, networks and optimization to compare and classify models without necessarily estimating parameters. Specifically, I will introduce our methods that use computational algebraic geometry (e.g., Gröbner bases) and computational algebraic topology (e.g., persistent homology). I will present applications of our methodology on datasets involving cancer. Time permitting, I will conclude with our current work for analyzing spatio-temporal datasets with multiple parameters using computational algebraic topology. Mathematically, this is studying a module over a multivariate polynomial ring, and finding discriminating and computable invariants. |
| Year(s) Of Engagement Activity | 2019 |
| URL | http://maths.dept.shef.ac.uk/maths/sem_history_2019.html |
| Description | IBIN/3DbioNet Meeting, London (Helen Byrne) |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Conducted the workshop, 'Unravelling biological complexity with mathematical modelling' |
| Year(s) Of Engagement Activity | 2020 |
| URL | https://3dbionet.org/2019/11/26/full-agenda-for-upcoming-joint-ibin-3dbionet-meeting/ |
| Description | IBM Workshop, Oxford (Heather Harrington) |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Study participants or study members |
| Results and Impact | Developed experimental collaborations with Joe Howard and Sharad Ramanathan |
| Year(s) Of Engagement Activity | 2019 |
| Description | Invited Lecture at Conference: 10 years SYM Copenhagen (U Tillmann) |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Conference talk -- communication and dissemination of research |
| Year(s) Of Engagement Activity | 2019 |
| URL | https://www.math.ku.dk/english/research/conferences/2019/sym-10-year-anniversary/ |
| Description | Invited lecture: National Academy of Montenegro 29 October 2019 (U Tillmann) |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Professional Practitioners |
| Results and Impact | Invited talk to general audience of academy scientists |
| Year(s) Of Engagement Activity | 2019 |
| Description | Invited plenary talk: Equivariant Topology and Derived Algebra, Trondheim (U Tillmann) |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Plenary talk for large research conference. |
| Year(s) Of Engagement Activity | 2019 |
| URL | https://www.commalg.org/2019/07/29/equivariant-topology-and-derived-algebra-in-honor-of-john-greenle... |
| Description | Joint Mathematics Meeting - AMS Special Session on Topological Data Analysis: Theory and Applications (Heather Harrington) |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Study participants or study members |
| Results and Impact | Invited speaker in the special session on Topological Data Analysis |
| Year(s) Of Engagement Activity | 2019 |
| URL | http://jointmathematicsmeetings.org/meetings/national/jmm2019/2217_programindex |
| Description | Kelly Spendlove - Second Symposium on Machine Learning and Dynamical Systems, Fields Institute |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Gave short online talk at aforementioned symposium |
| Year(s) Of Engagement Activity | 2020 |
| Description | Lewis Marsh - Applied Algebraic Topology Network |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Gave online talk to research network (primarily academics) |
| Year(s) Of Engagement Activity | 2020 |
| URL | https://www.youtube.com/watch?v=FYdGWhk30qI&t=6s |
| Description | Lewis Marsh - Second Symposium on Machine Learning and Dynamical Systems, Fields Institute |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Gave short online talk at aforementioned symposium |
| Year(s) Of Engagement Activity | 2020 |
| Description | MIT talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Postgraduate students |
| Results and Impact | Talk at MIT seminar with special focus on graduate students |
| Year(s) Of Engagement Activity | 2020 |
| URL | https://stat.mit.edu/calendar/reinert/ |
| Description | Marsh - Talk at SIAM LS 2022 |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Postgraduate students |
| Results and Impact | Talk at Mini symposium on TDA of Life Sciences |
| Year(s) Of Engagement Activity | 2022 |
| Description | Maths in Action (Warwick) -- day of talks and activities for sixth formers (U Tillmann) |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Regional |
| Primary Audience | Schools |
| Results and Impact | I gave a lecture on topology and data science. |
| Year(s) Of Engagement Activity | 2018 |
| URL | https://www.thetrainingpartnership.org.uk/study-day/maths-in-action-14-11-2018/ |
| Description | McDonald - College seminar talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Postgraduate students |
| Results and Impact | Lincoln Leads 2023 |
| Year(s) Of Engagement Activity | 2023 |
| URL | https://lincoln.ox.ac.uk/events/lincoln-leads-2023 |
| Description | Meeting and Conference of the Society for Mathematical Biology, Montreal (Helen Byrne) |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Invited plenary title: Coming full circle in cancer modelling? |
| Year(s) Of Engagement Activity | 2019 |
| URL | http://www.smb2019.org/ |
| Description | Melbourne talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Postgraduate students |
| Results and Impact | talk in Melbourne with special focus on graduate students |
| Year(s) Of Engagement Activity | 2020 |
| URL | https://events.unimelb.edu.au/mathematics-and-statistics/event/8667-gesine-reinert-steins-method-for... |
| Description | Modelling Challenges in Cancer and Immunology, Kings College (Helen Byrne) |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | TITLE: Approaches to modelling tumour-immune interactions. ABSTRACT: While the presence of immune cells within solid tumours was initially viewed positively, as the host fighting to rid itself of a foreign body, we now know that the tumour can manipulate immune cells so that they promote, rather than inhibit, tumour growth. Immunotherapy aims to correct for this by boosting and/or restoring the normal function of the immune system. Immunotherapy has delivered some extremely promising results. However the complexity of the tumour-immune interactions means that it can be difficult to understand why one patient responds well to immunotherapy while another does not. In this talk, we will show how mathematical modelling can contribute to resolving this issue and present recent results which illustrate the complementary insight that different modelling approaches can deliver. |
| Year(s) Of Engagement Activity | 2019 |
| URL | https://mils.ghost.io/events/ |
| Description | Network seminar talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Regional |
| Primary Audience | Professional Practitioners |
| Results and Impact | talk in network seminar |
| Year(s) Of Engagement Activity | 2021 |
| URL | https://www.maths.ox.ac.uk/events/past/3329/ |
| Description | Spires, Mathematical Institute, Oxford (All Members of TDA attended) |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | The purpose of this conference is to bring together international researchers working in topological data analysis and to discuss new developments and challenges that will shape the research in the future. |
| Year(s) Of Engagement Activity | 2019 |
| URL | https://people.maths.ox.ac.uk/tillmann/TDA2019.html |
| Description | Stolz - Conference Talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Talk at ECMTB mini symposium "Recent Advances in Mathematical Oncology" |
| Year(s) Of Engagement Activity | 2022 |
| URL | https://ecmtb2022.org/ |
| Description | Stolz - Foundation Lecture |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Foundation lecturer at ICLR Workshop on Geometrical and Topological Representation Learning |
| Year(s) Of Engagement Activity | 2022 |
| URL | https://gt-rl.github.io/ |
| Description | Stolz - MPLS Research Highlight Talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Professional Practitioners |
| Results and Impact | Theory across biology workshop, University of Bern |
| Year(s) Of Engagement Activity | 2022 |
| Description | Stolz - Panel Speaker |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Panel speaker at ICLR Workshop on Geometrical and Topological Representation Learning |
| Year(s) Of Engagement Activity | 2022 |
| URL | https://gt-rl.github.io/ |
| Description | Stolz - Seminar Talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Professional Practitioners |
| Results and Impact | Mathematics Colloquium, University of Bern |
| Year(s) Of Engagement Activity | 2022 |
| Description | Stolz - Seminar Talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Professional Practitioners |
| Results and Impact | Mathematics Colloquium, University of Fribourg |
| Year(s) Of Engagement Activity | 2022 |
| Description | Stolz - Seminar Talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Professional Practitioners |
| Results and Impact | Applied and Computational Mathematics Seminar, University of Edinburgh |
| Year(s) Of Engagement Activity | 2022 |
| Description | Stolz - Seminar Talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Professional Practitioners |
| Results and Impact | EPFL Signal Processing Lab Group Meeting |
| Year(s) Of Engagement Activity | 2022 |
| Description | Stolz - Seminar Talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Professional Practitioners |
| Results and Impact | Data Science Seminar, University of Utah |
| Year(s) Of Engagement Activity | 2022 |
| Description | Stolz - Seminar Talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Living Matter Physics Seminar, Max Planck Institute for Dynamics and Self-Organisation, University of Göttingen |
| Year(s) Of Engagement Activity | 2022 |
| Description | Stolz - Seminar Talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Professional Practitioners |
| Results and Impact | Super Sandwich Seminar Series, SV EPFL |
| Year(s) Of Engagement Activity | 2022 |
| Description | Stolz - Seminar Talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Professional Practitioners |
| Results and Impact | Data Science for Mental Health Seminar, The Alan Turing Institute |
| Year(s) Of Engagement Activity | 2022 |
| Description | Stolz - Seminar Talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Professional Practitioners |
| Results and Impact | Mathematics Seminar, University of Leicester |
| Year(s) Of Engagement Activity | 2022 |
| Description | Stolz - Workshop Talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Professional Practitioners |
| Results and Impact | Theory across biology workshop, University of Bern |
| Year(s) Of Engagement Activity | 2023 |
| Description | Stolz - Workshop talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Talk at Workshop on Complex Dynamical Networks, Stockholm |
| Year(s) Of Engagement Activity | 2022 |
| URL | https://indico.fysik.su.se/event/7755/ |
| Description | Symposium on Machine Learning and Dynamical Systems, Imperial College (Heather Harrington) |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Study participants or study members |
| Results and Impact | TITLE: Topological data analysis for investigation of dynamics and networks ABSTRACT: Persistent homology (PH) is a technique in topological data analysis that allows one to examine features in data across multiple scales in a robust and mathematically principled manner, and it is being applied to an increasingly diverse set of applications. We investigate applications of PH to dynamics and networks, focusing on two settings: dynamics on a network and dynamics of a network. Dynamics on a network: a contagion spreading on a network is influenced by the spatial embeddedness of the network. In modern day, contagions can spread as a wave and through the appearance of new clusters via long-range edges, such as international flights. We study contagions by constructing 'contagion maps' that use multiple contagions on a network to map the nodes as a point cloud. By analyzing the topology, geometry, and dimensionality of manifold structure in such point clouds, we reveal insights to aid in the modelling, forecast, and control of spreading processes. Dynamics of a network: one can construct static graph snapshots to represent a network that changes in time (e.g. edges are added/removed). We show that partitionings of a network of random-graph ensembles into snapshots using existing methods often lack meaningful temporal structure that corresponds to features of the underlying system. We apply persistent homology to track the topology of a network over time and distinguish important temporal features from trivial ones. We define two types of topological spaces derived from temporal networks and use persistent homology to generate a temporal profile for a network. We show that the methods we apply from computational topology can distinguish temporal distributions and provide a high-level summary of temporal structure. Together, these two investigations illustrate that persistent homology can be very illuminating in the study of networks and their applications. |
| Year(s) Of Engagement Activity | 2019 |
| URL | https://sites.google.com/site/boumedienehamzi/symposium-on-machine-learning-for-dynamical-systems_20... |
| Description | TDA talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Regional |
| Primary Audience | Postgraduate students |
| Results and Impact | This was a talk on credit risk using ideas from TDA and network analysis. It is based on a collaboration with Santander UK. |
| Year(s) Of Engagement Activity | 2021 |
| Description | Ulrike Tillmann - Colloquium: Indian Statistical Institute, Bangalore. |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Online talk |
| Year(s) Of Engagement Activity | 2020 |
| Description | Ulrike Tillmann - Financial Conduct Authority |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Regional |
| Primary Audience | Professional Practitioners |
| Results and Impact | Introduction to TDA and use for financial data. |
| Year(s) Of Engagement Activity | 2021 |
| Description | Ulrike Tillmann - LMS-IMA Joint Meeting: Topological methods in Data Science |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Online talk |
| Year(s) Of Engagement Activity | 2020 |
| Description | Urbancic - TDA Meeting talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Professional Practitioners |
| Results and Impact | Research talk, UK Centre for Topological Data Analysis Group Meeting, Oxford University, UK. |
| Year(s) Of Engagement Activity | 2022 |
| URL | https://www.maths.ox.ac.uk/node/61267 |
| Description | Vitaliy Kurlin - MACSMIN 2020 |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | An online talk |
| Year(s) Of Engagement Activity | 2020 |
| URL | http://kurlin.org/macsmin.php#2020 |
| Description | Vitaliy Kurlin - SIAM mini-symposium Topological Image Analysis |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Online talk |
| Year(s) Of Engagement Activity | 2020 |
| Description | Vitaliy Kurlin - Second Symposium on Machine Learning and Dynamical Systems |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | An online talk |
| Year(s) Of Engagement Activity | 2020 |
| Description | Wharton talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Postgraduate students |
| Results and Impact | Talk at Wharton Statistics Seminar Stein's method for exponential random graph models and kernelized goodness of fit |
| Year(s) Of Engagement Activity | 2021 |
| URL | https://statistics.wharton.upenn.edu/research/seminars-conferences/ |
| Description | Women in Data Science (U Tillmann) |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Regional |
| Primary Audience | Other audiences |
| Results and Impact | Conference for women in Data Science organised by the Alan Turing Institute. |
| Year(s) Of Engagement Activity | 2018 |
| URL | https://www.turing.ac.uk/events/women-data-science-conference |
| Description | Ximena Fernández - Applied Algebra and Geometry in the UK 11th meeting |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Online talk, presenting resent research on Dendity-based distance learning with application in TDA |
| Year(s) Of Engagement Activity | 2020 |
| URL | https://sites.google.com/view/appliedalgebraandgeometry |
| Description | Ximena Fernández - Buenos Aires Algebraic Topology Seminar |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Online talk, presenting resent research on Density-based distance learning with application in TDA. |
| Year(s) Of Engagement Activity | 2020 |
| Description | Ximena Fernández - V Young Topologists Meeting (Colombia) |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Postgraduate students |
| Results and Impact | Invited conference, outreach talk about manifold learning to motivate recent graduate students about research in Computational Topology |
| Year(s) Of Engagement Activity | 2021 |
| URL | https://semlotoud2.wixsite.com/top5/bienvenido |
| Description | Yim - Conference talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Postgraduate students |
| Results and Impact | Contributed Talk at ATMCS10 |
| Year(s) Of Engagement Activity | 2022 |
| Description | Yim - Mathematical Modelling Camp Tutor |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Postgraduate students |
| Results and Impact | UK Graduate Modelling Camp 2022 |
| Year(s) Of Engagement Activity | 2022 |
| URL | https://gateway.newton.ac.uk/sites/default/files/asset/doc/2207/Challenge%20Briefing%20Document.pdf |
| Description | Yim - Seminar talk |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Postgraduate students |
| Results and Impact | Random Topology Seminar at MPI Leipzig |
| Year(s) Of Engagement Activity | 2022 |