Επίκουρος Καθηγητής
X2-307δ
Ανόργανης και Αναλυτικής Χημείας
ΧΗΜΕΙΑΣ
Πανεπιστήμιο Ιωαννίνων
e-mail: ptakis@uoi.gr
Τηλέφωνο: +30 2651008348
Fax:
https://scholar.google.gr/citations?hl=el&user=MXGDjlAAAAAJ&view_op=list_works&sortby=pubdate https://www.imperial.ac.uk/people/p.takis
(Bio-)Analytical Chemistry
• Complex mixtures analysis with focus on biological matrices (e.g. blood plasma/serum, urine, fecal material, CSF, pancreatic fluid etc.) by NMR
spectroscopy
• Development of NMR methods for complex mixtures analysis
• Implementation of NMR spectroscopy in clinics: diseases diagnosis/prognosis (focusing on Gastrointestinal and cancer diseases/symptoms
fingerprint and biomarkers detection)
• Developments of computational and experimental methods for NMR based metabolomics
• AI (artificial inteligence) and ML (machine learning) algorithms application in -omics
• Development of bio-, chem-informatical tools for -omics (mostly metabolomics), regarding the statistical analysis, quantification of
metabolites as well as their identification in complex bio-fluids.
Other Current Affiliation
Honorary Research Associate
Faculty of Medicine, Section of Bioanalytical Chemistry
Department of Metabolism, Digestion and Reproduction
IMPERIAL COLLEGE LONDON
https://www.imperial.ac.uk/people/p.takis
Previous Positions/Training
- 2019-2023: Research associate, Imperial College of London, Faculty of Medicine, Department of Metabolism, Digestion and
Reproduction, Section of Bioanalytical Chemistry – National
Phenome Centre, London, Hammersmith Campus, IRDB
Building, London, W12 0NN, UK. - 2014-03/2019: Postdoctoral Researcher, CERM (http://www.cerm.unifi.it ) – GIOTTO Biotech S.r.l. (http://www.giottobiotech.com/company- overview/), Via Madonna del Piano 6, I 50019, Sesto Fiorentino, Firenze, Italy.
Research outputs 2024
1. Michael, B.D., et al. Author Correction: Para-infectious brain injury in COVID-19 persists at follow-up despite attenuated cytokine and autoantibody responses (Nature Communications, (2024), 14, 1, (8487), 10.1038/s41467-023-42320-4)
2. Takis, P.G.*, Vučković, I., Kowalka, A.M., Tan, T., Šuvakov, M., Meloche, R., Lanza, I.R., Macura, S.
Toward Absolute Quantification of Soluble Proteins via Proton Nuclear Magnetic Resonance Spectroscopy: Total Protein Concentration in Blood Plasma (2024) Analytical Chemistry, 96 (41), pp. 16162-16169.
DOI: 10.1021/acs.analchem.4c02711
3. Cochran, D., Takis, P.G.*, Alexander, J.L., Mullish, B.H., Powell, N., Marchesi, J.R., Powers, R.
Evaluating protocols for reproducible targeted metabolomics by NMR (2024) Analyst, 149 (22), pp. 5423-5432.
DOI: 10.1039/d4an01015a
4. Sidhu, J.K., et al., Delayed Mucosal Antiviral Responses Despite Robust Peripheral Inflammation in Fatal COVID-19 (2024) Journal of Infectious Diseases, 230 (1), pp. e17-e29.
DOI: 10.1093/infdis/jiad590
5. Liew, F., et al., Large-scale phenotyping of patients with long COVID post-hospitalization reveals mechanistic subtypes of disease (2024) Nature Immunology, 25 (4), pp. 607-621.
DOI: 10.1038/s41590-024-01778-0
6. Gouveia, G.J., Head, T., Cheng, L.L., Clendinen, C.S., Cort, J.R., Du, X., Edison, A.S., Fleischer, C.C., Hoch, J., Mercaldo, N., Pathmasiri, W., Raftery, D., Schock, T.B., Sumner, L.W., Takis, P.G., Copié, V., Eghbalnia, H.R., Powers, R. Perspective: use and reuse of NMR-based metabolomics data: what works and what remains challenging (2024) Metabolomics, 20 (2), art. no. 41, .
DOI: 10.1007/s11306-024-02090-6
7. Powers, R., Andersson, E.R., Bayless, A.L., Brua, R.B., Chang, M.C., Cheng, L.L., Clendinen, C.S., Cochran, D., Copié, V., Cort, J.R., Crook, A.A., Eghbalnia, H.R., Giacalone, A., Gouveia, G.J., Hoch, J.C., Jeppesen, M.J., Maroli, A.S., Merritt, M.E., Pathmasiri, W., Roth, H.E., Rushin, A., Sakallioglu, I.T., Sarma, S., Schock, T.B., Sumner, L.W., Takis, P., Uchimiya, M., Wishart, D.S., Best practices in NMR metabolomics: Current state (2024) TrAC – Trends in Analytical Chemistry, 171, art. no. 117478, .
DOI: 10.1016/j.trac.2023.117478
8. Routy, B., Lenehan, J.G., Miller, W.H., Jr, Jamal, R., Messaoudene, M., Daisley, B.A., Hes, C., Al, K.F., Martinez-Gili, L., Punčochář, M., Ernst, S., Logan, D., Belanger, K., Esfahani, K., Richard, C., Ninkov, M., Piccinno, G., Armanini, F., Pinto, F., Krishnamoorthy, M., Figueredo, R., Thebault, P., Takis, P., Magrill, J., Ramsay, L., Derosa, L., Marchesi, J.R., Parvathy, S.N., Elkrief, A., Watson, I.R., Lapointe, R., Segata, N., Haeryfar, S.M.M., Mullish, B.H., Silverman, M.S., Burton, J.P., Maleki Vareki, S.
Correction to: Fecal microbiota transplantation plus anti-PD-1 immunotherapy in advanced melanoma: a phase I trial (Nature Medicine, (2023), 29, 8, (2121-2132), 10.1038/s41591-023-02453-x) (2024) Nature Medicine, 30 (2), p. 604.
DOI: 10.1038/s41591-023-02650-8
9. Forlano, R., Martinez-Gili, L., Takis, P., Miguens-Blanco, J., Liu, T., Triantafyllou, E., Skinner, C., Loomba, R., Thursz, M., Marchesi, J.R., Mullish, B.H., Manousou, P.
Disruption of gut barrier integrity and host–microbiome interactions underlie MASLD severity in patients with type-2 diabetes mellitus (2024) Gut Microbes, 16 (1), art. no. 2304157, .
DOI: 10.1080/19490976.2024.2304157
Research outputs 2023 and before
· Selected Patents
1. U.S. Patent : 20170356865 (assignee Bruker Biospin):
Inventors: Takis, P. G. and Luchinat, C.: “METHOD FOR PREDICTING CHEMICAL SHIFT VALUES OF NMR SPIN SYSTEMS IN A SAMPLE OF A FLUID CLASS, IN PARTICULAR IN A SAMPLE OF A BIOFLUID”, publication date: 12/14/2017, (http://www.freepatentsonline.com/y2017/0356865.html)
2. U.K. – U.S. – E.P. Patents (assignee Imperial College London): Inventors: Takis, P. G., and Matthew R. Lewis: “PROCESSING 1H-NMR SPECTRAL DATA” , UK Patent Number: WO2021219971, (2021-2022),
(https://worldwide.espacenet.com/publicationDetails/biblio?CC=WO&NR=2021219971&%20KC=&FT=E&locale=en_EP)
· Selected Publications
1. Takis, P.G.,* et al., (2023) ‘Mapping of 1H NMR chemical shifts relationship with chemical similarities for the acceleration of metabolic profiling – Application on blood products’, Magnetic Resonance in Chemistry, 61, pp. 759-769
https://doi.org/10.1002/mrc.5392
2. Stebbing, J. , Takis, P.G.* , et. al., (2023) ‘Comparison of phenomics and cfDNA in a large breast screening population: the Breast Screening and Monitoring Study (BSMS)’, Oncogene, 42, pp. 825-832.
https://doi.org/10.1038/s41388-023-02591-z
3. Harvey, N., Takis, P.G., et al. (2023) ‘Optimization of diffusion-ordered NMR spectroscopy experiments for high-throughput automation in human metabolic phenotyping’, Analytical Chemistry, 95, pp. 3147-3152.
https://doi.org/10.1021/acs.analchem.2c04066
4. Takis, P.G.*, et al (2022). ‘NMRpQuant, an automated software for large scale urinary total protein quantification by one-dimensional 1H NMR profiles’, Bioinformatics, 38(15), pp. 4437-4439.
https://doi.org/10.1093/bioinformatics/btac502
5. Correia, G.D.S.* , Takis, P.G.* , Sands, S. J., Kowalka, A. M., Tan, T., et. al., (2022) ‘1H NMR Signals from Urine Excreted Protein Are a Source of Bias in Probabilistic Quotient Normalization’, Analytical Chemistry, 94(19), pp 6919-6923.
https://doi.org/10.1021/acs.analchem.2c00466
6. Takis, P.G.*, Jiménez, B., Al-Saffar, N.M.S., Harvey, N., Chekmeneva, E., Misra, S., Lewis, M.R., (2021) ‘A Computationally Lightweight Algorithm for Deriving Reliable Metabolite Panel Measurements from 1D 1H NMR’, Analytical Chemistry, 93(12), pp. 4995–5000.
https://doi.org/10.1021/acs.analchem.1c00113
7. Takis, P.G.*, Jiménez, B., Sands, C.J., Chekmeneva, E., Lewis, M.R., (2020) ‘SMolESY: An efficient and quantitative alternative to on-instrument macromolecular 1H-NMR signal suppression’, Chemical Science, 11(23) pp. 6000 – 60011.
https://doi.org/10.1039/D0SC01421D
8. Takis, P. G., Ghini, V., Tenori, L., Turano, P., Luchinat, C*. (2018) ‘Uniqueness of the NMR approach to metabolomics’, Trends in Analytical Chemistry (TrAC).
https://doi.org/10.1016/j.trac.2018.10.036
9. Takis, P. G., Schäfer, H., Spraul, M., Luchinat, C. (2017) ‘Deconvoluting interrelationships between chemical shifts and concentrations in complex mixtures: a powerful biofluid analysis tool’, Nature Communications, 8, pp. 1–11.
https://doi.org/10.1038/s41467-017-01587-0
*Corresponding Author
Complete list of publications see here: https://www.scopus.com/authid/detail.uri?authorId=55339072600
· Chemometrics/cheminformatics software
See my github profile: https://github.com/pantakis
· Editorials
1. Invited editor for the journal: Frontiers in Molecular Biosciences (I.F. = 5.23), for the topic: ‘Pharmacometabolomics: Biomarker Discovery, Precision Medicine, Technical Advances, Perspectives and Future Applications in Respiratory Diseases’:
(https://www.frontiersin.org/research-topics/32497/pharmacometabolomics-biomarker-discovery-precision-medicine-technical-advances-perspectives-and-future-applications-in-respiratory-diseases)
2. Invited editor for the journal: Metabolites (I.F. = 5.58), for the topic: ‘Innovation and Development in NMR-Based Metabolomics for Disease Diagnostics’:
https://www.mdpi.com/journal/metabolites/special_issues/NMR_Metabolomics_Diagnostics
· Selected Conferences as Speaker
1. 01–06 May 2022, Dagstuhl-Seminar 22181: Computational Metabolomics: From Spectra to Knowledge.
Invited session leader for the NMR in metabolomics/analytical chemistry: (https://www.dagstuhl.de/no_cache/en/program/calendar/partlist/?semnr=22181&SUOG=)
2. Metabolomics 2022: The 18th Annual Conference of the Metabolomics Society in Valencia, Spain on June 19-23, 2022.
Title of the Talk: ‘Adding clinical value to the 1H NMR metabolomics data by new spectral processing algorithms/software’.
3. Metabolomics 2022: The 18th Annual Conference of the Metabolomics Society: WORKSHOP: Frontiers in NMR Metabolomics
-NMR metabolomics overview (high fields): (Panteleimon Takis, Imperial College London & Leo Cheng, Massachusetts General Hospital & Harvard Medical School)
-NMR metabolomics at low fields: (Stefan Gloeggler, Max Planck Institute)
-NMR metabolomics in medicine (cancer and other diseases): (Dr. Julian Griffin, University of Aberdeen)
-Integration of NMR and MS metabolomics data: (Daniel Raftery, University of Washington)
-QA/QC Issues seen in current publications: (Robert Powers, University of Nebraska-Lincoln)
-Metabolomics data analyses and presentations: (Nathaniel Mercaldo, Massachusetts General Hospital & Harvard Medical School), Spain on June 19-23, 2022.
4. 16th Annual Conference of the Metabolomics Society (Online), (27-29/10/2020). Speaker : “In silico acceleration-improvement of NMR-based metabolomics pipeline for small molecules profiling and targeted analysis for matrices rich in macromolecules”.
5. 59th Experimental Nuclear Magnetic Resonance Conference (ENC), Orlando, Florida, USA (29/04/2018–04/05/2018). Speaker (at metabolomics session after reviewing process): “Unravelling NMR Visible and Invisible Components of Urine by a Powerful Analysis Tool”
ΣΗΜΕΙΩΣΕΙΣ