Clinical Infrared and Raman Spectroscopy Network (CLIRSPEC)

Lead Research Organisation: University of Manchester
Department Name: Chem Eng and Analytical Science

Abstract

A major part of the diagnosis of any disease but particularly various forms of cancer, is obtained though a biopsy. This involves removing a small sample of tissue, or a few cells, from the patient. These samples, either tissue or cells are then examined by a pathologist looking down an optical microscope. In most cases the sample is stained with a combination of dyes to help gain some contrast. In most cases, based upon visual inspection of the sample a diagnosis is made. This process if far from ideal since it relies on the expertise of the clinician concerned as is subject to intra in inter observer error. Recently a number of proof of concept studies have shown that molecular spectroscopic techniques such as infrared and Raman are capable of distinguishing diseased from non diseased cells and tissue based upon the inherent chemistry contained within the cells. The UK is at the forefront of these developments but there are many hurdles that need to be overcome if this technology is to move from the proof of concept stage through the translational stage and into the clinical setting. It is the belief of the academic community that we are much more likely to overcome these hurdles if we pool our resources, bring in both industrial and clinical partners and work on these generic problems together. This application is for funding to support such a network of partners for the next three years.

Planned Impact

One of the key aims of this project is to maximise the impact of current disjointed research in the field of spectral diagnostics and related technologies. The CLIRSPEC network is designed to deliver a step change in the awareness of spectral diagnosis by fellow academics, clinicians, patients industrialists, venture capitalists and policy makers.
At present, the field of spectral diagnosis is still in a dynamic phase with a number of key problems still to be solved, very little in the way of standardisation in either measurement or reporting and with very few clinical trials. Though a concerted approach the CLIRSPEC Network will bring these disparate strands together to bring stability to the field thus creating a more suitable and attractive environment for investment. This will be achieved through the CLIRSPEC network activities. These impact events will enable the academic leaders in the field to engage with instrument manufacturers, medical diagnostic companies and potential investors in order to discuss, not only the current state of the art, but also the potential barriers to market. It is anticipated that the CLIRSPEC network will lead to accelerated development and eventual acceptance of new technology. In the longer term it is expected that spectral diagnostic companies will contribute significantly to wealth creation and increased employment in the sector. Having a supply of well-trained PhD and early career researches in this interdisciplinary field will help facilitate this in the UK and increase the UK competitiveness in this area. In the case of curable diseases where early diagnosis is essential there will be significant long term economic benefits to the development of these rapid, accurate and relatively inexpensive alternatives to current diagnostic methods.
A wide range of people will benefit from the formation and working of the CLIRSPEC network. PhD students will benefit significantly. This is a very multidisciplinary and interdisciplinary research field and very few spectroscopy laboratories have good access to clinicians, statisticians or links to instrument manufacturers. The CLIRSPEC summer school in years two and three of the grant and rolled out as an international summer school at the end of the grant will enable PhD students to get specialist training in the field early in their career. In this way, the new generation of interdisciplinary scientists essential for the development of this field will be produced. The members of the network will benefit from greater sharing of ideas and having access to a wider range of samples and data as well as pooling data. The instrument manufacturers will benefit from having access to the latest research and being able to work with clinicians for an early stage of product development. Ultimately, it is envisaged that patients will benefit once the new technology is introduced to the clinic. In particular, cancer patient and sufferers of other diseases will benefit from reduction stress anxiety through faster testing and reduced waiting times for results.
It is still the case that most clinicians and pathologists are unaware of the research in this field and how both spectral pathology and cytology have the potential to revolutionise the way in which disease is diagnosed. This network grant is intended to help realise this potential by bringing the scientists, engineers and industrialists together. A major vehicle for enhancing our collaboration is the data sharing / data analysis portal. This will enable the net work members to have access to the data analysis tool box that contains the latest algorithms from various groups that represent current best practice or can be used for multi site testing. This type of multicentre activity currently does not exist in this field in the UK. A major part of our exit strategy is that this facility would be rolled out as part of the new society that would eventually give access to all members working in the field.

Organisations

 
Description This Network grant has carried out some key projects involving round robin studies that show how robust infrared diagnosis can be across a number of different platforms in a number of different hospital and university lab based environments.

We have engaged with industry and have held a translation day that was highly successful.

We have established robust data sharing tools.

We have developed IR spectroscopy using glass substrates that offers an alternative solution to the substrate problem

We have increased significantly our interaction with pathologists as evidence by an invited presentation at Digital Pathology Asia
Exploitation Route The setting up of the society means that we can disseminate best practice and other key findings to key stakeholders.
Sectors Healthcare

 
Description The International Society for Clinical Spectroscopy (CLIRSPEC) is a non-profit organisation, constituted in 2015. The Society exists to act as a platform for those individuals, teams and organisations wishing to promote the translation of spectroscopy into the clinical environment, for the general benefit of patients; for example, to improve patient diagnosis and prognosis.The setting up of an international Society has brought the field together and we have a single forum for discussion how the field can move forward. Since being formed the International society has gone from strength to strength and is now a member of Federation of Analytical Chemistry and Spectroscopy Societies (FACSS) . We have run an international summer school every year for postgraduate students to learn more about clinical spectroscopy and this year (2019) we are running our first Asian summer school in Japan.
First Year Of Impact 2015
Sector Healthcare
Impact Types Societal

 
Description Establishment of the International Society for Clinical Spectroscopy
Geographic Reach Multiple continents/international 
Policy Influence Type Implementation circular/rapid advice/letter to e.g. Ministry of Health
URL https://clirspec.org/
 
Description MRC Confidence in Concept
Amount £79,611 (GBP)
Organisation Medical Research Council (MRC) 
Sector Academic/University
Country United Kingdom
Start 08/2016 
End 05/2017
 
Title Community data sharing 
Description • Created a Community on the Zenodo repository platform for data in this field. This promotes data sharing. https://zenodo.org/communities/clirspec/ 
Type Of Material Improvements to research infrastructure 
Year Produced 2016 
Provided To Others? Yes  
Impact Community starting to use this facility 
URL https://zenodo.org/communities/
 
Title File software 
Description • Released software to allow users to read proprietary file formats from infrared instruments and perform statistical analyses in a common methodology: https://doi.org/10.5281/zenodo.57398 and https://doi.org/10.5281/zenodo.399238 
Type Of Material Improvements to research infrastructure 
Year Produced 2015 
Provided To Others? Yes  
Impact Several other groups are now using this software 
URL https://doi.org/10.5281/zenodo.57398
 
Title The use of Glass substrates 
Description Have shown that FTIR analysis of human biopsy samples can be performed on glass substrates, thus greatly reducing the cost of analysis and opening up the ability to screen samples in the clinic. 
Type Of Material Biological samples 
Provided To Others? No  
Impact M. J Pilling, A. Henderson, J. H. Shanks, M. D. Brown, N. W. Clarke and P. Gardner, Infrared Spectral Histopathology Using Haematoxylin and Eosin (H&E) Stained Glass Slides: A major step forward towards clinical translation. Analyst on line Comment on above paper " It might be a bold statement, but this could one of those defining studies that changes the course of FTIR imaging in biomed" Agilent Technologies. 
 
Title Quantum Cascade Laser Spectral Histopathology: Breast Cancer Diagnostics Using High Throughput Chemical Imaging 
Description Fourier transform infrared (FT-IR) microscopy, coupled with machine learning approaches, has been demonstrated to be a powerful technique for identifying abnormalities in human tissue.  The ability to objectively identify the prediseased state, and diagnose cancer with high levels of accuracy, has the potential to revolutionise current histopathological practice.  Despite recent technological advances in FT-IR microscopy, sample throughput and speed of acquisition are key barriers to clinical translation. Wide-field quantum cascade laser (QCL) infrared imaging systems with large focal plane array detectors utilising discrete frequency imaging, have demonstrated that large tissue microarrays (TMA) can be imaged in a matter of minutes.  However this ground breaking technology is still in its infancy and its applicability for routine disease diagnosis is, as yet, unproven. In light of this we report on a large study utilising a breast cancer TMA comprised of 207 different patients.  We show that by using QCL imaging with continuous spectra acquired between 912 and 1800 cm -1, we can accurately differentiate between 4 different histological classes.  We demonstrate that we can discriminate between malignant and non-malignant stroma spectra with high sensitivity (93.56%) and specificity (85.64%) for an independent test set.   Finally, we classify each core in the TMA and achieve high diagnostic accuracy on a patient basis with 100% sensitivity and 86.67% specificity.  The absence of false negatives reported here opens up the possibility of utilising high throughput chemical imaging for cancer screening, thereby reducing pathologist workload and improving patient care. 
Type Of Material Database/Collection of data 
Year Produced 2017 
Provided To Others? Yes  
 
Description Agilent 
Organisation Agilent Technologies
Country United States 
Sector Private 
PI Contribution We have been working with Agilent on a number of projects to speed up data collection. We have provided know-how in data analysis
Collaborator Contribution Agilent have provided many hours of consultation regarding the software.
Impact This paper was ca direct result of our EPSRC Impact Acceleration award. P. Bassan, A. Sachdeva, J. H. Shanks, M. D. Brown, N. W. Clarke, P. Gardner, Automated high-throughput assessment of prostate biopsy tissue using infrared spectroscopic chemical imaging, Proc. SPIE 9041, Medical Imaging 2014: Digital Pathology, 90410D We have also presented at numerous conferences and workshops. High-throughput assessment of biopsy tissue using infrared spectroscopic chemical imaging, Agilent FTIR imaging workshop, Montreal, Canada, 26 June 2016 Rapid assessment of breast and prostate biopsy tissue using infrared spectroscopic chemical imaging. Agilent FTIR imaging workshop, Krakow, Poland 17th August 2014 The use of infrared imaging in urological pathology. Agilent International Imaging Workshop 2012, 11th November, Chiang Mai, Thailand
Start Year 2010
 
Description Hugh Byrne Dublin Institute of Technology 
Organisation Dublin Institute of Technology
Country Ireland 
Sector Academic/University 
PI Contribution We have developed a strong collaboration involving exchange of students and joint publications. We focus mainly on infrared imaging
Collaborator Contribution The Dublin group are experts in Raman imaging and provide access to state of the art Raman systems. Most importantly both groups have a keen interest in Data analysis.
Impact P. Bassan, H. J. Byrne, F. Bonnier, J. Lee, P. Dumas, P. Gardner, Resonant Mie scattering in Infrared spectroscopy of biological materials - understanding the "dispersion artefact" Analyst, 134 (2009), 1586-1593 P. Bassan, H. J. Byrne, J. Lee, F. Bonnier, C. Clarke, P. Dumas, E. Gazi, M. D. Brown, N. W. Clarke, P. Gardner., Reflection contributions to dispersion artefact in FTIR spectra of cellular samples, Analyst, 134, (2009), 1171-1175 P. Bassan, A. Kohler, H. Martens, J. Lee, H. J. Byrne, P. Dumas, E. Gazi, M. Brown, N. Clarke, P. Gardner, Resonant Mie Scattering (RMieS) Correction of Infrared Spectra from Highly Scattering Biological Samples, Analyst, 135 (2010) 268-277 Multi disciplinary, Physics, Chemistry, chemical Engineering, Medical.
Start Year 2008
 
Description Magdalena Szczerbowska-Boruchowska 
Organisation AGH University of Science and Technology
Department Faculty of Physics and Applied Computer Science
Country Poland 
Sector Academic/University 
PI Contribution We have had an exchange PhD student working in our lab for 6 months
Collaborator Contribution They have sent an exchange student, Artur Surowka, to our lab
Impact Joint Publication A. D. Surowka, M. Pilling, Alex Henderson, H. Boutin, L. Christie, M. Szczerbowska-Boruchowska, P. Gardner, FTIR imaging of the molecular burden around Aß deposits in an early-stage 3-Tg-APP-PSP1-TAU mouse model of Alzheimer's, Analyst, 2017, 142, 156 - 168 Plus several posters presented at international conferences
Start Year 2014
 
Description Matt Baker Strathclyde 
Organisation University of Strathclyde
Department Department of Pure and Applied Chemistry
Country United Kingdom 
Sector Academic/University 
PI Contribution Exchange visits. We have hosted Matt Baker and his students. This has resulted in joint publications.
Collaborator Contribution We have had many meeting is Strathclyde and have exchanged ideas.
Impact M. J Baker, J. Trevisan, P. Bassan, R. Bhargava, H. Butler, K. M. Dorling, P. R Fielden, S.W. Fogarty, N.J. Fullwood, K. Heys, C. Hughes, P. Lasch, P. L. Martin-Hirsch, B. Obinaju, G. D Sockalingum, J. Sulé-Suso, R. Strong, M. J Walsh, B. R Wood, P. Gardner & F. L Martin, Using Fourier transform IR spectroscopy to analyze biological materials, Nature Protocols, 2014, 9, 1771-1791
Start Year 2013
 
Description Nick Stone Exeter 
Organisation University of Exeter
Department Department of Economics
Country United Kingdom 
Sector Academic/University 
PI Contribution Exchange visits, round robin experiments
Collaborator Contribution Exchange visits etc
Impact Caryn Hughes, Hugh Byrne, Roy Goodacre, Alex Henderson, Martin Isabelle, Nallala Jayakrupakar, Catherine Kendall, Gavin Lloyd, David Perez-Guaita, Michael Pilling, Nick Stone, Bayden Wood, Matt Baker, Peter Gardner The University of Manchester Multicentre Infrared Round Robin: Same Samples, Same Diagnostic Outcome? Poster presented at SPEC2016 Montreal June 2016
Start Year 2013
 
Description Noel Clarke 
Organisation The Christie NHS Foundation Trust
Country United Kingdom 
Sector Public 
PI Contribution We have had a number of joint projects and joint studentship over the last 18 years. We have provided access to state of the art infrared imaging systems.
Collaborator Contribution Noel's group have provided access to tissue samples, and numerous consultations regarding our work. We have regular project meeting at the Christie.
Impact This has been a very successful collaboration resulting in 34 peer reviewed publications and numerous presentations at international conferences. Publications 1. M. J Pilling, A. Henderson, J. H. Shanks, M. D. Brown, N. W. Clarke and P. Gardner, Infrared Spectral Histopathology Using Haematoxylin and Eosin (H&E) Stained Glass Slides: A major step forward towards clinical translation. Analyst on line 2. M. Jimenez-Hernandez, M. D. Brown , C. Hughes, N. W. Clarke, P. Gardner, Characterising cytotoxic agent action as a function of the cell cycle using Fourier Transform Infrared Mircospectroscopy, Analyst, 2015, 140, 4453 - 4464 3. C. Hughes, A. Henderson, M. Kansiz, K. M. Dorling, M. Jimenez-Hernandez, M. D. Brown, N. W. Clarkeb, and P. Gardner, Enhanced FTIR benchtop imaging of single biological cells, Analyst, 2015, 140, 2080 - 2085. DOI: 10.1039/C4AN02053G 4. P. Bassan, A. Sachdeva, J. H. Shanks, M. D. Brown, N. W. Clarke, P. Gardner, Automated high-throughput assessment of prostate biopsy tissue using infrared spectroscopic chemical imaging, Proc. SPIE 9041, Medical Imaging 2014: Digital Pathology, 90410D 5. C. Hughes, M. Brown, G. Clemens, A. Henderson, G. Monjardez, N.W. Clarke, P. Gardner, Assessing the challenges of Fourier transform infrared spectroscopic analysis of blood serum, J Biophotonics 2014 7(3-4) 180-188 6. C. Hughes, L. Gaunt, M. Brown, N.W. Clarke, P. Gardner, Assessment of Paraffin Removal from prostate FFPE Sections using transmission mode FTIR-FPA Imaging, Analytical Methods. 2014, 6 (4), 1028 - 1035 7. P. Bassan, A. Sachdeva, J. Shanks, Mick D. Brown, N.W. Clarke, P.Gardner, Whole organ cross-section chemical imaging using label-free mega-mosaic FTIR microscopy, Analyst 2013, 138(23), 7066-7069 8. M. Jimenez-Hernandez, C. Hughes, P. Bassan, F. Ball, M.D. Brown, N.W Clarke, P. Gardner. Exploring the spectroscopic differences of Caki-2 cells progressing through the cell cycle while proliferating in-vitro. Analyst 2013, 138(14), 3957-3966 9. C. Hughes, M. Brown, J. H Shanks J. Iqbal-Wahid, A. Eustac, H. Denley, P. J Hoskin, C. West, N. W Clarke, P. Gardner, FTIR microspectroscopy of diverse sub-variants of carcinoma of the urinary bladder: a pilot study. J Biophotonics, 6(1) (2013) 73-87 10. C. Hughes , M. D. Brown , F. Ball , G. Monjardez, P. Dumas, N. W. Clarke, K. R. Flower and P Gardner, Highlighting a Need to Distinguish Cell Cycle Signatures from Cellular Responses to Chemotherapeutics in SR-FTIR Spectroscopy, Analyst 137 (24),(2012), 5736 - 5742 11. C. Hughes , M. D. Brown , P. Dumas, N. W. Clarke, K. R. Flower and P Gardner, Tracking Cellular Responses to Chemotherapeutics in Renal Cell Carcinoma using Synchrotron and Benchtop FTIR Spectroscopy, Analyst, 137 (20), (2012), 4720 - 4726 12. P. Bassan, A. Sachdeva, A. Kohler, C. Hughes, A. Henderson, J. Boyle, J. H. Shanks, M. Brown, N. W. Clarke P.Gardner, FTIR Microscopy of biological cells and tissue: data analysis using resonant Mie scattering (RMieS) EMSC algorithm, Analyst 137, (2012) 1370-1377 13. C. Hughes, M. Liew, M. D. Brown, A. Sachdeva, P. Bassan, P. Dumas, C.Hart, N. W. Clarke, P.Gardner, SR-FTIR Spectroscopy of Renal Epithelial Carcinoma Cells Displaying Stem Cell Characteristics, Analyst, 135, (2010) 3133-3141 14. P. Bassan, A. Kohler, H. Martens, J. Lee, E. Jackson, N. Lockyer, P. Dumas, M. Brown, N. Clarke, P. Gardner RMieS-EMSC correction for infrared spectra of biological cells: Extension using full Mie theory and GPU computing, J. Biophotonics, 3 (2010) 609-620 15. M.J. Baker, C. Clarke, D. Démoulin, J. Nicholson, F. Lyng, H.J. Byrne, C.A. Hart, M.D. Brown, N.W. Clarke, P. Gardner, An Investigation of the RWPE Prostate Derived Family of Cell Lines Using FTIR Spectroscopy, Analyst, 135, (2010) 887- 894 16. P. Bassan, A. Kohler, H. Martens, J. Lee, H. J. Byrne, P. Dumas, E. Gazi, M. Brown, N. Clarke, P. Gardner, Resonant Mie Scattering (RMieS) Correction of Infrared Spectra from Highly Scattering Biological Samples, Analyst, 135 (2010) 268-277 (Front Cover) 17. M. Brown, C. Hart, E. Gazi, P. Gardner, N. Lockyer, N. Clarke, The influence of the omega 6 PUFA arachidonic acid and bone marrow adipocytes on the metastatic spread of prostate cancer, British Journal of Cancer, 102 (2010) 403-413 18. P. Bassan, H. J. Byrne, J. Lee, F. Bonnier, C. Clarke, P. Dumas, E. Gazi, M. D. Brown, N. W. Clarke, P. Gardner., Reflection contributions to dispersion artefact in FTIR spectra of cellular samples, Analyst, 134, (2009), 1171-1175 19. T. J. Harvey, E. Gazi, A. Henderson, R. D Snook, N. W. Clarke, M. Brown, P Gardner. Factors Influencing the Discrimination and Classification of Prostate Cancer Cells Lines by FTIR Microspectroscopy, Analyst 134, (2009) 1083-1091 20. M.J. Baker, E.Gazi, M.D. Brown, J.H. Shanks, N.W. Clarke, P. Gardner, Investigating FTIR Based Histopathology for the Diagnosis of Prostate Cancer, J. Biophotonics, 2 (2009) 104-113 21. T J Harvey, C Hughes, A D Ward, E Correia Faria, A Henderson, N W Clarke, M D Brown, R D Snook P. Gardner, Classification of Fixed Urological Cells using Raman Tweezers, J. Biophotonics, 2 (2009) 47-69 22. E. Gazi, T.J. Harvey, M.D.Brown, N.W. Clarke, N.P. Lockyer, P. Gardner, A FTIR Microspectroscopic Study of the Uptake and Metabolism of Isotopically Labelled Fatty Acids by Metastatic Prostate Cancer, Vibrational Spectroscopy, 50 (2009) 99-105 23. T. J. Harvey, E Correia Faria, E Gazi, A D Ward, N W Clarke, M D Brown, R.D. Snook, P Gardner, The Spectral Discrimination of Live Prostate and Bladder Cancer Cell Lines Using Raman Optical Tweezers, Journal of Biomedical Optics, 13 (2008) 064004 24. 76. M.J. Baker, E.Gazi, M.D. Brown, J.H. Shanks, P. Gardner, N.W. Clarke, FTIR Based Spectroscopic Analysis in the Identification of Clinically Aggressive Prostate Cancer, British Journal of Cancer, 99 (2008) 1859-1866 25. 74. E. Gazi, P. Gardner, N.P Lockyer, C.A Hart, N.W. Clarke, M.D Brown, Probing Lipid Translocation Between Adipocytes and Prostate Cancer Cells with Imaging FTIR Microspectroscopy, J. Lipid Research 48 (2007) 1846 26. 73. J. Lee, E Gazi, J Dwyer, M. D. Brown, N. W. Clarke, P. Gardner, Optical artefacts in transflection mode FTIR microspectroscopic images of single cells on a biological support: the effect of back-scattering into collection optics. Analyst 132 (2007) 750-755 27. T. J. Harvey, A. Henderson, E. Gazi, N. W. Clarke, M. Brown, E Correia Faria, R. D. Snook P. Gardner, Discrimination of prostate cancer cells by reflection mode FTIR photo-acoustic spectroscopy, Analyst 132 (2007) 292-295 28. E. Gazi, J. Dwyer, N.P Lockyer, P. Gardner, J.H Shanks, Jo-An Roulson, C.A Hart, N.W Clarke, M.D Brown, Biomolecular Profiling of Metastatic Prostate Cancer Cells in Bone Marrow Tissue Using FTIR Microspectroscopy: A Pilot Study, Analytical and Bioanalytical Chemistry, 387 (2007) 1621-1631. 29. E. Gazi, M. Baker, J. Dwyer, N. P. Lockyer, P. Gardner, J.H. Shanks, R. S. Reeve, C. Hart, N.W. Clarke M. Brown, A Correlation of FTIR Spectra Derived from Prostate Cancer Tissue with Gleason Grade, and Tumour Stage, 30. E. Gazi, J. Dwyer, N. P. Lockyer. J. Miyan, P. Gardner, C.A Hart, M.D Brown, N.W. Clarke, A Study of Cytokinetic and Motile Prostate Cancer Cells Using Synchrotron Based FTIR - Microspectroscopic Imaging, Vibrational Spectroscopy 38 (2005) 193 - 201 31. E. Gazi, J. Dwyer, J. Miyan, P. Gardner, C. Hart, M. Brown, N.W. Clarke, Fixation Protocols for Sub-cellular Imaging by Synchrotron Based FTIR Microspectroscopy, Biopolymers 77 (2005) 18-30 32. E. Gazi, N. P. Lockyer, J. C. Vickerman, P. Gardner, J. Dwyer, C. A. Hart, M. B. Brown, N. W. Clarke J. Miyan, Imaging ToF-SIMS and synchrotron based FTIR-microspectroscopic studies of prostate cancer cell lines, Applied Surface Science 231 - 232 (2004) 452 - 456 33. E. Gazi, J. Dwyer, N. Lockyer, P. Gardner, J.C. Vickerman, J. Miyan, C. Hart, M. Brown and N. Clarke, Application of FTIR Microspectroscopy and ToF-SIMS Imaging in the Study of Prostate Cancer, Faraday Discussions 126 (2004) 41 - 59 34. E. Gazi, J. Dwyer, P. Gardner, A. Ghanbari-Siakhali, A. P. Wade. J. Myan. N.P.Lockyer, J. C. Vickerman, N. W. Clarke, J. H. Shanks, C. Hart, M.Brown, Applications of Fourier Transform Infrared Microspectroscopy in Studies of Benign Prostate & Prostate Cancer. A pilot Study, J. Pathology 201 (2003) 99-108
 
Description Peter Weightman 
Organisation University of Liverpool
Department Institute of Translational Medicine
Country United Kingdom 
Sector Academic/University 
PI Contribution We have worked closely with Prof Weightman on imaging tissue samples. We have provided Access to state of the art IR imaging equipment available in our lab
Collaborator Contribution They have contributed personel to the project and data analysis experties.
Impact Joint publications in preparation.
Start Year 2015
 
Description Prof. Malgorzata Baranska 
Organisation Jagiellonian University
Department Faculty of Chemistry
Country India 
Sector Academic/University 
PI Contribution We have had a collaboration resulting in a number of exchange visits of students. I have hosted two PhD student from this group in my laboratory.
Collaborator Contribution They have provided excellent PhD students for exchange visits. I have also been to the university on Krakow for an exchange visit and to work with their PhD students.
Impact Joint papers in preparation. We are both on the Management committee of the EU Raman4Clinics network.
Start Year 2012
 
Description STFC Daresbury Laboratory 
Organisation Daresbury Laboratory
Country United Kingdom 
Sector Private 
PI Contribution We are heavy users of the IR beamline and have had two jointly funded studentships. I have also been chair of the IR user group and have sat on the Diamond Light Source Scientific Advisory Board 2012-2016 and have conducedted a number of beamline reviews. I have several joint publications.
Collaborator Contribution Diamond have jointly funded two PhD studentships and we have several joint publications.
Impact We have had several joint publications in which Gianfelice Cinque is a coauthor. G. Clemens, F. J. Ball, A. Henderson, S. Mohr, P. R Fielden, N. J Goddard, A. Whiting, S. A. Przyborski, G. Cinque, P. Gardner, A Microfluidic Device for the Infrared Study of Single Cells in Aqueous Media: An Evaluation Using Differentiating Stem Cells, Analyst submitted J. Doherty, G. Cinque and P. Gardner, Single Cell Analysis Using Fourier Transform Infrared Microspectroscopy, Applied Spectroscopy Reviews, 2016, 1252014 A. L. M. Batista de Carvalho, M. Pilling, P. Gardner, J. Doherty, G. Cinque, K. Wehbe, C. Kelley, L. A. E. Batista de Carvalho and M. P. M. Marquesa, Chemotherapeutic Response to Cisplatin-like Drugs in Human Breast Cancer Cells Probed by Vibrational Microspectroscopy. Faraday Discussion, 2016, 187, 273-298 DOI: 10.1039/c5fd00148j G. Clemens, K. R. Flower, A. P. Henderson, A. Whiting, S. A. Przyborski, M. Jimenez-Hernandez, F. Ball, P. Bassan, G. Cinque, P. Gardner. The action of all-trans-retinoic acid (ATRA) and synthetic retinoid analogues (EC19 and EC23) on human pluripotent stem cells differentiation investigated using single cell infrared microspectroscopy. Molecular BioSystems, 2013, 9 (4), 677 - 692
Start Year 2006
 
Title Created Zenodo 
Description • Created a Community on the Zenodo repository platform for data in this field. This promotes data sharing. https://zenodo.org/communities/clirspec/ 
Type Of Technology Webtool/Application 
Year Produced 2016 
Impact Groups are starting to use this. 
URL https://zenodo.org/communities/clirspec/
 
Title software to allow users to read proprietary file formats from infrared instruments 
Description Released software to allow users to read proprietary file formats from infrared instruments and perform statistical analyses in a common methodology: https://doi.org/10.5281/zenodo.57398 and https://doi.org/10.5281/zenodo.399238 
Type Of Technology Software 
Year Produced 2016 
Impact Several groups are now using this software. 
URL https://doi.org/10.5281/zenodo.57398
 
Description CLIRCON 15 The UK CLIRSPEC Network conference EXETER 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Industry/Business
Results and Impact This was an international conference run by the CLIRSPEC network that brought together Industry, clinicians and academics working in the field of biomedical and clinical spectroscopy. This was a three day meeting that incorporated workshops and breakout sessions specifically design to facilitate interaction and collaboration between these groupings.
Year(s) Of Engagement Activity 2015
URL https://clirspec.org/uk-network/groups/exeter-conference/
 
Description CLIRCON 17 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Industry/Business
Results and Impact CLIRCON 17 was a follow up to CLIRCON 15 which brought together industry academia and clinicians working in the field of clinical spectroscopy. We also added speakers involved in policy making.
Year(s) Of Engagement Activity 2017
 
Description CLIRSPEC summer school 2016 
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 This was an international summer school.
Year(s) Of Engagement Activity 2016
 
Description CLIRSPEC summer school 2017 
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 This was an international summer school.
Year(s) Of Engagement Activity 2017
 
Description International Summer School 2015 
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 This was an international summer school aimed mainly at postgraduate students and early career researchers working in the field of biomedical and clinical spectroscopy. We had 38 participants who were there to learn off experts in the field.
Year(s) Of Engagement Activity 2015
 
Description International Summer School 2018 
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 The CLIRSPEC Summer School is designed to teach mainly postgraduate students the fundamental of spectroscopy for the clinical environment.
Year(s) Of Engagement Activity 2018
URL https://clirspec.org/summer-school/