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Andrew French

Professor, Faculty of Science

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Biography

I am interested in Artifical Intelligence (AI) research, particularly related to understanding images. Building an understanding of AI within other disciplines, especially within the biological sciences, has been a focus in recent years, and is increasingly important as AI tools become more powerful.

Research interests include:

路 Image analysis of plants and other complex structures

路 Developing novel AI software tools to aid biologists

路 Deep machine learning approaches

路 Artificial intelligence for computer vision

路 Automating image capture approaches (e.g. with robotics)

Expertise Summary

Image analysis and computer vision

Biological image analysis

Artificial intelligence methods for computer vision

Deep machine learning

High-throughput plant phenotyping

Experience with a variety of dataset modalities (colour, 3D volumetric, x-ray. MRI, confocal, LSFM etc.)

Data science training provision (via free courses and consultancy)

Teaching Summary

I mainly teach Computer Vision and Schools Experience in Computer Science, and Computer Modelling in Science (Introduction and Applications) in Biosciences. I do supervise final year projects: if you… read more

Research Summary

My research involves developing novel computer science approaches to solve imaging challenges, particularly in bioscience applications. This includes machine learning (AI) approaches as well as image… read more

Selected Publications

  • MICHAEL POUND, JONATHAN ATKINSON, ALEXANDRA TOWNSEND, MICHAEL WILSON, MARCUS GRIFFITHS, AARON JACKSON, ADRIAN BULAT, GEORGIOS TZIMIROPOULOS, DARREN WELLS, ERIK MURCHIE, TONY PRIDMORE and ANDREW FRENCH, 2017. Gigascience. gix083
  • FRENCH, A.P., MILLS, S., SWARUP, R., BENNETT, M.J. and PRIDMORE, T.P., 2008. Nature Protocols. 3(4), 619-628
  • IMANOL LUENGO, MARK BASHAM and ANDREW P. FRENCH, 2016. In: Proceedings of the British Machine Vision Conference 2016.
  • FRENCH, A., UBEDA-TOM脕S, S., HOLMAN, T.J., BENNETT, M.J. and PRIDMORE, T., 2009. Plant Physiology. 150(4), 1784-1795

I have offices on Sutton Bonington and Jubilee campuses.

On SB, you can find me in Plant Sciences, C08a. My office in Computer Science is B80. You are welcome to try dropping by, but it is best to email me first for an appointment.

I mainly teach Computer Vision and Schools Experience in Computer Science, and Computer Modelling in Science (Introduction and Applications) in Biosciences. I do supervise final year projects: if you are interested in image analysis, do email me with project ideas.

Current Research

My research involves developing novel computer science approaches to solve imaging challenges, particularly in bioscience applications. This includes machine learning (AI) approaches as well as image analysis development.

Research interests include:

路 Image analysis of plants and other complex structures

路 Developing novel software tools to aid biologists and mathematical modellers

路 Deep machine learning approaches

路 Automating image capture approaches (e.g. with robotics)

Past Research

Tracking algorithm development: how to track objects in video sequences.

Future Research

Developing deep learning approaches to image analysis.

Phenotyping - automating the characterization of plants using imaging, robotics and automation software to speed up the number of plants we can measure in an experiment.

Segmentation methods, including superpixel approaches.

Hyperspectral imaging

Generating 3D models

MRI segmentation and interpretation.

  • GIBBS, JONATHON A., POUND, MICHAEL, FRENCH, ANDREW P., WELLS, DARREN M., MURCHIE, ERIK and PRIDMORE, TONY, 2017. FUNCTIONAL PLANT BIOLOGY. 44(1), 62-75
  • POUND, MICHAEL P., FOZARD, SUSAN, TORRES, MERCEDES TORRES, FORDE, BRIAN G. and FRENCH, ANDREW P., 2017. PLANT METHODS. 13(12),
  • BURRELL T, FOZARD S, HOLROYD GH, FRENCH AP, POUND MP, BIGLEY CJ, JAMES TAYLOR C and FORDE BG, 2017. Plant methods. 13, 10
  • LUENGO, IMANOL, DARROW, MICHELE C., SPINK, MATTHEW C., SUN, YING, DAI, WEI, HE, CYNTHIA Y., CHIU, WAH, PRIDMORE, TONY, ASHTON, ALUN W., DUKE, ELIZABETH M. H., BASHAM, MARK and FRENCH, ANDREW P., 2017. JOURNAL OF STRUCTURAL BIOLOGY. 198(1), 43-53
  • MICHAEL POUND, JONATHAN ATKINSON, ALEXANDRA TOWNSEND, MICHAEL WILSON, MARCUS GRIFFITHS, AARON JACKSON, ADRIAN BULAT, GEORGIOS TZIMIROPOULOS, DARREN WELLS, ERIK MURCHIE, TONY PRIDMORE and ANDREW FRENCH, 2017. Gigascience. gix083
  • POUND, MICHAEL P., ATKINSON, JONATHAN A., WELLS, DARREN M., PRIDMORE, TONY P. and FRENCH, ANDREW P., 2017. 2017 IEEE INTERNATIONAL CONFERENCE ON COMPUTER VISION WORKSHOPS (ICCVW 2017). 2055-2063
  • POUND, MICHAEL P.AND FRENCH, ANDREW P.AND FOZARD, JOHN A.AND MURCHIE, ERIK H.AND PRIDMORE, TONY P., 2016. Machine Vision and Applications. 1-13
  • MICHAEL POUND, ALEXANDRA J BURGESS, MICHAEL H WILSON, JONATHAN A ATKINSON, MARCUS GRIFFITHS, AARON S JACKSON, ADRIAN BULAT, GEORGIOS TZIMIROPOULOS, DARREN M WELLS, ERIK H MURCHIE, TONY P PRIDMORE and ANDREW P FRENCH, 2016. Biorxiv. Available at: <http://biorxiv.org/content/early/2016/05/12/053033>
  • HANNO SCHARR, MASSIMO MINERVINI, ANDREW P. FRENCH, CHRISTIAN KLUKAS, DAVID M. KRAMER, XIAOMING LIU, IMANOL LUENGO, JEAN-MICHEL PAPE, GERRIT POLDER, DANIJELA VUKADINOVIC, XI YIN and SOTIRIOS A. TSAFTARIS, 2016. Machine Vision and Applications. 27(4), 585-606
  • IMANOL LUENGO, MARK BASHAM and ANDREW P FRENCH, 2016. In: Proc. SPIE 9784, Medical Imaging 2016: Image Processing, 97842D (March 21, 2016). 9784.
  • LUENGO, IMANOL, BASHAM, MARK and FRENCH, ANDREW P, 2016. Hierarchical Piecewise-Constant Super-regions arXiv preprint arXiv:1605.05937.
  • IMANOL LUENGO, MARK BASHAM and ANDREW P. FRENCH, 2016. In: Proceedings of the British Machine Vision Conference 2016.
  • POUND, MICHAEL, FRENCH, ANDREW and FORDE, BRIAN, 2016. AutoRoot: fully-automated plant root phenotyping Zenodo.
  • LUENGO, IMANOL, BASHAM, MARK and FRENCH, ANDREW P., 2016. PATCH-BASED TECHNIQUES IN MEDICAL IMAGING, PATCH-MI 2016. 9993, 17-24
  • SCHARR, HANNO, DEE, HANNAH, FRENCH, ANDREW P. and TSAFTARIS, SOTIRIOS A., 2016. MACHINE VISION AND APPLICATIONS. 27(5), 607-609
  • POUND, MICHAEL, FRENCH, ANDREW P. and WELLS, DARREN M., 2015. PLANT CELL EXPANSION: METHODS AND PROTOCOLS. 1242, 123-131
  • DEE, HANNAH and FRENCH, ANDREW, 2015. FUNCTIONAL PLANT BIOLOGY. 42(5), III-V
  • LARRIEU AP, FRENCH AP, PRIDMORE TP, BENNETT MJ and WELLS DM, 2014. Methods in molecular biology (Clifton, N.J.). 1056, 11-17
  • BAND L, WELLS DM, FOZARD JA, GHETIU T, FRENCH AP, POUND MP, WILSON MH, YU L, LI W, HIJAZI H, OH J, PEARCE S, PEREZ-AMADOR MA, YUN J, KRAMER E, ALONSO JM, GODIN G, VERNOUX T, HODGMAN TC, PRIDMORE TP, SWARUP R, KING JR and BENNETT MJ, 2014. Plant Cell.
  • MIGUEL-PACHECO, GIULIANA G., KALER, JASMEET, REMNANT, JOHN, CHEYNE, LYDIA, ABBOTT, CAROLINE, FRENCH, ANDREW P., PRIDMORE, TONY P. and HUXLEY, JONATHAN N., 2014. Applied Animal Behaviour Science. 150(0), 1-8
  • LARRIEU, ANTOINE P., FRENCH, ANDREW P., PRIDMORE, TONY P., BENNETT, MALCOLM J. and WELLS, DARREN M., 2014. PLANT CHEMICAL GENOMICS: METHODS AND PROTOCOLS. 1056, 11-17
  • POUND, MICHAEL P., FRENCH, ANDREW P., MURCHIE, ERIK H. and PRIDMORE, TONY P., 2014. PLANT PHYSIOLOGY. 166(4), 1688-U801
  • BAND, LEAH R., WELLS, DARREN M., FOZARD, JOHN A., GHETIU, TEODOR, FRENCH, ANDREW P., POUND, MICHAEL P., WILSON, MICHAEL H., YU, LEI, LI, WENDA, HIJAZI, HUSSEIN I., OH, JAESUNG, PEARCE, SIMON P., PEREZ-AMADOR, MIGUEL A., YUN, JEONGA, KRAMER, ERIC, ALONSO, JOSE M., GODIN, CHRISTOPHE, VERNOUX, TEVA, HODGMAN, T. CHARLIE, PRIDMORE, TONY P., SWARUP, RANJAN, KING, JOHN R. and BENNETT, MALCOLM J., 2014. PLANT CELL. 26(3), 862-875
  • ANDREW P FRENCH and MICHAEL P POUND, 2014. . In: S DUTTA GUPTA and YASUOMI IBARAKI, eds., Plant Image Analysis: Fundamentals and Applications CRC Press / Taoylor and Francis. 279-289
  • MICHAEL P POUND and ANDREW P FRENCH, 2014. . In: S DUTTA GUPTA and YASUOMI IBARAKI, eds., Plant Image Analysis: Fundamentals and Applications CRC Press / Taylor and Francis.
  • POUND MP, FRENCH AP, MURCHIE E and PRIDMORE TP, 2014. Surface reconstruction of plant shoots from multiple views In: European Conference on Computer Vision (ECCV) Workshop on Computer Vision Problems in Plant Phenotyping.
  • MICHAEL P POUND, ANDREW P FRENCH, JONATHAN ATKINSON, DARREN M WELLS, MALCOLM J BENNETT and TONY P PRIDMORE, 2013. Plant Physiology.
  • POUND, M.P., FRENCH, A.P., ATKINSON, J.A., WELLS, D.M., BENNETT, M.J. and PRIDMORE, T., 2013. Plant Physiology. 162(4), 1802-1814
  • P脡RET B, MIDDLETON AM, FRENCH AP, LARRIEU A, BISHOPP A, NJO M, WELLS DM, PORCO S, MELLOR N, BAND LR, CASIMIRO I, KLEINE-VEHN J, VANNESTE S, SAIRANEN I, MALLET R, SANDBERG G, LJUNG K, BEECKMAN T, BENKOVA E, FRIML J, KRAMER E, KING JR, DE SMET I, PRIDMORE T, OWEN M and BENNETT MJ, 2013. Molecular systems biology. 9, 699
  • PERET, BENJAMIN, MIDDLETON, ALISTAIR M., FRENCH, ANDREW P., LARRIEU, ANTOINE, BISHOPP, ANTHONY, NJO, MARIA, WELLS, DARREN M., PORCO, SILVANA, MELLOR, NATHAN, BAND, LEAH R., CASIMIRO, ILDA, KLEINE-VEHN, JUERGEN, VANNESTE, STEFFEN, SAIRANEN, ILKKA, MALLET, ROMAIN, SANDBERG, GORAN, LJUNG, KARIN, BEECKMAN, TOM, BENKOVA, EVA, FRIML, JIRI, KRAMER, ERIC, KING, JOHN R., DE SMET, IVE, PRIDMORE, TONY, OWEN, MARKUS and BENNETT, MALCOLM J., 2013. MOLECULAR SYSTEMS BIOLOGY. 9,
  • FRENCH AP, WELLS DM, EVERITT N and PRIDMORE TP, 2012. High-Throughput Quantification of Root Growth. In: MANCUSO, S, ed., Measuring Roots: An Updated Approach Heidelberg. xiii, 382 p.
  • BAND. L.R., WELLS, D.M., LARRIEU, A., SUN, J., MIDDLETON, A.M., FRENCH, A.P., BRUNOUD, G., SATO, E.M., WILSON, M.H., P脡RET, B., OLIVA, M., SWARUP, R., SAIRANEN, I., PARRY, G., LJUNG, K., BEECKMAN, T., GARIBALDI, J.M., ESTELLE, M., OWEN, M.R., VISSENBERG, K., HODGMAN, T.C., PRIDMORE, T.P., KING, J.R., VERNOUX, T. and BENNETT, M.J., 2012. Proceedings of the National Academy of Sciences of the United States of America. 109(12), 4668-4673
  • WELLS, D.M., FRENCH, A.P., NAEEM, A., ISHAQ, O., TRAINI, R., HIJAZI, H., BENNETT, M.J. and PRIDMORE, T.P., 2012. Philosophical Transactions of the Royal Society B: Biological Sciences. 367(1595), 1517-1524
  • POUND, M.P., FRENCH, A.P., WELLS, D.M., BENNETT, M.J. and PRIDMORE, T.P., 2012. Plant Cell. 24(4), 1353-1361
  • TONY P. PRIDMORE, ANDREW P. FRENCH and MICHAEL P. POUND, 2012. Trends in Plant Science. 17(12), 688-692
  • SETHURAMAN, V., FRENCH, A., WELLS, D., KENOBI, K. and PRIDMORE, T., 2012. Machine Vision and Applications. 23(4), 639-658
  • FRENCH AP, WILSON MH, KENOBI K, DIETRICH D, VO脽 U, UBEDA-TOM脕S S, PRIDMORE TP and WELLS DM, 2012. Plant methods. 8, 7
  • NAEEM, A., FRENCH, A.P., WELLS, D.M. and PRIDMORE, T.P., 2011. Bioinformatics. 27(9), 1337-1338
  • HODGMAN, TC, FRENCH, A and WESTHEAD, DR, 2010. Instant Notes in Bioinformatics 2nd ed.. Abingdon.
  • FRENCH, A., UBEDA-TOM脕S, S., HOLMAN, T.J., BENNETT, M.J. and PRIDMORE, T., 2009. Plant Physiology. 150(4), 1784-1795
  • WRIGHT, EF, WELLS, DM, FRENCH, AP, HOWELLS, C and EVERITT, NM, 2009. Measurement Science & Technology. 20(2), 027003
  • SETHURAMAN VS, TAYLOR S, PRIDMORE TP, FRENCH AP and WELLS DM, 2009. Segmentation and Tracking of Confocal Images of Arabidopsis thaliana Root Cells using Automatically-Initialized Network Snakes In: 3rd International Conference on Bioinformatics and Biomedical Engineering, Beijing, China.
  • FRENCH, A.P., MILLS, S., SWARUP, R., BENNETT, M.J. and PRIDMORE, T.P., 2008. Nature Protocols. 3(4), 619-628
  • FRENCH AP, BENNETT MJ, HOWELLS C, PATEL D and PRIDMORE TP, 2008. Probablilistic Tracking Approach to Root measurement in Images In: Biosignals 2008 - International Conference on Bio-inspired Systems and Signal Processing - Madeira, Portugal.
  • GREENHALGH, C., FRENCH, A., HUMBLE, J. and TENNENT, P., 2007. Engineering a replay application based on RDF and OWL In: Online Proceedings of the UK e-Science All Hands Meeting 2007, September 10-13, Nottingham. (In Press.)
  • GREENHALGH, C., FRENCH, A., TENNENT, P., HUMBLE, J. and CRABTREE, A., 2007. In: Online Proceedings of the 3rd International Conference on e-Social Science, October 7-9, Ann Arbor, Michigan: ESRC/NSF.. (In Press.)
  • FRENCH, A, NAEEM, A. DRYDEN, I and T. PRIDMORE, 2007. In: IEEE Int. Conference on Advanced Video and Signal-based Surveillance. 217--217
  • WALKER, B., SCHN脛DELBACH, H., RENNICK EGGLESTONE, S., CLARK, A., ORBACH, T., WRIGHT, M., NG, K., FRENCH, A., RODDEN, T. and BENFORD, S., 2007. Augmenting amusement rides with telemetry In: Advances in Computer Entertainment Technology. 115-122
  • POUND M, NAEEM A, FRENCH A and PRIDMORE T, 2007. Quantitative and Qualitative Evaluation of Visual Tracking Algorithms using Statistical Tests In: 10th IEEE International Workshop on Performance Evaluation of Tracking and Surveillance.
  • CRABTREE, A., FRENCH, A., GREENHALGH, C., BENFORD, S., CHEVERST, K., FITTON, D., ROUNCEFIELD, M. and GRAHAM, C., 2006. Computer Supported Cooperative Work. 15(4), 281-319
  • FRENCH, A., GREENHALGH, C., CRABTREE, A., WRIGHT, M., BRUNDELL, P., HAMPSHIRE, A. and RODDEN, T., 2006. Software Replay Tools for Time-Based Social Science Data In: Second International Conference on e-Social Science.
  • CRABTREE, A, GREENHALGH, C, FRENCH, A, RODDEN, T and BENFORD, S., 2006. Exploiting digital records: new resources and tools for qualitative research in contemporary social science In: Words Instead of Numbers: The Status of Software in the Qualitative Research World.
  • CRABTREE, A, FRENCH, A, GREENHALGH, C and RODDEN, T. BENFORD, S., 2006. Working with digital records: developing tool support In: The 2nd International Conference on e-Social Science.
  • FROST,A., FRENCH,A., TILLETT,R., PRIDMORE,T.P. and WELCH,T.R., 2004. Computers and Electronics in Agriculture,. 44(2), 93-106
  • FRENCH,A., PRIDMORE,T.P. and MILLS,S., 2004. In: Proceedings of the 17th International Conference on Pattern Recognition, 2004 (ICPR 2004). 195- 198
  • FRENCH, A., PRIDMORE, T.P., TILLETT, R. and FROST, A., 2003. An Image Analysis System to Guide a Sensor Placement Robot onto a Feeding Pig In: Proceedings of the Irish Machine Vision Conference.

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