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Automated single particle detection and tracking for large microscopy datasets.

Royal Society open science

Wilson RS, Yang L, Dun A, Smyth AM, Duncan RR, Rickman C, Lu W.
PMID: 27293801
R Soc Open Sci. 2016 May 18;3(5):160225. doi: 10.1098/rsos.160225. eCollection 2016 May.

Recent advances in optical microscopy have enabled the acquisition of very large datasets from living cells with unprecedented spatial and temporal resolutions. Our ability to process these datasets now plays an essential role in order to understand many biological...

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Wilson RS, Yang L, Dun A, et al. Automated single particle detection and tracking for large microscopy datasets. R Soc Open Sci. 2016;3(5):160225doi: 10.1098/rsos.160225.
Wilson, R. S., Yang, L., Dun, A., Smyth, A. M., Duncan, R. R., Rickman, C., & Lu, W. (2016). Automated single particle detection and tracking for large microscopy datasets. Royal Society open science, 3(5), 160225. https://doi.org/10.1098/rsos.160225
Wilson, Rhodri S, et al. "Automated single particle detection and tracking for large microscopy datasets." Royal Society open science vol. 3,5 (2016): 160225. doi: https://doi.org/10.1098/rsos.160225
Wilson RS, Yang L, Dun A, Smyth AM, Duncan RR, Rickman C, Lu W. Automated single particle detection and tracking for large microscopy datasets. R Soc Open Sci. 2016 May 18;3(5):160225. doi: 10.1098/rsos.160225. eCollection 2016 May. PMID: 27293801; PMCID: PMC4892463.
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The garden as a laboratory: the role of domestic gardens as places of scientific exploration in the long 18th century.

Post-medieval archaeology

Hickman C.
PMID: 26052165
Postmediev Archaeol. 2014 Jun;48(1):229-247. doi: 10.1179/0079423614Z.00000000054.

Eighteenth-century gardens have traditionally been viewed as spaces designed for leisure, and as representations of political status, power and taste. In contrast, this paper will explore the concept that gardens in this period could be seen as dynamic spaces...

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Hickman C. The garden as a laboratory: the role of domestic gardens as places of scientific exploration in the long 18th century. Postmediev Archaeol. 2014;48(1):229-247doi: 10.1179/0079423614Z.00000000054.
Hickman, C. (2014). The garden as a laboratory: the role of domestic gardens as places of scientific exploration in the long 18th century. Post-medieval archaeology, 48(1), 229-247. https://doi.org/10.1179/0079423614Z.00000000054
Hickman, Clare. "The garden as a laboratory: the role of domestic gardens as places of scientific exploration in the long 18th century." Post-medieval archaeology vol. 48,1 (2014): 229-247. doi: https://doi.org/10.1179/0079423614Z.00000000054
Hickman C. The garden as a laboratory: the role of domestic gardens as places of scientific exploration in the long 18th century. Postmediev Archaeol. 2014 Jun;48(1):229-247. doi: 10.1179/0079423614Z.00000000054. PMID: 26052165; PMCID: PMC4456700.
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Exocytosis through the Lens.

Frontiers in endocrinology

Graczyk A, Rickman C.
PMID: 24146663
Front Endocrinol (Lausanne). 2013 Oct 17;4:147. doi: 10.3389/fendo.2013.00147.

Exocytosis, the process in which material is transported from the cell interior to the extracellular space, proceeds through a complex mechanism. Defects in this process are linked to a number of serious illnesses including diabetes, cancer, and a range...

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Graczyk A, Rickman C. Exocytosis through the Lens. Front Endocrinol (Lausanne). 2013;4:147doi: 10.3389/fendo.2013.00147.
Graczyk, A., & Rickman, C. (2013). Exocytosis through the Lens. Frontiers in endocrinology, 4147. https://doi.org/10.3389/fendo.2013.00147
Graczyk, Alicja, and Rickman, Colin. "Exocytosis through the Lens." Frontiers in endocrinology vol. 4 (2013): 147. doi: https://doi.org/10.3389/fendo.2013.00147
Graczyk A, Rickman C. Exocytosis through the Lens. Front Endocrinol (Lausanne). 2013 Oct 17;4:147. doi: 10.3389/fendo.2013.00147. PMID: 24146663; PMCID: PMC3797981.
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'The want of a proper Gardiner': late Georgian Scottish botanic gardeners as intermediaries of medical and scientific knowledge.

British journal for the history of science

Hickman C.
PMID: 31583993
Br J Hist Sci. 2019 Dec;52(4):543-567. doi: 10.1017/S0007087419000451. Epub 2019 Oct 04.

Often overlooked by historians, specialist gardeners with an expert understanding of both native and exotic plant material were central to the teaching and research activities of university botanic gardens. In this article various interrelationships in the late Georgian period...

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Hickman C. 'The want of a proper Gardiner': late Georgian Scottish botanic gardeners as intermediaries of medical and scientific knowledge. Br J Hist Sci. 2019;52(4):543-567doi: 10.1017/S0007087419000451.
Hickman, C. (2019). 'The want of a proper Gardiner': late Georgian Scottish botanic gardeners as intermediaries of medical and scientific knowledge. British journal for the history of science, 52(4), 543-567. https://doi.org/10.1017/S0007087419000451
Hickman, Clare. "'The want of a proper Gardiner': late Georgian Scottish botanic gardeners as intermediaries of medical and scientific knowledge." British journal for the history of science vol. 52,4 (2019): 543-567. doi: https://doi.org/10.1017/S0007087419000451
Hickman C. 'The want of a proper Gardiner': late Georgian Scottish botanic gardeners as intermediaries of medical and scientific knowledge. Br J Hist Sci. 2019 Dec;52(4):543-567. doi: 10.1017/S0007087419000451. Epub 2019 Oct 04. PMID: 31583993.
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An evaluation of the effect that the implementation of the NICE rules may have on a diagnostic imaging department for the early management of head injuries.

Radiography (London, England : 1995)

Hickman C, Harvey J.
PMID: 33383600
Radiography (Lond). 2007 Feb;13(1):4-12. doi: 10.1016/j.radi.2005.11.003. Epub 2006 Jan 27.

INTRODUCTION: Guidelines by the National Institute of Clinical Excellence (NICE) for the early management of minor head injuries initiate the use of computed tomography (CT) for patients who may be at risk of developing intracranial haematoma. This retrospective study...

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Hickman C, Harvey J. An evaluation of the effect that the implementation of the NICE rules may have on a diagnostic imaging department for the early management of head injuries. Radiography (Lond). 2006;13(1):4-12doi: 10.1016/j.radi.2005.11.003.
Hickman, C., & Harvey, J. (2007). An evaluation of the effect that the implementation of the NICE rules may have on a diagnostic imaging department for the early management of head injuries. Radiography (London, England : 1995), 13(1), 4-12. https://doi.org/10.1016/j.radi.2005.11.003
Hickman, C, and Harvey, J. "An evaluation of the effect that the implementation of the NICE rules may have on a diagnostic imaging department for the early management of head injuries." Radiography (London, England : 1995) vol. 13,1 (2007): 4-12. doi: https://doi.org/10.1016/j.radi.2005.11.003
Hickman C, Harvey J. An evaluation of the effect that the implementation of the NICE rules may have on a diagnostic imaging department for the early management of head injuries. Radiography (Lond). 2007 Feb;13(1):4-12. doi: 10.1016/j.radi.2005.11.003. Epub 2006 Jan 27. PMID: 33383600.
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Evaluation of heterologous prime-boost vaccination strategies using chimpanzee adenovirus and modified vaccinia virus for TB subunit vaccination in rhesus macaques.

NPJ vaccines

Vierboom MPM, Chenine AL, Darrah PA, Vervenne RAW, Boot C, Hofman SO, Sombroek CC, Dijkman K, Khayum MA, Stammes MA, Haanstra KG, Hoffmann C, Schmitt D, Silvestre N, White AG, Borish HJ, Seder RA, Ouaked N, Leung-Theung-Long S, Inchauspé G, Anantha R, Limbach M, Evans TG, Casimiro D, Lempicki M, Laddy DJ, Bonavia A, Verreck FAW.
PMID: 32435513
NPJ Vaccines. 2020 May 14;5(1):39. doi: 10.1038/s41541-020-0189-2. eCollection 2020.

Tuberculosis (TB) still is the principal cause of death from infectious disease and improved vaccination strategies are required to reduce the disease burden and break TB transmission. Here, we investigated different routes of administration of vectored subunit vaccines based...

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Vierboom MPM, Chenine AL, Darrah PA, et al. Evaluation of heterologous prime-boost vaccination strategies using chimpanzee adenovirus and modified vaccinia virus for TB subunit vaccination in rhesus macaques. NPJ Vaccines. 2020;5(1):39doi: 10.1038/s41541-020-0189-2.
Vierboom, M. P. M., Chenine, A. L., Darrah, P. A., Vervenne, R. A. W., Boot, C., Hofman, S. O., Sombroek, C. C., Dijkman, K., Khayum, M. A., Stammes, M. A., Haanstra, K. G., Hoffmann, C., Schmitt, D., Silvestre, N., White, A. G., Borish, H. J., Seder, R. A., Ouaked, N., Leung-Theung-Long, S., Inchauspé, G., Anantha, R., Limbach, M., Evans, T. G., Casimiro, D., Lempicki, M., Laddy, D. J., Bonavia, A., & Verreck, F. A. W. (2020). Evaluation of heterologous prime-boost vaccination strategies using chimpanzee adenovirus and modified vaccinia virus for TB subunit vaccination in rhesus macaques. NPJ vaccines, 5(1), 39. https://doi.org/10.1038/s41541-020-0189-2
Vierboom, Michel P M, et al. "Evaluation of heterologous prime-boost vaccination strategies using chimpanzee adenovirus and modified vaccinia virus for TB subunit vaccination in rhesus macaques." NPJ vaccines vol. 5,1 (2020): 39. doi: https://doi.org/10.1038/s41541-020-0189-2
Vierboom MPM, Chenine AL, Darrah PA, Vervenne RAW, Boot C, Hofman SO, Sombroek CC, Dijkman K, Khayum MA, Stammes MA, Haanstra KG, Hoffmann C, Schmitt D, Silvestre N, White AG, Borish HJ, Seder RA, Ouaked N, Leung-Theung-Long S, Inchauspé G, Anantha R, Limbach M, Evans TG, Casimiro D, Lempicki M, Laddy DJ, Bonavia A, Verreck FAW. Evaluation of heterologous prime-boost vaccination strategies using chimpanzee adenovirus and modified vaccinia virus for TB subunit vaccination in rhesus macaques. NPJ Vaccines. 2020 May 14;5(1):39. doi: 10.1038/s41541-020-0189-2. eCollection 2020. PMID: 32435513; PMCID: PMC7224290.
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A Mycobacterium tuberculosis-specific subunit vaccine that provides synergistic immunity upon co-administration with Bacillus Calmette-Guérin.

Nature communications

Woodworth JS, Clemmensen HS, Battey H, Dijkman K, Lindenstrøm T, Laureano RS, Taplitz R, Morgan J, Aagaard C, Rosenkrands I, Lindestam Arlehamn CS, Andersen P, Mortensen R.
PMID: 34795205
Nat Commun. 2021 Nov 18;12(1):6658. doi: 10.1038/s41467-021-26934-0.

Given the encouraging clinical results of both candidate subunit vaccines and revaccination with Bacillus Calmette-Guérin (BCG) against tuberculosis (TB), there is support for combining BCG and subunit vaccination for increased efficacy. BCG and Mycobacterium tuberculosis (Mtb) share ~98% of...

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Woodworth JS, Clemmensen HS, Battey H, et al. A Mycobacterium tuberculosis-specific subunit vaccine that provides synergistic immunity upon co-administration with Bacillus Calmette-Guérin. Nat Commun. 2021;12(1):6658doi: 10.1038/s41467-021-26934-0.
Woodworth, J. S., Clemmensen, H. S., Battey, H., Dijkman, K., Lindenstrøm, T., Laureano, R. S., Taplitz, R., Morgan, J., Aagaard, C., Rosenkrands, I., Lindestam Arlehamn, C. S., Andersen, P., & Mortensen, R. (2021). A Mycobacterium tuberculosis-specific subunit vaccine that provides synergistic immunity upon co-administration with Bacillus Calmette-Guérin. Nature communications, 12(1), 6658. https://doi.org/10.1038/s41467-021-26934-0
Woodworth, Joshua S, et al. "A Mycobacterium tuberculosis-specific subunit vaccine that provides synergistic immunity upon co-administration with Bacillus Calmette-Guérin." Nature communications vol. 12,1 (2021): 6658. doi: https://doi.org/10.1038/s41467-021-26934-0
Woodworth JS, Clemmensen HS, Battey H, Dijkman K, Lindenstrøm T, Laureano RS, Taplitz R, Morgan J, Aagaard C, Rosenkrands I, Lindestam Arlehamn CS, Andersen P, Mortensen R. A Mycobacterium tuberculosis-specific subunit vaccine that provides synergistic immunity upon co-administration with Bacillus Calmette-Guérin. Nat Commun. 2021 Nov 18;12(1):6658. doi: 10.1038/s41467-021-26934-0. PMID: 34795205; PMCID: PMC8602668.
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Spectral Domain Optical Coherence Tomography in Retinal Vasculopathy With Cerebral Leukoencephalopathy and Systemic Manifestations: A Monogenic Small Vessel Disease.

Journal of neuro-ophthalmology : the official journal of the North American Neuro-Ophthalmology Society

de Boer I, Steenmeijer SR, Pelzer N, Al-Nofal M, Dijkman G, Notting IC, Terwindt GM.
PMID: 34334759
J Neuroophthalmol. 2021 Jul 29; doi: 10.1097/WNO.0000000000001336. Epub 2021 Jul 29.

BACKGROUND: Retinal vasculopathy with cerebral leukoencephalopathy and systemic manifestations (RVCL-S) is a monogenic small vessel disease caused by mutations in TREX1. Several organs, including retina and brain, are affected. Analyzing retinal anatomy is increasingly used as a biomarker for...

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de Boer I, Steenmeijer SR, Pelzer N, et al. Spectral Domain Optical Coherence Tomography in Retinal Vasculopathy With Cerebral Leukoencephalopathy and Systemic Manifestations: A Monogenic Small Vessel Disease. J Neuroophthalmol. 2021;doi: 10.1097/WNO.0000000000001336.
de Boer, I., Steenmeijer, S. R., Pelzer, N., Al-Nofal, M., Dijkman, G., Notting, I. C., & Terwindt, G. M. (2021). Spectral Domain Optical Coherence Tomography in Retinal Vasculopathy With Cerebral Leukoencephalopathy and Systemic Manifestations: A Monogenic Small Vessel Disease. Journal of neuro-ophthalmology : the official journal of the North American Neuro-Ophthalmology Society, . https://doi.org/10.1097/WNO.0000000000001336
de Boer, Irene, et al. "Spectral Domain Optical Coherence Tomography in Retinal Vasculopathy With Cerebral Leukoencephalopathy and Systemic Manifestations: A Monogenic Small Vessel Disease." Journal of neuro-ophthalmology : the official journal of the North American Neuro-Ophthalmology Society vol. (2021). doi: https://doi.org/10.1097/WNO.0000000000001336
de Boer I, Steenmeijer SR, Pelzer N, Al-Nofal M, Dijkman G, Notting IC, Terwindt GM. Spectral Domain Optical Coherence Tomography in Retinal Vasculopathy With Cerebral Leukoencephalopathy and Systemic Manifestations: A Monogenic Small Vessel Disease. J Neuroophthalmol. 2021 Jul 29; doi: 10.1097/WNO.0000000000001336. Epub 2021 Jul 29. PMID: 34334759.
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Failure to Find Altruistic Food Sharing in Rats.

Frontiers in psychology

Wan H, Kirkman C, Jensen G, Hackenberg TD.
PMID: 34239487
Front Psychol. 2021 Jun 22;12:696025. doi: 10.3389/fpsyg.2021.696025. eCollection 2021.

Prior research has found that one rat will release a second rat from a restraint in the presence of food, thereby allowing that second rat access to food. Such behavior, clearly beneficial to the second rat and costly to...

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Wan H, Kirkman C, Jensen G, et al. Failure to Find Altruistic Food Sharing in Rats. Front Psychol. 2021;12:696025doi: 10.3389/fpsyg.2021.696025.
Wan, H., Kirkman, C., Jensen, G., & Hackenberg, T. D. (2021). Failure to Find Altruistic Food Sharing in Rats. Frontiers in psychology, 12696025. https://doi.org/10.3389/fpsyg.2021.696025
Wan, Haoran, et al. "Failure to Find Altruistic Food Sharing in Rats." Frontiers in psychology vol. 12 (2021): 696025. doi: https://doi.org/10.3389/fpsyg.2021.696025
Wan H, Kirkman C, Jensen G, Hackenberg TD. Failure to Find Altruistic Food Sharing in Rats. Front Psychol. 2021 Jun 22;12:696025. doi: 10.3389/fpsyg.2021.696025. eCollection 2021. PMID: 34239487; PMCID: PMC8259949.
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Smart-aggregation imaging for single molecule localisation with SPAD cameras.

Scientific reports

Gyongy I, Davies A, Dutton NA, Duncan RR, Rickman C, Henderson RK, Dalgarno PA.
PMID: 27876857
Sci Rep. 2016 Nov 23;6:37349. doi: 10.1038/srep37349.

Single molecule localisation microscopy (SMLM) has become an essential part of the super-resolution toolbox for probing cellular structure and function. The rapid evolution of these techniques has outstripped detector development and faster, more sensitive cameras are required to further...

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Gyongy I, Davies A, Dutton NA, et al. Smart-aggregation imaging for single molecule localisation with SPAD cameras. Sci Rep. 2016;6:37349doi: 10.1038/srep37349.
Gyongy, I., Davies, A., Dutton, N. A., Duncan, R. R., Rickman, C., Henderson, R. K., & Dalgarno, P. A. (2016). Smart-aggregation imaging for single molecule localisation with SPAD cameras. Scientific reports, 637349. https://doi.org/10.1038/srep37349
Gyongy, Istvan, et al. "Smart-aggregation imaging for single molecule localisation with SPAD cameras." Scientific reports vol. 6 (2016): 37349. doi: https://doi.org/10.1038/srep37349
Gyongy I, Davies A, Dutton NA, Duncan RR, Rickman C, Henderson RK, Dalgarno PA. Smart-aggregation imaging for single molecule localisation with SPAD cameras. Sci Rep. 2016 Nov 23;6:37349. doi: 10.1038/srep37349. PMID: 27876857; PMCID: PMC5120354.
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A genome-wide CRISPR screen identifies interactors of the autophagy pathway as conserved coronavirus targets.

PLoS biology

Kratzel A, Kelly JN, V'kovski P, Portmann J, Brüggemann Y, Todt D, Ebert N, Shrestha N, Plattet P, Staab-Weijnitz CA, von Brunn A, Steinmann E, Dijkman R, Zimmer G, Pfaender S, Thiel V.
PMID: 34962926
PLoS Biol. 2021 Dec 28;19(12):e3001490. doi: 10.1371/journal.pbio.3001490. eCollection 2021 Dec.

Over the past 20 years, 3 highly pathogenic human coronaviruses (HCoVs) have emerged-Severe Acute Respiratory Syndrome Coronavirus (SARS-CoV), Middle East Respiratory Syndrome Coronavirus (MERS-CoV), and, most recently, Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2)-demonstrating that coronaviruses (CoVs) pose a...

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Kratzel A, Kelly JN, V'kovski P, et al. A genome-wide CRISPR screen identifies interactors of the autophagy pathway as conserved coronavirus targets. PLoS Biol. 2021;19(12):e3001490doi: 10.1371/journal.pbio.3001490.
Kratzel, A., Kelly, J. N., V'kovski, P., Portmann, J., Brüggemann, Y., Todt, D., Ebert, N., Shrestha, N., Plattet, P., Staab-Weijnitz, C. A., von Brunn, A., Steinmann, E., Dijkman, R., Zimmer, G., Pfaender, S., & Thiel, V. (2021). A genome-wide CRISPR screen identifies interactors of the autophagy pathway as conserved coronavirus targets. PLoS biology, 19(12), e3001490. https://doi.org/10.1371/journal.pbio.3001490
Kratzel, Annika, et al. "A genome-wide CRISPR screen identifies interactors of the autophagy pathway as conserved coronavirus targets." PLoS biology vol. 19,12 (2021): e3001490. doi: https://doi.org/10.1371/journal.pbio.3001490
Kratzel A, Kelly JN, V'kovski P, Portmann J, Brüggemann Y, Todt D, Ebert N, Shrestha N, Plattet P, Staab-Weijnitz CA, von Brunn A, Steinmann E, Dijkman R, Zimmer G, Pfaender S, Thiel V. A genome-wide CRISPR screen identifies interactors of the autophagy pathway as conserved coronavirus targets. PLoS Biol. 2021 Dec 28;19(12):e3001490. doi: 10.1371/journal.pbio.3001490. eCollection 2021 Dec. PMID: 34962926; PMCID: PMC8741300.
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[No title available]

Avian pathology : journal of the W.V.P.A

Landman WJM, Buter GJ, Dijkman R, van Eck JHH.
PMID: 34351217
Avian Pathol. 2021 Oct;50(5):436-446. doi: 10.1080/03079457.2021.1962004. Epub 2021 Oct 04.

Fourteen genetically different chicken

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Landman WJM, Buter GJ, Dijkman R, et al. . Avian Pathol. 2021;50(5):436-446doi: 10.1080/03079457.2021.1962004.
Landman, W. J. M., Buter, G. J., Dijkman, R., & van Eck, J. H. H. (2021). . Avian pathology : journal of the W.V.P.A, 50(5), 436-446. https://doi.org/10.1080/03079457.2021.1962004
Landman, W J M, et al. "." Avian pathology : journal of the W.V.P.A vol. 50,5 (2021): 436-446. doi: https://doi.org/10.1080/03079457.2021.1962004
Landman WJM, Buter GJ, Dijkman R, van Eck JHH. . Avian Pathol. 2021 Oct;50(5):436-446. doi: 10.1080/03079457.2021.1962004. Epub 2021 Oct 04. PMID: 34351217.
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