AAAI Spring Symposium
Emotions for Strategic Real-Time Systems.
Olsen, M.M., Harrington, K. 
ORCID: https://orcid.org/0000-0002-7237-1973 and Siegelmann, H.T.
In: 2008 AAAI Spring Symposium, 26-28 Mar 2008, Stanford, CA, USA.
2008
Artificial Life
Escalation of memory length in finite populations.
Harrington, K. ORCID: https://orcid.org/0000-0002-7237-1973 and Pollack, J.
Artificial Life 25
(1): 22-32.
2 April 2019
Artificial gene regulatory networks-a review.
Cussat-Blanc, S., Harrington, K. ORCID: https://orcid.org/0000-0002-7237-1973 and Banzhaf, W.
Artificial Life 24
(4): 296-328.
2018
Artificial Life Conference Proceedings
Can active perception generate bistability? Heterogeneous collective dynamics and vascular patterning.
Bentley, K., Harrington, K.I. ORCID: https://orcid.org/0000-0002-7237-1973 and Regan, E.
In: 14th International Conference on the Synthesis and Simulation of Living Systems (ALIFE 2014), 30 Jul - 02 Aug 2014, Manhattan, New York, USA.
July 2014
Coevolution in hide and seek: camouflage and vision.
Harrington, K.I. ORCID: https://orcid.org/0000-0002-7237-1973, Freeman, J. and Pollack, J.
In: 14th International Conference on the Synthesis and Simulation of Living Systems (ALIFE 2014), 30 Jul - 02 Aug 2014, Manhattan, New York, USA.
July 2014
Feedback control of evolving swarms.
Gold, J., Wang, A. and Harrington, K.I. ORCID: https://orcid.org/0000-0002-7237-1973
In: 14th International Conference on the Synthesis and Simulation of Living Systems (ALIFE 2014), 30 Jul - 02 Aug 2014, Manhattan, New York, USA.
July 2014
The resistance of swarm ecosystem under environmental variation.
Lowell, J., Harrington, K. ORCID: https://orcid.org/0000-0002-7237-1973 and Pollack, J.
In: 14th International Conference on the Synthesis and Simulation of Living Systems (ALIFE 2014), 30 Jul - 02 Aug 2014, Manhattan, New York, USA.
July 2014
The effects of finite populations and selection on the emergence of signaling.
Harrington, K.I. ORCID: https://orcid.org/0000-0002-7237-1973, Ozisik, A.P. and Pollack, J.B.
In: 13th International Conference on the Synthesis and Simulation of Living Systems (ALIFE 2012), 19-22 Jul 2012, East Lansing, Michigan, USA.
July 2012
Bioinformatics
FunImageJ: a lisp framework for scientific image processing.
Harrington, K.I.S. ORCID: https://orcid.org/0000-0002-7237-1973, Rueden, C.T., Eliceiri, K.W. and
Bioinformatics 34
(5): 899-900.
1 March 2018
Biosystems
Complex population dynamics in a spatial microbial ecosystem with Physarum polycephalum.
Epstein, L., Dubois, Z., Smith, J., Lee, Y. ORCID: https://orcid.org/0000-0001-7478-2672 and Harrington, K. ORCID: https://orcid.org/0000-0002-7237-1973
Biosystems 208
: 104483.
October 2021
Acquisition and reconstruction of 4D surfaces of axolotl embryos with the flipping stage robotic microscope.
Crawford-Young, S.J., Dittapongpitch, S., Gordon, R. and Harrington, K.I.S. ORCID: https://orcid.org/0000-0002-7237-1973
Biosystems 173
: 214-220.
November 2018
Communicative & Integrative Biology
Eco-evolutionary dynamics of complex social strategies in microbial communities.
Harrington, K.I. ORCID: https://orcid.org/0000-0002-7237-1973 and Sanchez, A.
Communicative & Integrative Biology 7
(1): e28230.
25 February 2014
Development
Multi-sample SPIM image acquisition, processing and analysis of vascular growth in zebrafish.
Daetwyler, S. ORCID: https://orcid.org/0000-0002-7444-4734, Günther, U. ORCID: https://orcid.org/0000-0002-1179-8228, Modes, C.D. ORCID: https://orcid.org/0000-0001-9940-0730, Harrington, K. ORCID: https://orcid.org/0000-0002-7237-1973 and Huisken, J. ORCID: https://orcid.org/0000-0001-7250-3756
Development 146
(6): dev173757.
15 March 2019
EMBO Molecular Medicine
Single-cell profiling and zebrafish avatars reveal LGALS1 as immunomodulating target in glioblastoma.
Finotto, L. ORCID: https://orcid.org/0000-0002-4695-9343, Cole, B. ORCID: https://orcid.org/0000-0001-5899-5598, Giese, W. ORCID: https://orcid.org/0000-0003-0872-0929, Baumann, E. ORCID: https://orcid.org/0000-0002-7804-4885, Claeys, A., Vanmechelen, M. ORCID: https://orcid.org/0000-0002-8342-3150, Decraene, B. ORCID: https://orcid.org/0000-0002-2523-452X, Derweduwe, M. ORCID: https://orcid.org/0000-0002-4960-4847, Dubroja Lakic, N., Shankar, G., Nagathihalli Kantharaju, M., Albrecht, J.P. ORCID: https://orcid.org/0000-0002-3792-9695, Geudens, I. ORCID: https://orcid.org/0000-0003-3297-4208, Stanchi, F. ORCID: https://orcid.org/0000-0003-3393-2472, Ligon, K.L. ORCID: https://orcid.org/0000-0002-7733-600X, Boeckx, B. ORCID: https://orcid.org/0000-0002-0296-6680, Lambrechts, D. ORCID: https://orcid.org/0000-0002-3429-302X, Harrington, K. ORCID: https://orcid.org/0000-0002-7237-1973, Van Den Bosch, L. ORCID: https://orcid.org/0000-0003-0104-4067, De Vleeschouwer, S. ORCID: https://orcid.org/0000-0002-9576-9917, De Smet, F. ORCID: https://orcid.org/0000-0002-6669-3335 and Gerhardt, H. ORCID: https://orcid.org/0000-0002-3030-0384
EMBO Molecular Medicine 15
(11): e18144.
8 November 2023
Ecology and Evolution
Can fractal dimensions objectivize gastropod shell morphometrics? A case study from Lake Lugu (SW China).
Wiese, R. ORCID: https://orcid.org/0000-0003-4265-5454, Harrington, K. ORCID: https://orcid.org/0000-0002-7237-1973, Hartmann, K., Hethke, M., Rintelen, T., Zhang, H., Zhang, L.J. and Riedel, F.
Ecology and Evolution 12
(3): e8622.
February 2022
European Physical Journal Special Topics
Configurable NOR gate arrays from Belousov-Zhabotinsky micro-droplets.
Wang, A.L., Gold, J.M., Tompkins, N., Heymann, M., Harrington, K.I. ORCID: https://orcid.org/0000-0002-7237-1973 and Fraden, S.
European Physical Journal Special Topics 225
(1): 211-227.
February 2016
Frontiers in Big Data
Machine learning-based ozone and PM2.5 forecasting: application to multiple AQS sites in the Pacific Northwest.
Fan, K., Dhammapala, R., Harrington, K. ORCID: https://orcid.org/0000-0002-7237-1973, Lamb, B. and Lee, Y.
Frontiers in Big Data 6
: 1124148.
24 February 2023
Development of a machine learning approach for local-scale ozone forecasting: application to Kennewick, WA.
Fan, K., Dhammapala, R., Harrington, K. ORCID: https://orcid.org/0000-0002-7237-1973, Lamastro, R., Lamb, B. and Lee, Y.
Frontiers in Big Data 5
: 781309.
10 February 2022
Frontiers in Cell and Developmental Biology
PyZebraScope: an open-source platform for brain-wide neural activity imaging in zebrafish.
Barbara, R., Nagathihalli Kantharaju, M., Haruvi, R., Harrington, K. ORCID: https://orcid.org/0000-0002-7237-1973 and Kawashima, T.
Frontiers in Cell and Developmental Biology 10
: 875044.
19 May 2022
Frontiers in Computer Science
LABKIT: labeling and segmentation toolkit for big image data.
Arzt, M., Deschamps, J., Schmied, C., Pietzsch, T., Schmidt, D. ORCID: https://orcid.org/0000-0002-8621-9438, Tomancak, P., Haase, R. and Jug, F.
Frontiers in Computer Science 4
: 777728.
10 February 2022
IEEE Transactions on Evolutionary Computation
Gene regulatory network evolution through augmenting topologies.
Cussat-Blanc, S., Harrington, K. ORCID: https://orcid.org/0000-0002-7237-1973 and Pollack, J.
IEEE Transactions on Evolutionary Computation 19
(6): 823-837.
December 2015
International Journal of Natural Computing Research
Conspecific emotional cooperation biases population dynamics:a cellular automata approach.
Olsen, M.M., Harrington, K.I. ORCID: https://orcid.org/0000-0002-7237-1973 and Siegelmann, H.T.
International Journal of Natural Computing Research 1
(3): 51-65.
July 2010
Lecture Notes in Computer Science
Bionic tracking: using eye tracking to track biological cells in virtual reality.
Günther, U. ORCID: https://orcid.org/0000-0002-1179-8228, Harrington, K.I.S. ORCID: https://orcid.org/0000-0002-7237-1973, Dachselt, R. ORCID: https://orcid.org/0000-0002-2176-876X and Sbalzarini, I.F. ORCID: https://orcid.org/0000-0003-4414-4340
Lecture Notes in Computer Science 12535
: 280-297.
2021
Adaptive multi-modal sensors.
Harrington, K.I. ORCID: https://orcid.org/0000-0002-7237-1973 and Siegelmann, H.T.
In:
50 years of artificial intelligence.
Lecture Notes in Computer Science, 4850
(4850).
Springer, Berlin, Heidelberg, 164-173.
ISBN 978-3-540-77295-8
2007
Nature Cell Biology
A large pool of actively cycling progenitors orchestrates self-renewal and injury repair of an ectodermal appendage.
Sharir, A., Marangoni, P., Zilionis, R., Wan, M., Wald, T., Hu, J.K., Kawaguchi, K., Castillo-Azofeifa, D., Epstein, L., Harrington, K. ORCID: https://orcid.org/0000-0002-7237-1973, Pagella, P. ORCID: https://orcid.org/0000-0001-6912-0957, Mitsiadis, T., Siebel, C.W., Klein, A.M. ORCID: https://orcid.org/0000-0001-8913-7879 and Klein, O.D. ORCID: https://orcid.org/0000-0002-6254-7082
Nature Cell Biology 21
(9): 1102-1112.
September 2019
Asymmetric division coordinates collective cell migration in angiogenesis.
Costa, G., Harrington, K.I. ORCID: https://orcid.org/0000-0002-7237-1973, Lovegrove, H.E., Page, D.J., Chakravartula, S., Bentley, K. and Herbert, S.P.
Nature Cell Biology 18
(12): 1292-1301.
December 2016
Nature Communications
Polarity-JaM: an image analysis toolbox for cell polarity, junction and morphology quantification.
Giese, W. ORCID: https://orcid.org/0000-0003-0872-0929, Albrecht, J.P. ORCID: https://orcid.org/0000-0002-3792-9695, Oppenheim, O. ORCID: https://orcid.org/0000-0002-5299-3193, Akmeriç, E.B. ORCID: https://orcid.org/0000-0003-4463-8017, Kraxner, J. ORCID: https://orcid.org/0000-0002-3515-7468, Schmidt, D. ORCID: https://orcid.org/0000-0002-8621-9438, Harrington, K.I. ORCID: https://orcid.org/0000-0002-7237-1973 and Gerhardt, H. ORCID: https://orcid.org/0000-0002-3030-0384
Nature Communications 16
(1): 1474.
8 February 2025
Nature Methods
RS-FISH: precise, interactive, fast, and scalable FISH spot detection.
Bahry, E. ORCID: https://orcid.org/0000-0002-6358-2576, Breimann, L. ORCID: https://orcid.org/0000-0001-7702-5749, Zouinkhi, M. ORCID: https://orcid.org/0000-0002-9441-2908, Epstein, L., Kolyvanov, K., Mamrak, N., King, B., Long, Xi, Harrington, K.I.S. ORCID: https://orcid.org/0000-0002-7237-1973, Lionnet, T. ORCID: https://orcid.org/0000-0003-1508-0202 and Preibisch, S. ORCID: https://orcid.org/0000-0002-0276-494X
Nature Methods 19
(12): 1563-1567.
December 2022
SNT: a unifying toolbox for quantification of neuronal anatomy.
Arshadi, C. ORCID: https://orcid.org/0000-0002-1885-080X, Günther, U. ORCID: https://orcid.org/0000-0002-1179-8228, Eddison, M., Harrington, K.I.S. ORCID: https://orcid.org/0000-0002-7237-1973 and Ferreira, T.A. ORCID: https://orcid.org/0000-0001-6866-1540
Nature Methods 18
: 374-377.
April 2021
Nature Neuroscience
Imaging analysis of clock neurons reveals light buffers the wake-promoting effect of dopamine.
Shang, Y., Haynes, P., Pírez, N., Harrington, K.I. ORCID: https://orcid.org/0000-0002-7237-1973, Guo, F., Pollack, J., Hong, P., Griffith, L.C. and Rosbash, M.
Nature Neuroscience 14
(7): 889-895.
July 2011
Philosophical Transactions of the Royal Society of London Series B Biological Sciences
Active perception during angiogenesis: filopodia speed up Notch selection of tip cells in silico and in vivo.
Zakirov, B., Charalambous, G., Thuret, R., Aspalter, I.M., Van-Vuuren, K., Mead, T., Harrington, K. ORCID: https://orcid.org/0000-0002-7237-1973, Regan, E.R., Herbert, S.P. and Bentley, K. ORCID: https://orcid.org/0000-0002-9391-659X
Philosophical Transactions of the Royal Society of London Series B Biological Sciences 376
(1821): 20190753.
29 March 2021
Proceedings of the Conference on Genetic and Evolutionary Computation
Genetically-regulated neuromodulation facilitates multi-task reinforcement learning.
Cussat-Blanc, S. and Harrington, K.I.S. ORCID: https://orcid.org/0000-0002-7237-1973
In: GECCO '15: Genetic and Evolutionary Computation Conference, Jul 2015, Madrid, Spain.
July 2015
Autoconstructive evolution for structural problems.
Harrington, K.I. ORCID: https://orcid.org/0000-0002-7237-1973, Spector, L., Pollack, J.B. and O'Reilly, U.M.
In: GECCO '12: Genetic and Evolutionary Computation Conference, 7-11 Jul 2012, Philadelphia, PA, USA.
July 2012
Tag-based modularity in tree-based genetic programming.
Spector, L., Harrington, K. ORCID: https://orcid.org/0000-0002-7237-1973 and Helmuth, T.
In: GECCO '12: Genetic and Evolutionary Computation Conference, 7-11 Jul 2012, Philadelphia, PA, USA.
July 2012
The effects of tags on the evolution of honest signaling.
Ozisik, A.P. and Harrington, K.I. ORCID: https://orcid.org/0000-0002-7237-1973
In: GECCO '12: Genetic and Evolutionary Computation Conference, 7-11 Jul 2012, Philadelphia, PA, USA.
July 2012
Fecundity and selectivity in evolutionary computation.
Spector, L., Helmuth, T. and Harrington, K. ORCID: https://orcid.org/0000-0002-7237-1973
In: GECCO '11: Genetic and Evolutionary Computation Conference, 12-16 Jul 2011, Dublin, Ireland.
July 2011
Tag-based modules in genetic programming.
Spector, L., Martin, B., Harrington, K. ORCID: https://orcid.org/0000-0002-7237-1973 and Helmuth, T.
In: GECCO '11: Genetic and Evolutionary Computation Conference, 12-16 Jul 2011, Dublin, Ireland.
July 2011
Predicting reactions from amino acid sequences in S. cerevisiae: an evolutionary computation approach.
Harrington, K. ORCID: https://orcid.org/0000-0002-7237-1973
In: GECCO '07: Genetic and Evolutionary Computation Conference, 7-11 Jul 2007, London, UK.
July 2007
Proceedings of the IEEE Annual Northeast Bioengineering Conference, NEBEC
Modelling nonlinear chemical oscillators with inhibitory coupling.
Gold, J., Wang, A., Girabawe, C., Harrington, K. ORCID: https://orcid.org/0000-0002-7237-1973 and Fraden, S.
In: 2014 40th Annual Northeast Bioengineering Conference (NEBEC), 25-27 Apr 2014, Boston, MA, USA.
4 December 2014
Proceedings of the International Joint Conference on Neural Networks
Robot coverage control by evolved neuromodulation.
Harrington, K.I. ORCID: https://orcid.org/0000-0002-7237-1973, Awa, E., Cussat-Blanc, S. and Pollack, J.
In: 2013 International Joint Conference on Neural Networks (IJCNN 2013), 4-9 Aug 2013, Dallas, TX, USA.
9 January 2014
Communicated somatic markers benefit both the individual and the species.
Harrington, K.I. ORCID: https://orcid.org/0000-0002-7237-1973, Olsen, M.M. and Siegelmann, H. T.
In: 2011 International Joint Conference on Neural Networks (IJCNN 2011), 31 Jul - 5 Aug 2011, San Jose, CA, USA.
3 October 2011
Quarterly Review of Biology
The digital cell: cell biology as a data science by Stephen J. Royle.
Harrington, K.I.S. ORCID: https://orcid.org/0000-0002-7237-1973
University of Chicago Press / Stony Brook University.
March 2021
Theoretical Computer Science
A circuit basis for morphogenesis.
Harrington, K.I.S. ORCID: https://orcid.org/0000-0002-7237-1973
Theoretical Computer Science 633
: 28-36.
20 June 2016
eLife
Mouse retinal cell behaviour in space and time using light sheet fluorescence microscopy.
Prahst, C., Ashrafzadeh, P., Mead, T. ORCID: https://orcid.org/0000-0003-2728-670X, Figueiredo, A., Chang, K., Richardson, D., Venkaraman, L., Richards, M., Russo, A.M., Harrington, K. ORCID: https://orcid.org/0000-0002-7237-1973, Ouarné, M., Pena, A., Chen, J.X. ORCID: https://orcid.org/0000-0001-6283-8843, Claesson-Welsh, L. ORCID: https://orcid.org/0000-0003-4275-2000, Cho, K.S. ORCID: https://orcid.org/0000-0003-4285-615X, Franco, C.A. ORCID: https://orcid.org/0000-0002-2861-3883 and Bentley, K. ORCID: https://orcid.org/0000-0002-9391-659X
eLife 9
: e49779.
19 February 2020
Temporal modulation of collective cell behavior controls vascular network topology.
Kur, E., Kim, J., Tata, A., Comin, C.H., Harrington, K.I. ORCID: https://orcid.org/0000-0002-7237-1973, Costa, L.d.F., Bentley, K. and Gu, C. ORCID: https://orcid.org/0000-0002-4212-7232
eLife 5
: e13212.
24 February 2016
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