2024
Polarity-JaM: An image analysis toolbox for cell polarity, junction and morphology quantification.
Giese, W., Albrecht, J.P., Oppenheim, O., Akmeriç, E.B., Kraxner, J., Schmidt, D., Harrington, K.I. and Gerhardt, H.
bioRxiv
: 2024.01.24.577027v2.
27 April 2024
2023
Single-cell profiling and zebrafish avatars reveal LGALS1 as immunomodulating target in glioblastoma.
Finotto, L., Cole, B., Giese, W., Baumann, E., Claeys, A., Vanmechelen, M., Decraene, B., Derweduwe, M., Dubroja Lakic, N., Shankar, G., Nagathihalli Kantharaju, M., Albrecht, J.P., Geudens, I., Stanchi, F., Ligon, K.L., Boeckx, B., Lambrechts, D., Harrington, K., Van Den Bosch, L., De Vleeschouwer, S., De Smet, F. and Gerhardt, H.
EMBO Molecular Medicine 15
(11): e18144.
8 November 2023
Modelling viral encephalitis caused by herpes simplex virus 1 infection in cerebral organoids.
Rybak-Wolf, A., Wyler, E., Pentimalli, T.M., Legnini, I., Oliveras Martinez, A., Glažar, P., Loewa, A., Kim, S.J., Kaufer, B.B., Woehler, A., Landthaler, M. and Rajewsky, N.
Nature Microbiology 8
(7): 1252-1266.
July 2023
Machine learning-based ozone and PM2.5 forecasting: application to multiple AQS sites in the Pacific Northwest.
Fan, K., Dhammapala, R., Harrington, K., Lamb, B. and Lee, Y.
Frontiers in Big Data 6
: 1124148.
24 February 2023
2022
RS-FISH: precise, interactive, fast, and scalable FISH spot detection.
Bahry, E., Breimann, L., Zouinkhi, M., Epstein, L., Kolyvanov, K., Mamrak, N., King, B., Long, Xi, Harrington, K.I.S., Lionnet, T. and Preibisch, S.
Nature Methods 19
(12): 1563-1567.
December 2022
PyZebraScope: an open-source platform for brain-wide neural activity imaging in zebrafish.
Barbara, R., Nagathihalli Kantharaju, M., Haruvi, R., Harrington, K. and Kawashima, T.
Frontiers in Cell and Developmental Biology 10
: 875044.
19 May 2022
Development of a machine learning approach for local-scale ozone forecasting: application to Kennewick, WA.
Fan, K., Dhammapala, R., Harrington, K., Lamastro, R., Lamb, B. and Lee, Y.
Frontiers in Big Data 5
: 781309.
10 February 2022
LABKIT: labeling and segmentation toolkit for big image data.
Arzt, M., Deschamps, J., Schmied, C., Pietzsch, T., Schmidt, D., Tomancak, P., Haase, R. and Jug, F.
Frontiers in Computer Science 4
: 777728.
10 February 2022
Can fractal dimensions objectivize gastropod shell morphometrics? A case study from Lake Lugu (SW China).
Wiese, R., Harrington, K., Hartmann, K., Hethke, M., Rintelen, T., Zhang, H., Zhang, L.J. and Riedel, F.
Ecology and Evolution 12
(3): e8622.
February 2022
Mathematical and bioinformatic tools for cell tracking.
Hirsch, P., Epstein, L. and Guignard, L.
In:
Cell Movement in Health and Disease.
Academic Press, London, 341-361.
ISBN 978-0-323-90195-6
2022
2021
Complex population dynamics in a spatial microbial ecosystem with Physarum polycephalum.
Epstein, L., Dubois, Z., Smith, J., Lee, Y. and Harrington, K.
Biosystems 208
: 104483.
October 2021
SNT: a unifying toolbox for quantification of neuronal anatomy.
Arshadi, C., Günther, U., Eddison, M., Harrington, K.I.S. and Ferreira, T.A.
Nature Methods 18
: 374-377.
April 2021
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., Regan, E.R., Herbert, S.P. and Bentley, K.
Philosophical Transactions of the Royal Society of London Series B Biological Sciences 376
(1821): 20190753.
29 March 2021
Bionic tracking: using eye tracking to track biological cells in virtual reality.
Günther, U., Harrington, K.I.S., Dachselt, R. and Sbalzarini, I.F.
Lecture Notes in Computer Science 12535
: 280-297.
2021
2020
Mouse retinal cell behaviour in space and time using light sheet fluorescence microscopy.
Prahst, C., Ashrafzadeh, P., Mead, T., Figueiredo, A., Chang, K., Richardson, D., Venkaraman, L., Richards, M., Russo, A.M., Harrington, K., Ouarné, M., Pena, A., Chen, J.X., Claesson-Welsh, L., Cho, K.S., Franco, C.A. and Bentley, K.
eLife 9
: e49779.
19 February 2020
2019
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., Pagella, P., Mitsiadis, T., Siebel, C.W., Klein, A.M. and Klein, O.D.
Nature Cell Biology 21
(9): 1102-1112.
September 2019
Escalation of memory length in finite populations.
Harrington, K. and Pollack, J.
Artificial Life 25
(1): 22-32.
2 April 2019
Multi-sample SPIM image acquisition, processing and analysis of vascular growth in zebrafish.
Daetwyler, S., Günther, U., Modes, C.D., Harrington, K. and Huisken, J.
Development 146
(6): dev173757.
15 March 2019
2018
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.
Biosystems 173
: 214-220.
November 2018
FunImageJ: a lisp framework for scientific image processing.
Harrington, K.I.S., Rueden, C.T. and Eliceiri, K.W.
Bioinformatics 34
(5): 899-900.
1 March 2018
Artificial gene regulatory networks-a review.
Cussat-Blanc, S., Harrington, K. and Banzhaf, W.
Artificial Life 24
(4): 296-328.
2018
2016
Asymmetric division coordinates collective cell migration in angiogenesis.
Costa, G., Harrington, K.I., Lovegrove, H.E., Page, D.J., Chakravartula, S., Bentley, K. and Herbert, S.P.
Nature Cell Biology 18
(12): 1292-1301.
December 2016
A circuit basis for morphogenesis.
Harrington, K.I.S.
Theoretical Computer Science 633
: 28-36.
20 June 2016
Temporal modulation of collective cell behavior controls vascular network topology.
Kur, E., Kim, J., Tata, A., Comin, C.H., Harrington, K.I., Costa, L.d.F., Bentley, K. and Gu, C.
eLife 5
: e13212.
24 February 2016
Configurable NOR gate arrays from Belousov-Zhabotinsky micro-droplets.
Wang, A.L., Gold, J.M., Tompkins, N., Heymann, M., Harrington, K.I. and Fraden, S.
European Physical Journal Special Topics 225
(1): 211-227.
February 2016
2015
Gene regulatory network evolution through augmenting topologies.
Cussat-Blanc, S., Harrington, K. and Pollack, J.
IEEE Transactions on Evolutionary Computation 19
(6): 823-837.
December 2015
Genetically-regulated neuromodulation facilitates multi-task reinforcement learning.
Cussat-Blanc, S. and Harrington, K.I.S.
In: GECCO '15: Genetic and Evolutionary Computation Conference, Jul 2015, Madrid, Spain.
July 2015
2014
Modelling nonlinear chemical oscillators with inhibitory coupling.
Gold, J., Wang, A., Girabawe, C., Harrington, K. and Fraden, S.
In: 2014 40th Annual Northeast Bioengineering Conference (NEBEC), 25-27 Apr 2014, Boston, MA, USA.
4 December 2014
Can active perception generate bistability? Heterogeneous collective dynamics and vascular patterning.
Bentley, K., Harrington, K.I. 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., 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.
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. 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
Eco-evolutionary dynamics of complex social strategies in microbial communities.
Harrington, K.I. and Sanchez, A.
Communicative & Integrative Biology 7
(1): e28230.
25 February 2014
Robot coverage control by evolved neuromodulation.
Harrington, K.I., 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
2012
Autoconstructive evolution for structural problems.
Harrington, K.I., 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. and Helmuth, T.
In: GECCO '12: Genetic and Evolutionary Computation Conference, 7-11 Jul 2012, Philadelphia, PA, USA.
July 2012
The effects of finite populations and selection on the emergence of signaling.
Harrington, K.I., 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
The effects of tags on the evolution of honest signaling.
Ozisik, A.P. and Harrington, K.I.
In: GECCO '12: Genetic and Evolutionary Computation Conference, 7-11 Jul 2012, Philadelphia, PA, USA.
July 2012
2011
Communicated somatic markers benefit both the individual and the species.
Harrington, K.I., 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
Fecundity and selectivity in evolutionary computation.
Spector, L., Helmuth, T. and Harrington, K.
In: GECCO '11: Genetic and Evolutionary Computation Conference, 12-16 Jul 2011, Dublin, Ireland.
July 2011
Imaging analysis of clock neurons reveals light buffers the wake-promoting effect of dopamine.
Shang, Y., Haynes, P., Pírez, N., Harrington, K.I., Guo, F., Pollack, J., Hong, P., Griffith, L.C. and Rosbash, M.
Nature Neuroscience 14
(7): 889-895.
July 2011
Tag-based modules in genetic programming.
Spector, L., Martin, B., Harrington, K. and Helmuth, T.
In: GECCO '11: Genetic and Evolutionary Computation Conference, 12-16 Jul 2011, Dublin, Ireland.
July 2011
2010
Conspecific emotional cooperation biases population dynamics:a cellular automata approach.
Olsen, M.M., Harrington, K.I. and Siegelmann, H.T.
International Journal of Natural Computing Research 1
(3): 51-65.
July 2010
2008
Emotions for Strategic Real-Time Systems.
Olsen, M.M., Harrington, K. and Siegelmann, H.T.
In: 2008 AAAI Spring Symposium, 26-28 Mar 2008, Stanford, CA, USA.
2008
2007
Predicting reactions from amino acid sequences in S. cerevisiae: an evolutionary computation approach.
Harrington, K.
In: GECCO '07: Genetic and Evolutionary Computation Conference, 7-11 Jul 2007, London, UK.
July 2007
Adaptive multi-modal sensors.
Harrington, K.I. 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
This list was generated on Thu Dec 12 07:12:37 2024 UTC.