Publications

See the latest updated and complete list of publications at Albert Cardona's OpenAlex profile, at ORCID, or at Google Scholar.

Selected articles in peer-reviewed journals

Winding M, Pedigo BD, Barnes CL, Patsolic HG, Park Y, Kazimiers T, Fushiki A, Andrade IV, Khandelwal A, Valdes-Aleman J, Li F, Randel N, Barsotti E, Correia A, Fetter RD, Hartenstein V, Priebe CE, Vogelstein JT, Cardona A, Zlatic M. The connectome of an insect brain. 2023. Science 379(6636):eadd9330
Corrales M, Cocanougher BT, Kohn AB, Wittenbach JD, Long XS, Lemire A, Cardona A, Singer RH, Moroz LL, Zlatic M. A single-cell transcriptomic atlas of complete insect nervous systems across multiple life stages. 2022. Neural Development 17(1):8.
Barnes CL, Bonnéry D, Cardona A. Synaptic counts approximate synaptic contact area in Drosophila. 2022. PLoS ONE 17(4):e0266064.
Barsotti E, Correia A, Cardona A. Neural architectures in the light of comparative connectomics. Curr Op Neurobiol 2021 71:139-49.
Eschbach C, Fushiki A, Winding M, Afonso B, Andrade IV, Cocanougher BT, Eichler K, Gepner R, Si G, Valdes-Aleman J, Fetter RD, Gershow M, Jefferis GSXE, Samuel ADT, Truman JW, Cardona A, Zlatic M. Circuits for integrating learned and innate valences in the insect brain. eLife 2021 e62567.
Valdes-Aleman J, Fetter RD, Sales EC, Heckman EL, Venkatasubramanian L, Doe CQ, Landgraf M, Cardona A, Zlatic M. Comparative connectomics reveals how partner identity, location, and activity specify synaptic connectivity in Drosophila. Neuron, 2021 109(1):105-22.
Eschbach C, Fushiki A, Winding M, Schneider-Mizell CM, Shao M, Arruda R, Eichler K, Valdes-Aleman J, Ohyama T, Thum AS, Gerber B, Fetter RD, Truman JW, Litwin-Kumar A, Cardona A, Zlatic M. Recurrent architecture for adaptive regulation of learning in the insect brain

Nature Neuroscience, 2020, 23(4):544-55.

Eichler K, Li F, Litwin-Kumar A, Park Y, Andrade I, Schneider-Mizell CM, Saumweber T, Huser A, Eschbach C, Gerber B, Fetter RD, Truman JW, Priebe CE, Abbott LF, Thum SA, Zlatic M, Cardona A. The complete connectome of a learning and memory centre in an insect brain. Nature. 2017 Aug;548(7666):175. and bioRxiv.
Arganda-Carreras I, Kaynig V, Rueden C, Eliceiri KW, Schindelin J, Cardona A, Sebastian Seung H. Trainable Weka Segmentation: a machine learning tool for microscopy pixel classification. Bioinformatics. 2017 Mar 30;33(15):2424-6. DOI Link
Gerhard S, Andrade I, Fetter RD, Cardona A, Schneider-Mizell CM. Conserved neural circuit structure across Drosophila larval development revealed by comparative connectomics. eLife. 2017;6. DOI Link
Larderet I, Fritsch PM, Gendre N, Neagu-Maier GL, Fetter RD, Schneider-Mizell CM, Truman JW, Zlatic M, Cardona A, Sprecher SG. Organization of the Drosophila larval visual circuit. Elife. 2017;6. DOI Link
Jovanic T, Schneider-Mizell CM, Shao M, Masson JB, Denisov G, Fetter RD, Mensh BD, Truman JW, Cardona A, Zlatic M. Competitive disinhibition mediates behavioral choice and sequences in Drosophila. Cell. 2016 Oct 20;167(3):858-70. DOI Link
Zwart MF, Pulver SR, Truman JW, Fushiki A, Fetter RD, Cardona A, Landgraf M. Selective inhibition mediates the sequential recruitment of motor pools. Neuron. 2016 Aug 3;91(3):615-28. DOI Link
Matthew E. Berck*, Avinash Khandelwal*, Lindsey Claus, Luis Hernandez-Nunez, Guangwei Si, Christopher J. Tabone, Feng Li, James W. Truman, Richard D. Fetter, Matthieu Louis+, Aravinthan D. T. Samuel+, Albert Cardona+. 2016. The wiring diagram of a glomerular olfactory system. eLife.
Casey M. Schneider-Mizell*, Stephan Gerhard*, Mark Longair, Tom Kazimiers, Feng Li, Maarten F. Zwart, Andrew Champion, Frank M. Midgley, Richard D. Fetter, Stephan Saalfeld, Albert Cardona. 2016. Quantitative neuroanatomy for connectomics in Drosophila. eLife.
Akira Fushiki, Maarten F. Zwart, Hiroshi Kohsaka, Richard D. Fetter, Albert Cardona* Akinao Nose*. 2006. A circuit mechanism for the propagation of waves of muscle contraction in Drosophila. eLife.
Ohyama, T.*, Schneider-Mizell, C. M.*, Fetter, R. D., Aleman, J. V., Franconville, R., Rivera-Alba, M., Mensh, B. D., Branson, K. M., Simpson, J. H., Truman, J. W., Cardona, A.^, Zlatic, M.^ 2015. A multilevel multimodal circuit enhances action selection in Drosophila. Nature 520, 633-639 (30 April 2015) doi:10.1038/nature14297. PDF
Stephan Saalfeld, Richard Fetter, Albert Cardona, Pavel Tomancak. 2012. Elastic Volume Reconstruction from Series of Ultra-thin Microscopy Sections. Nature Methods doi:10.1038/nmeth.2072. PDF
Albert Cardona and Pavel Tomancak. 2012. Current challenges in open-source bioimage informatics. Nature Methods 9:661-5. Commentary. PDF
Johannes Schindelin, Ignacio Arganda-Carreras, Erwin Frise, Verena Kaynig, Mark Longair, Tobias Pietzsch, Stephan Preibisch, Curtis Rueden, Stephan Saalfeld, Benjamin Schmid, Jean-Yves Tinevez, Daniel James White, Volker Hartenstein, Kevin Eliceiri, Pavel Tomancak, Albert Cardona. 2012. Fiji - an Open Source platform for biological image analysis. Nature Methods 9:676-82. PDF
Albert Cardona, Stephan Saalfeld, Johannes Schindelin, Ignacio Arganda-Carreras, Stephan Preibisch, Mark Longair, Pavel Tomancak, Volker Hartenstein, Rodney J. Douglas. 2012. TrakEM2 software for neural circuit reconstruction. PLoS ONE 7(6): e38011.
Jan Funke, Bjoern Andres, Fred Hamprecht, Albert Cardona, Matthew Cook. 2012. Efficient Automatic 3D-Reconstruction of Branching Neurons from EM Data. CVPR 2012. [PDF]
Cardona A, Saalfeld S, Preibisch S, Schmid B, Cheng A, Pulokas J, Tomancak P, Hartenstein V. 2010. An Integrated Micro- and Macroarchitectural Analysis of the Drosophila Brain by Computer-Assisted Serial Section Electron Microscopy. PLoS Biol 8(10): e1000502. doi:10.1371/journal.pbio.1000502.
Cardona A, Saalfeld S, Arganda I, Pereanu W, Schindelin J, Hartenstein V. 2010. Identifying neuronal lineages of Drosophila by sequence analysis of axon tracts. J Neurosci 30(22):7538-7553. doi:10.1523/JNEUROSCI.0186-10.2010. [PDF]
Saalfeld S, Cardona A, Hartenstein V, Tomancák P. 2010. As-rigid-as-possible mosaicking and serial section registration of large ssTEM datasets. Bioinformatics. 2010 Jun 15;26(12):i57-63. [Link]
Schmid B, Schindelin J, Cardona A, Longair M, Heinsenberg M. 2010. A high-level 3D visualization API for Java and ImageJ. BMC Bioinformatics 11:274. doi:10.1186/1471-2105-11-274. [Link]
Saalfeld S, Cardona A, Hartenstein V, Tomancak P. CATMAID: Collaborative Annotation Toolkit for Massive Amounts of Image Data. Bioinformatics. 2009 Apr 17. [paper]

Other publications

"Entendre el genoma: les xarxes booleanes com a model." (Understanding the genome: boolean networks as a model). Omnis Cellula 4 (March 2004). [PDF]

PhD Thesis

"The embryonic development of the triclad Schmidtea polychroa."
Defended July 19th, 2005, at the University of Barcelona, Spain. Directed by Prof. Rafael Romero.
Available in printing quality [ PDF ]; also the public defense slides.