TomoJ: tomography software for three-dimensional reconstruction in transmission electron microscopy
By Cédric Messaoudi, Thomas Boudier, Carlos Oscar Sánchez Sorzano, Sergio Marco. BMC Bioinformatics, 2007
300 citations recorded by the source corpus.
BackgroundTransmission electron tomography is an increasingly common three-dimensional electron microscopy approach that can provide new insights into the structure of subcellular components. Transmission electron tomography fills the gap between high resolution structural methods (X-ray diffraction or nuclear magnetic resonance) and optical microscopy. We developed new software for transmission electron tomography, TomoJ. TomoJ is a plug-in for the now standard image analysis and processing software for optical microscopy, ImageJ.ResultsTomoJ provides a user-friendly interface for alignment, reconstruction, and combination of multiple tomographic volumes and includes the most recent algorithms for volume reconstructions used in three-dimensional electron microscopy (the algebraic reconstruction technique and simultaneous iterative reconstruction technique) as well as the commonly used approach of weighted back-projection.ConclusionThe software presented in this work is specifically designed for electron tomography. It has been written in Java as a plug-in for ImageJ and is distributed as freeware.
Subfields: Radiation, Structural Biology, Surfaces, Coatings and Films
View Paper: https://www.semanticscholar.org/paper/0d28b0ca98fb12b022a896f22251b898f25930a3
How researchers see this paper
The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.
In Structural Biology
- Johannes E. Schindelin
- Benjamin Schmid
- Albert Cardona
- Jan Sijbers
- Willem Jan Palenstijn
- Mark Longair
- Kees Joost Batenburg
- Kevin W. Eliceiri
In Surfaces, Coatings and Films
- Jan Sijbers
- Benjamin Schmid
- Albert Cardona
- Willem Jan Palenstijn
- Johannes E. Schindelin
- Mark Longair
- Kees Joost Batenburg
Citations in the corpus
- The ASTRA Toolbox: A platform for advanced algorithm development in electron tomography. (2015, methodology): “Within the academic community, several free packages have been developed including IMOD [10, 11], EFTET-J [7], Protomo [12], UCSF tomography [13, 14], TomoJ [15], TOM Toolbox [16] and TxBR [17].”
- A high-level 3D visualization API for Java and ImageJ (2010, methodology): “Our library complements TomoJ, enabling convenient 3D analysis of the results without the need of exter-nal software such as Chimera [3].”