The DOI matches its Crossref record.
Artemis and ACT: viewing, annotating and comparing sequences stored in a relational database
Open accessAbstract
Motivation: Artemis and Artemis Comparison Tool (ACT) have become mainstream tools for viewing and annotating sequence data, particularly for microbial genomes. Since its first release, Artemis has been continuously developed and supported with additional functionality for editing and analysing sequences based on feedback from an active user community of laboratory biologists and professional annotators. Nevertheless, its utility has been somewhat restricted by its limitation to reading and writing from flat files. Therefore, a new version of Artemis has been developed, which reads from and writes to a relational database schema, and allows users to annotate more complex, often large and fragmented, genome sequences. Results: Artemis and ACT have now been extended to read and write directly to the Generic Model Organism Database (GMOD, http://www.gmod.org) Chado relational database schema. In addition, a Gene Builder tool has been developed to provide structured forms and tables to edit coordinates of gene models and edit functional annotation, based on standard ontologies, controlled vocabularies and free text. Availability: Artemis and ACT are freely available (under a GPL licence) for download (for MacOSX, UNIX and Windows) at the Wellcome Trust Sanger Institute web sites: http://www.sanger.ac.uk/Software/Artemis/http://www.sanger.ac.uk/Software/ACT/ Contact: artemis@sanger.ac.uk Supplementary information: Supplementary data are available at Bioinformatics online.
Overview
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Verification
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Citations
Cited by
Wang, M., Carver, J. J., Phelan, V. V., Sanchez, L. M., Garg, N., Peng, Y., Nguyen, D. D., Watrous, J., Kapono, C. A., Luzzatto-Knaan, T., et al. (2016) · Nature Biotechnology · doi:10.1038/nbt.3597 · Cited by 4,629
BIGSdb: Scalable analysis of bacterial genome variation at the population level
Jolley, K. A., & Maiden, M. C. (2010) · BMC Bioinformatics · doi:10.1186/1471-2105-11-595 · Cited by 2,368
Groß, U., Brzuszkiewicz, E., Gunka, K., Starke, J., Riedel, T., Bunk, B., Spröer, C., Wetzel, D., Poehlein, A., Chibani, C., et al. (2018) · BMC Genomics · doi:10.1186/s12864-017-4368-0 · Cited by 687
Alsford, S., Turner, D. J., Obado, S. O., Sanchez-Flores, A., Glover, L., Berriman, M., Hertz-Fowler, C., & Horn, D. (2011) · Genome Research · doi:10.1101/gr.115089.110 · Cited by 470
Self-citationDowning, T., Imamura, H., Decuypere, S., Clark, T. G., Coombs, G. H., Cotton, J. A., Hilley, J. D., de Doncker, S., Maes, I., Mottram, J. C., et al. (2011) · Genome Research · doi:10.1101/gr.123430.111 · Cited by 423
Self-citation
Metadata
- Authors
- Carver, T., Berriman, M., Tivey, A., Patel, C., Böhme, U., Barrell, B. G., Parkhill, J., & Rajandream, M.-A.
- Venue
- Bioinformatics
- Publisher
- Oxford University Press (OUP)
- Published
- 2008-10-09
- Volume
- 24
- Issue
- 23
- Pages
- 2672-2676
- ISSN
- 1367-4803 (ISSN-L)
- 1367-4811
- OpenAlex
- W2128784468
- Cited by
- 572
- References
- 0
- FWCI
- 13.52
- Type
- journal article
- Language
- en
- Open access
- hybrid
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
How to cite
Cite CoChat for the checks on this page, and the paper for its own findings.
- This page
- CoChat. (2026). Citation check: Artemis and ACT: viewing, annotating and comparing sequences stored in a relational database. https://app.cochat.ai/papers/10.1093/bioinformatics/btn529
- The paper
- Carver, T., Berriman, M., Tivey, A., Patel, C., Böhme, U., Barrell, B. G., Parkhill, J., & Rajandream, M.-A. (2008). Artemis and ACT: viewing, annotating and comparing sequences stored in a relational database. Bioinformatics. https://doi.org/10.1093/bioinformatics/btn529
Data sources
Bibliographic data: Semantic Scholar, OpenAlex, Crossref.
Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.
