ACT: the Artemis comparison tool

By T. Carver, Kim M Rutherford, Matthew Berriman, M. Rajandream, B. Barrell, Julian Parkhill. Bioinform., 2005

1,636 citations recorded by the source corpus.

Subfields: Infectious Diseases, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/c9d59eaf99428c522a11003798945f4b2fa489c7

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In Infectious Diseases

Martin C. J. Maiden

In Molecular Biology

Citations in the corpus

Artemis: an integrated platform for visualization and analysis of high-throughput sequence-based experimental data (2011, background): “The study of functional genomics and quantitative gene expression studies has greatly benefited from RNA-seq experiments, which have refined our understanding of expression and significantly improved annotation (Bruno, et al., 2010, Croucher and Thomson, 2010, Daines et al., 2011, Lu et al., 2010,…”
Artemis and ACT: viewing, annotating and comparing sequences stored in a relational database (2008, background): “Artemis (Berriman and Rutherford, 2003; Rutherford et al ., 2000) and the Artemis Comparison Tool (Carver et al. , 2005) (ACT) have gathered increasing number of users since their initial release with more than 33000 downloads in 2007 (Fig.”
A Bioinformatician's Guide to Metagenomics (2008, background): “available for comparative genomic analysis, including ACT (16), MicrobesOnLine (5), 1150 CMR (104), ERGO (99), PUMA2 (80), COGENT++ (48) and IMG (87) but only recently have data management systems been developed specifically for metagenomic analysis, notably CAMERA (117), IMG/M (86) and SEED (97).”
BLAST Ring Image Generator (BRIG): simple prokaryote genome comparisons (2011, methodology): “Linear representations, like those that can be generated using Artemis Comparison Tool (ACT) [3], Genome2D [4], Combo [5], VISTA [6], Mauve [7], BugView [8] and Genomorama [9], have advantages in showing insertions and deletions between genomic sequences and certain programs, like Mauve and ACT, can”
BIGSdb: Scalable analysis of bacterial genome variation at the population level (2010, background): “Existing tools [50-52] do not scale well to the challenge of handling multiple genomes at the scale that will be required in the near future.”
Comparing thousands of circular genomes using the CGView Comparison Tool (2012, background): “For example, ACT [1] and Circos [9] use lines to connect regions of sequence similarity between sequence ideograms, and can thus be used to visualize”
The multidrug-resistant human pathogen Clostridium difficile has a highly mobile, mosaic genome (2006, methodology): “Comparison of genome sequences was facilitated by using the Artemis Comparison Tool (ACT”
The CGView Server: a comparative genomics tool for circular genomes (2008, neutral): “For example, PipMaker (6) and ACT ( 7 ) can be used to visualize the similarity between user-supplied sequences, and offer more flexibility than genome browsers in terms of how sequences are compared.”
Easyfig: a genome comparison visualizer (2011, neutral): “Artemis comparison tool (ACT; Carver et al., 2005) and Mauve (Darling et al., 2010) are both examples of excellent comparative genome analysis tools that are widely used to generate figures for publication, but are not designed for this purpose and generally lose clarity when displaying several…”