The DOI matches its Crossref record; 15 of the 15 references it cites were found in a registry or an index.
Dissemination of scientific software with Galaxy ToolShed
Open accessAbstract
The proliferation of web-based integrative analysis frameworks has enabled users to perform complex analyses directly through the web. Unfortunately, it also revoked the freedom to easily select the most appropriate tools. To address this, we have developed Galaxy ToolShed.
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Cites
The variant call format and VCFtools
Danecek, P., Auton, A., Abecasis, G., Albers, C. A., Banks, E., DePristo, M. A., Handsaker, R. E., Lunter, G., Marth, G. T., Sherry, S. T., et al. (2011) · Bioinformatics · doi:10.1093/bioinformatics/btr330 · Cited by 16,200
Goecks, J., Nekrutenko, A., Taylor, J., & The Galaxy Team (2010) · Genome Biology · doi:10.1186/gb-2010-11-8-r86 · Cited by 3,453
Self-citationPersonal omics profiling reveals dynamic molecular and medical phenotypes
Chen, R., Mias, G. I., Li-Pook-Than, J., Jiang, L., Lam, H. Y. K., Chen, R., Miriami, E., Karczewski, K. J., Hariharan, M., Dewey, F. E., et al. (2012) · Cell · doi:10.1016/j.cell.2012.02.009 · Cited by 1,291
The Human Mitochondrial Transcriptome
Mercer, T. R., Neph, S., Dinger, M. E., Crawford, J., Smith, M. A., Shearwood, A.-M. J., Haugen, E., Bracken, C. P., Rackham, O., Stamatoyannopoulos, J. A., et al. (2011) · Cell · doi:10.1016/j.cell.2011.06.051 · Cited by 905
A general approach to single-nucleotide polymorphism discovery
Marth, G. T., Korf, I., Yandell, M. D., Yeh, R. T., Gu, Z., Zakeri, H., Stitziel, N. O., Hillier, L., Kwok, P.-Y., & Gish, W. R. (1999) · Nature Genetics · doi:10.1038/70570 · Cited by 571
Widespread RNA and DNA Sequence Differences in the Human Transcriptome
Li, M., Wang, I. X., Li, Y., Bruzel, A., Richards, A. L., Toung, J. M., & Cheung, V. G. (2011) · Science · doi:10.1126/science.1207018 · Cited by 463
Detecting Heteroplasmy from High-Throughput Sequencing of Complete Human Mitochondrial DNA Genomes
Li, M., Schönberg, A., Schaefer, M., Schroeder, R., Nasidze, I., & Stoneking, M. (2010) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2010.07.014 · Cited by 325
Next-generation sequencing data interpretation: enhancing reproducibility and accessibility
Nekrutenko, A., & Taylor, J. (2012) · Nature Reviews Genetics · doi:10.1038/nrg3305 · Cited by 318
Self-citationThe inheritance of mitochondrial DNA heteroplasmy: random drift, selection or both?
Chinnery, P. F., Thorburn, D. R., Samuels, D. C., White, S. L., Dahl, H.-H. M., Turnbull, D. M., Lightowlers, R. N., & Howell, N. (2000) · Trends in Genetics · doi:10.1016/s0168-9525(00)02120-x · Cited by 256
DiMauro, S. (2004) · Biochimica et Biophysica Acta (BBA) - Bioenergetics · doi:10.1016/j.bbabio.2004.03.014 · Cited by 200
Cited by
deepTools2: a next generation web server for deep-sequencing data analysis
Ramírez, F., Ryan, D. P., Grüning, B., Bhardwaj, V., Kilpert, F., Richter, A. S., Heyne, S., Dündar, F., & Manke, T. (2016) · Nucleic Acids Research · doi:10.1093/nar/gkw257 · Cited by 8,096
Nextflow enables reproducible computational workflows
Di Tommaso, P., Chatzou, M., Floden, E. W., Barja, P. P., Palumbo, E., & Notredame, C. (2017) · Nature Biotechnology · doi:10.1038/nbt.3820 · Cited by 4,001
deepTools: a flexible platform for exploring deep-sequencing data
Ramírez, F., Dündar, F., Diehl, S., Grüning, B. A., & Manke, T. (2014) · Nucleic Acids Research · doi:10.1093/nar/gku365 · Cited by 3,738
The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2018 update
Afgan, E., Baker, D., Batut, B., van den Beek, M., Bouvier, D., Čech, M., Chilton, J., Clements, D., Coraor, N., Grüning, B. A., et al. (2018) · Nucleic Acids Research · doi:10.1093/nar/gky379 · Cited by 3,662
Self-citationCNVkit: Genome-Wide Copy Number Detection and Visualization from Targeted DNA Sequencing
Talevich, E., Shain, A. H., Botton, T., & Bastian, B. C. (2016) · PLOS Computational Biology · doi:10.1371/journal.pcbi.1004873 · Cited by 2,094
Metadata
- Authors
- Blankenberg, D., Von Kuster, G., Bouvier, E., Baker, D., Afgan, E., Stoler, N., Galaxy Team, Taylor, J., & Nekrutenko, A.
- Venue
- Genome Biology
- Published
- 2014-02-20
- Volume
- 15
- Issue
- 2
- Pages
- 403-403
- ISSN
- 1465-6906 (ISSN-L)
- 1474-760X
- OpenAlex
- W2097464861
- Cited by
- 256
- References
- 15
- FWCI
- 47.13
- Type
- journal article
- Language
- en
- Open access
- gold
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- CoChat. (2026). Citation check: Dissemination of scientific software with Galaxy ToolShed. https://app.cochat.ai/papers/10.1186/gb4161
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- Blankenberg, D., Von Kuster, G., Bouvier, E., Baker, D., Afgan, E., Stoler, N., Galaxy Team, Taylor, J., & Nekrutenko, A. (2014). Dissemination of scientific software with Galaxy ToolShed. Genome Biology. https://doi.org/10.1186/gb4161
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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.
