CellClassifier: supervised learning of cellular phenotypes - PubMed (original) (raw)
. 2009 Nov 15;25(22):3028-30.
doi: 10.1093/bioinformatics/btp524. Epub 2009 Sep 2.
Affiliations
- PMID: 19729371
- DOI: 10.1093/bioinformatics/btp524
CellClassifier: supervised learning of cellular phenotypes
Pauli Rämö et al. Bioinformatics. 2009.
Abstract
CellClassifier is a tool for classifying single-cell phenotypes in microscope images. It includes several unique and user-friendly features for classification using multiclass support vector machines
Availability: Source code, user manual and SaveObjectSegmentation CellProfiler module available for download at www.cellclassifier.ethz.ch under the GPL license (implemented in Matlab).
Similar articles
- Hooke: an open software platform for force spectroscopy.
Sandal M, Benedetti F, Brucale M, Gomez-Casado A, Samorì B. Sandal M, et al. Bioinformatics. 2009 Jun 1;25(11):1428-30. doi: 10.1093/bioinformatics/btp180. Epub 2009 Mar 31. Bioinformatics. 2009. PMID: 19336443 - Bifurcation discovery tool.
Chickarmane V, Paladugu SR, Bergmann F, Sauro HM. Chickarmane V, et al. Bioinformatics. 2005 Sep 15;21(18):3688-90. doi: 10.1093/bioinformatics/bti603. Epub 2005 Aug 4. Bioinformatics. 2005. PMID: 16081475 - Libaffy: software for processing Affymetrix GeneChip data.
Eschrich SA, Hoerter AM. Eschrich SA, et al. Bioinformatics. 2007 Jun 15;23(12):1562-4. doi: 10.1093/bioinformatics/btm127. Epub 2007 Apr 26. Bioinformatics. 2007. PMID: 17463032 - CellProfiler Analyst: interactive data exploration, analysis and classification of large biological image sets.
Dao D, Fraser AN, Hung J, Ljosa V, Singh S, Carpenter AE. Dao D, et al. Bioinformatics. 2016 Oct 15;32(20):3210-3212. doi: 10.1093/bioinformatics/btw390. Epub 2016 Jun 26. Bioinformatics. 2016. PMID: 27354701 Free PMC article. - ERNEST: a toolbox for chemical reaction network theory.
Soranzo N, Altafini C. Soranzo N, et al. Bioinformatics. 2009 Nov 1;25(21):2853-4. doi: 10.1093/bioinformatics/btp513. Epub 2009 Aug 27. Bioinformatics. 2009. PMID: 19713415
Cited by
- A cell-level quality control workflow for high-throughput image analysis.
Qiu M, Zhou B, Lo F, Cook S, Chyba J, Quackenbush D, Matzen J, Li Z, Mak PA, Chen K, Zhou Y. Qiu M, et al. BMC Bioinformatics. 2020 Jul 2;21(1):280. doi: 10.1186/s12859-020-03603-5. BMC Bioinformatics. 2020. PMID: 32615917 Free PMC article. - Single-cell and multivariate approaches in genetic perturbation screens.
Liberali P, Snijder B, Pelkmans L. Liberali P, et al. Nat Rev Genet. 2015 Jan;16(1):18-32. doi: 10.1038/nrg3768. Epub 2014 Dec 2. Nat Rev Genet. 2015. PMID: 25446316 Review. - Integrin-mediated signaling induced by simian virus 40 leads to transient uncoupling of cortical actin and the plasma membrane.
Stergiou L, Bauer M, Mair W, Bausch-Fluck D, Drayman N, Wollscheid B, Oppenheim A, Pelkmans L. Stergiou L, et al. PLoS One. 2013;8(2):e55799. doi: 10.1371/journal.pone.0055799. Epub 2013 Feb 7. PLoS One. 2013. PMID: 23409046 Free PMC article. Retracted. - A Genome-Wide siRNA Screen Implicates Spire1/2 in SipA-Driven Salmonella Typhimurium Host Cell Invasion.
Andritschke D, Dilling S, Emmenlauer M, Welz T, Schmich F, Misselwitz B, Rämö P, Rottner K, Kerkhoff E, Wada T, Penninger JM, Beerenwinkel N, Horvath P, Dehio C, Hardt WD. Andritschke D, et al. PLoS One. 2016 Sep 14;11(9):e0161965. doi: 10.1371/journal.pone.0161965. eCollection 2016. PLoS One. 2016. PMID: 27627128 Free PMC article. - Single-cell analysis of population context advances RNAi screening at multiple levels.
Snijder B, Sacher R, Rämö P, Liberali P, Mench K, Wolfrum N, Burleigh L, Scott CC, Verheije MH, Mercer J, Moese S, Heger T, Theusner K, Jurgeit A, Lamparter D, Balistreri G, Schelhaas M, De Haan CA, Marjomäki V, Hyypiä T, Rottier PJ, Sodeik B, Marsh M, Gruenberg J, Amara A, Greber U, Helenius A, Pelkmans L. Snijder B, et al. Mol Syst Biol. 2012 Apr 24;8:579. doi: 10.1038/msb.2012.9. Mol Syst Biol. 2012. PMID: 22531119 Free PMC article.
Publication types
MeSH terms
Substances
LinkOut - more resources
Full Text Sources