hctsa : A Computational Framework for Automated Time-Series Phenotyping Using Massive Feature Extraction

Cell Systems - Tập 5 Số 5 - Trang 527-531.e3 - 2017
Ben Fulcher1,2, Nick S. Jones3
1Monash Institute of Cognitive and Clinical Neurosciences (MICCN), Monash University, Wellington Road, Clayton, VIC, 3800, Australia
2School of Physics, Sydney University, Physics Road, Camperdown, NSW, 2006, Australia
3Mathematics Department, Imperial College London, Huxley Building, Queen's Gate, London SW7 2AZ, UK

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Tài liệu tham khảo

Brown, 2013, A dictionary of behavioral motifs reveals clusters of genes affecting Caenorhabditis elegans locomotion, Proc. Natl. Acad. Sci. USA, 110, 791, 10.1073/pnas.1211447110

Costa, 2005, Multiscale entropy analysis of biological signals, Phys. Rev. E, 71, 021906, 10.1103/PhysRevE.71.021906

Donelson, 2012, High-resolution positional tracking for long-term analysis of Drosophila sleep and locomotion using the “Tracker” program, PLoS One, 7, e37250, 10.1371/journal.pone.0037250

Fulcher, 2012, Highly comparative fetal heart rate analysis, Conf. Proc. IEEE Eng. Med. Biol. Soc., 2012, 3135

Fulcher, 2013, Highly comparative time-series analysis: the empirical structure of time series and their methods, J. Roy. Soc. Interf., 10, 20130048, 10.1098/rsif.2013.0048

Fulcher, 2014, Highly comparative feature-based time-series classification, IEEE Trans. Knowl. Data Eng., 26, 3026, 10.1109/TKDE.2014.2316504

Gates, 2011, High-throughput mouse phenotyping, Methods, 53, 394, 10.1016/j.ymeth.2010.12.017

Geissmann, 2017, Ethoscopes: an open platform for high-throughput ethomics, PLoS Biol., 15, e2003026, 10.1371/journal.pbio.2003026

Gilestro, 2012, Video tracking and analysis of sleep in Drosophila melanogaster, Nat. Protoc., 7, 995, 10.1038/nprot.2012.041

Gomez-Marin, 2016, Hierarchical compression of C. elegans locomotion reveals phenotypic differences in the organisation of behaviour, bioRxiv

Hripcsak, 2013, Next-generation phenotyping of electronic health records, J. Am. Med. Inform. Assoc., 20, 117, 10.1136/amiajnl-2012-001145

Insel, 2010, Research Domain Criteria (RDoC): toward a new classification framework for research on mental disorders, Am. J. Psychiatry, 167, 748, 10.1176/appi.ajp.2010.09091379

Isaac, 2010, Drosophila male sex peptide inhibits siesta sleep and promotes locomotor activity in the post-mated female, Proc. R. Soc. Lond. B, 277, 65, 10.1098/rspb.2009.1236

Johnson, 2006, Virtual histology of transgenic mouse embryos for high-throughput phenotyping, PLos Genet., 2, e61, 10.1371/journal.pgen.0020061

Kain, 2013, Leg-tracking and automated behavioural classification in Drosophila, Nat. Comm., 4, 1910, 10.1038/ncomms2908

Nolan, 2000, A systematic, genome-wide, phenotype-driven mutagenesis programme for gene function studies in the mouse, Nat. Genet., 25, 440, 10.1038/78140

Vogelstein, 2014, Discovery of brainwide neural-behavioral maps via multiscale unsupervised structure learning, Science, 344, 386, 10.1126/science.1250298

Yang, 2014, Single-cell phenotyping within transparent intact tissue through whole-body clearing, Cell, 158, 945, 10.1016/j.cell.2014.07.017

Yemini, 2013, A database of Caenorhabditis elegans behavioral phenotypes, Nat. Methods, 10, 877, 10.1038/nmeth.2560