Improved annotation with de novo transcriptome assembly in four social amoeba species. Singh, R., Lawal, H. M., Schilde, C., Glöckner, G., Barton, G. J., Schaap, P., & Cole, C. BMC Genomics, 18:120, January, 2017. Paper doi abstract bibtex Annotation of gene models and transcripts is a fundamental step in genome sequencing projects. Often this is performed with automated prediction pipelines, which can miss complex and atypical genes or transcripts. RNA sequencing (RNA-seq) data can aid the annotation with empirical data. Here we present de novo transcriptome assemblies generated from RNA-seq data in four Dictyostelid species: D. discoideum, P. pallidum, D. fasciculatum and D. lacteum. The assemblies were incorporated with existing gene models to determine corrections and improvement on a whole-genome scale. This is the first time this has been performed in these eukaryotic species.
@article{singh_improved_2017,
title = {Improved annotation with de novo transcriptome assembly in four social amoeba species},
volume = {18},
issn = {1471-2164},
url = {http://dx.doi.org/10.1186/s12864-017-3505-0},
doi = {10.1186/s12864-017-3505-0},
abstract = {Annotation of gene models and transcripts is a fundamental step in genome sequencing projects. Often this is performed with automated prediction pipelines, which can miss complex and atypical genes or transcripts. RNA sequencing (RNA-seq) data can aid the annotation with empirical data. Here we present de novo transcriptome assemblies generated from RNA-seq data in four Dictyostelid species: D. discoideum, P. pallidum, D. fasciculatum and D. lacteum. The assemblies were incorporated with existing gene models to determine corrections and improvement on a whole-genome scale. This is the first time this has been performed in these eukaryotic species.},
urldate = {2017-01-31},
journal = {BMC Genomics},
author = {Singh, Reema and Lawal, Hajara M. and Schilde, Christina and Glöckner, Gernot and Barton, Geoffrey J. and Schaap, Pauline and Cole, Christian},
month = jan,
year = {2017},
keywords = {DAG, De novo, Dictyostelia, RNA-seq, Social amoeba, Transcriptome assembly, mine},
pages = {120}
}
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