Automated transcription start site prediction for comparative Transcriptomics using the SuperGenome
| Dublin Core | PKP Metadata Items | Metadata for this Document | |
| 1. | Title | Title of document | Automated transcription start site prediction for comparative Transcriptomics using the SuperGenome |
| 2. | Creator | Author's name, affiliation, country | Alexander Herbig; University of Tübingen, Tübingen; Germany |
| 2. | Creator | Author's name, affiliation, country | Cynthia Sharma; University of Würzburg, Würzburg; Germany |
| 2. | Creator | Author's name, affiliation, country | Kay Nieselt; University of Tübingen, Tübingen; Germany |
| 3. | Subject | Discipline(s) | Bioinformatics, Molecular Biology |
| 3. | Subject | Keyword(s) | next generation sequencing; transcriptome; ncRNAs; promoter sequences; bioinformatics |
| 4. | Description | Abstract | RNA deep-sequencing (RNA-seq) has been revolutionizing transcriptome analyses. Despite the high-throughput nature of this technology, very often transcriptome features such as transcription start sites (TSS) are still manually annotated. The problem is compounded for comparative transcriptomics of several species. We developed the SuperGenome algorithm, a novel general approach to comparative and integrative analysis of RNA-seq data. The SuperGenome can be utilized for comparative analyses of gene expression data, promoter sequences or SNPs in several species. Furthermore, it can be used for the comparative detection of TSS, for which we developed an automated TSS prediction method for differential RNA-seq experiments. |
| 5. | Publisher | Organizing agency, location | EMBnet |
| 6. | Contributor | Sponsor(s) | A.H. has been supported by the DFG Priority Program 1335 ‘Scalable Visual Analytics’. C.S. is supported by the ZINF Young Investigator program at the research Center for Infectious Diseases (ZINF) in Würzburg, Germany. |
| 7. | Date | (YYYY-MM-DD) | 08-Apr-2013 |
| 8. | Type | Status & genre | Peer-reviewed Article |
| 8. | Type | Type | |
| 9. | Format | File format | |
| 10. | Identifier | Uniform Resource Identifier | https://journal.embnet.org/index.php/embnetjournal/article/view/617 |
| 10. | Identifier | Digital Object Identifier (DOI) | https://doi.org/10.14806/ej.19.A.617 |
| 11. | Source | Title; vol., no. (year) | EMBnet.journal; Vol 19: Supplement A |
| 12. | Language | English=en | |
| 14. | Coverage | Geo-spatial location, chronological period, research sample (gender, age, etc.) | |
| 15. | Rights | Copyright and permissions |
Copyright (c) |