Data · dataset · 2013
Ichthyophonus de novo (Fish 546)
Listed in DataCite
This record includes files that resulted from de novo assembly of short read (Illumina PE100) genomic data from the parasite Ichthyophonus .
Description
I would like to acknowledge K. Nichols for supplying the data for this analysis. Files included in this data set: Ichthlyophonus de novo (Fish546).pdf; Presentation giving overview of project and summary results.
AssemblyParameters.pdf; Software settings for CLC and SOAPdenovo assemblers. 11186ContigSummary.csv; Tablular data for contig length and coverage from CLC assembly. SoapContigSummary.csv; Tabular data for contig length and coverage from SOAPdenovo assembly. CLC_Choanoflagellate_Blast_GO_Annot...csv; Blast results from annotated Choanoflagellate genome query on Ichthyophonus contig database from CLC.
Read the rest (6 more)
File is a merger of blast results and annotation table. CLC_Fungi_Blast_GO_Annotations.csv; Blast results from annotated Fungal genome query on Ichthyophonus contig database from CLC. File is a merger of blast results and annotation table.
CLC_Metazoa_Blast_GO_Annotations.csv; Blast results from annotated Metazoan genome query on Ichthyophonus contig database from CLC. File is a merger of blast results and annotation table. SOAP_Choanoflagellate_Blast_GO_Anno...csv; Blast results from annotated Choanoflagellate genome query on Ichthyophonus contig database from SOAP.
File is a merger of blast results and annotation table. SOAP_Fungi_Blast_GO_Annotations.csv; Blast results from annotated Fungal genome query on Ichthyophonus contig database from SOAP. File is a merger of blast results and annotation table.
SOAP_Metazoan_Blast_GO_Annotations.csv; Blast results from annotated Metazoan genome query on Ichthyophonus contig database from SOAP. File is a merger of blast results and annotation table. CLC_OpenReadingFrames.bed ; Bed file with putative Open Reading Frames from the CLC assembly, produced by EMBOSS "getorf" funcion, implemented in Galaxy.
SNP_RestrictionBed.bed; Bed file with putative SNP sites, produce by converting .gff SNP file from CLC assembly. Choanoflagellate_Blast.bed; Bed file of Choanoflagellate blast hits, converted from CLC blast output file above. Fungi_Blast.bed; Bed file of Fungal blast hits, converted from CLC blast output above.
Metazoa_Blast.bed; Bed file of Metazoan blast hits, converted from CLC blast output above. igv_snapshot.png; Example of blast hits, SNPs and restriction enzyme sites displayed in Integrated Genomic Viewer.
Links
Where it is published
- Repository landing page figshare.com/articles/dataset/Ichthyophonus_de_novo_Fish_546_/655976 ↗
landing page · from DataCite
- Repository landing page figshare.com/articles/dataset/Ichthyophonus_de_novo_Fish_546_/655976/1 ↗
landing page · from DataCite
- DOI doi.org/10.6084/m9.figshare.655976 ↗
DOI / persistent id · from DataCite
- DOI doi.org/10.6084/m9.figshare.655976.v1 ↗
DOI / persistent id · from DataCite
Documentation and papers
Catalogue records · 4
- DataCite API api.datacite.org/dois/10.6084/m9.figshare.655976.v1 ↗
metadata API · from DataCite
- DataCite API api.datacite.org/dois/10.6084/m9.figshare.655976 ↗
metadata API · from DataCite
- DataCite Commons commons.datacite.org/doi.org/10.6084/m9.figshare.655976.v1 ↗
catalogue entry · from DataCite
- DataCite Commons commons.datacite.org/doi.org/10.6084/m9.figshare.655976 ↗
catalogue entry · from DataCite
Topics
- Stated by source
- Biological sciences · Biological sciences · Computer and information sciences · Computer and information sciences · Health sciences · Health sciences
- From keywords
- Ecology
- Inferred from text
- Genome sequencing 65% · Tabular 75%
Provenance · 2 source records, 16 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| DataCite | 10.6084/m9.figshare.655976 | 15 d ago | JSON v1 |
| DataCite | 10.6084/m9.figshare.655976.v1 | 15 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · DataCite | connector:datacite@1.0.0 | /data/attributes/rightsList |
| byte_size | source · DataCite | connector:datacite@1.0.0 | |
| concepts[field].fos:biological-sciences | source · DataCite | connector:datacite@1.0.0 | |
| concepts[field].fos:biological-sciences | source · DataCite | connector:datacite@1.0.0 | |
| concepts[field].fos:computer-and-information-sciences | source · DataCite | connector:datacite@1.0.0 | |
| concepts[field].fos:computer-and-information-sciences | source · DataCite | connector:datacite@1.0.0 | |
| concepts[field].fos:health-sciences | source · DataCite | connector:datacite@1.0.0 | |
| concepts[field].fos:health-sciences | source · DataCite | connector:datacite@1.0.0 | |
| concepts[modality].local:modality:genome-sequencing | enrichment · DataCite | keyword-concept-rules@1.0.0 | title+description (65%) |
| concepts[modality].local:modality:tabular | enrichment · DataCite | keyword-concept-rules@1.0.0 | title+description (75%) |
| created_date | source · DataCite | connector:datacite@1.0.0 | |
| description | source · DataCite | connector:datacite@1.0.0 | /data/attributes/descriptions |
| license | source · DataCite | connector:datacite@1.0.0 | /data/attributes/rightsList |
| publication_date | source · DataCite | connector:datacite@1.0.0 | /data/attributes/dates |
| title | source · DataCite | connector:datacite@1.0.0 | /data/attributes/titles/0/title |
| updated_date | source · DataCite | connector:datacite@1.0.0 |