Dataset Open Access
Annotation table - Whole body transcriptomes of the tick Ixodes ricinus at different stage and feeding conditions
N Pierre Charrier;
Marjorie Couton;
Maarten J Voordouw;
Olivier Rais;
Axelle Durand-Hermouet;
Caroline Hervet;
Olivier Plantard;
Claude Rispe
Annotation table for a de novo assembled transcriptome of Ixodes ricinus in different stages and conditions.
Description of the fields of each column (Trinotate results, and additionnal statistics):
1. Contig_name: name of the contig (Trinity assembly)
2. sprot_Top_BLASTX_hit: first hit of the blastx search against SwissProt (https://data.broadinstitute.org/Trinity/Trinotate v2.0 RESOURCES/)
3. TrEMBL_Top_BLASTX_hit: first hit of the blastx search against Uniref90 (https://data.broadinstitute.org/Trinity/Trinotate v2.0 RESOURCES/)
4. RNAMMER: identification of non-coding RNAs
5. prot_id: identifier of the predicted protein (TransDecoder)
6. prot_coords: coordinates (start, end and strand) of the predicted protein on the contig
7. sprot_Top_BLASTP_hit: first hit of the blastp search between the predicted protein and SwissProt (https://data.broadinstitute.org/Trinity/Trinotate v2.0 RESOURCES/)
8. TrEMBL_Top_BLASTP_hit: first hit of the blastp search between the predicted protein and Uniref90 (https://data.broadinstitute.org/Trinity/Trinotate v2.0 RESOURCES/)
9. Pfam: result of the search against PfamA database
10. SignalP: prediction of a signal peptide with SignalP
11. TmHMM: prediction of a transmembrane domain with THMM
12. eggnog: eggNOG database of orthologous genes (v3.0) assignation
13. gene_ontology_blast: GO assignation based on blast results
14. gene_ontology_pfam: GO assignation based on pfam results
15. Contig_length: length of the contig in bp
16. Busco_Id: name of the BUSCO (v1)
17. Busco_status: status of the BUSCO (complete/fragmented/duplicated)
18-32: Kallisto read counts for the 15 libraries
A, B, C: unfed nymphs (replicates 1, 2, 3)
D, E, F: partially fed nymphs (replicates 1, 2, 3)
G, H, I: males (unfed) (replicates 1, 2, 3)
J, K, L: unfed adult females (replicates 1, 2, 3)
M, N, O: partially fed adult females (replicates 1, 2, 3)
33. log2FoldChange_UnfedVsPartiallyFed: log fold change in base 2 of expression (comparison between "unfed" -including males- and "fed" ticks)
34. pvalue_UnfedVsPartiallyFed: p-value of the comparison between "unfed" -including males- and "fed" ticks
35. log2FoldChange_MaleVsFemale: log fold change in base 2 of expression (comparison between "males" and "females")
36. pvalue_MaleVsFemale: p-value of the comparison between "males" and "females"
37. log2FoldChange_NymphsVsAdults: log fold change in base 2 of expression (comparison between "nymphs" and "adults" -males and females-)
38. pvalue_NymphsVsAdults: p-value of the comparison between "nymphs" and "adults" -males and females-)
| Name | Size | |
|---|---|---|
|
Ixodes-ricinus_de_novo_transcriptome_Trinotate_BUSCO_and_DE_updateUniref90.tsv
md5:a30cf263332170225f5cb064c7fd575a |
92.6 MB | Download |
| All versions | This version | |
|---|---|---|
| Views | 146 | 124 |
| Downloads | 36 | 34 |
| Data volume | 3.3 GB | 3.1 GB |
| Unique views | 137 | 118 |
| Unique downloads | 32 | 30 |
- Publication date:
- August 1, 2017
- DOI:
-
- Keyword(s):
- Ixodes ricinus, RNA-Seq, De novo assembly, Expression profiling, Polymorphism
- License (for files):
- Creative Commons Attribution 4.0 International