Annotation Table - Whole Body Transcriptomes Of The Tick Ixodes Ricinus At Different Stage And Feeding Conditions
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Annotation table for a <em>de novo</em> assembled transcriptome of<em> Ixodes ricinus</em> 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-)
本注释表对应**从头组装（de novo）**的蓖麻硬蜱（*Ixodes ricinus*）不同发育阶段与实验条件下的转录组。 以下为各列字段说明（基于Trinotate分析结果及额外统计信息）： 1. Contig_name：Contig名称（Trinity组装产物） 2. sprot_Top_BLASTX_hit：针对SwissProt数据库的BLASTX搜索最优比对结果（https://data.broadinstitute.org/Trinity/Trinotate v2.0 RESOURCES/） 3. TrEMBL_Top_BLASTX_hit：针对Uniref90数据库的BLASTX搜索最优比对结果（https://data.broadinstitute.org/Trinity/Trinotate v2.0 RESOURCES/） 4. RNAMMER：非编码RNA的鉴定结果 5. prot_id：预测蛋白的标识符（基于TransDecoder预测） 6. prot_coords：预测蛋白在Contig上的坐标（起始位置、终止位置及链方向） 7. sprot_Top_BLASTP_hit：预测蛋白与SwissProt数据库的BLASTP搜索最优比对结果（https://data.broadinstitute.org/Trinity/Trinotate v2.0 RESOURCES/） 8. TrEMBL_Top_BLASTP_hit：预测蛋白与Uniref90数据库的BLASTP搜索最优比对结果（https://data.broadinstitute.org/Trinity/Trinotate v2.0 RESOURCES/） 9. Pfam：针对PfamA数据库的搜索结果 10. SignalP：基于SignalP的信号肽预测结果 11. TmHMM：基于TMHMM的跨膜结构域预测结果 12. eggnog：直系同源基因数据库eggNOG（v3.0）的注释分配结果 13. gene_ontology_blast：基于BLAST比对结果的基因本体（Gene Ontology, GO）注释分配 14. gene_ontology_pfam：基于Pfam搜索结果的基因本体（GO）注释分配 15. Contig_length：以碱基对（bp）为单位的Contig长度 16. Busco_Id：BUSCO（v1）的标识符 17. Busco_status：BUSCO分析状态（完整/片段化/重复） 18-32：对应15个文库的Kallisto测序读段计数 各组样本说明： A、B、C：未吸血若虫（生物学重复1、2、3） D、E、F：半吸血若虫（生物学重复1、2、3） G、H、I：未吸血雄虫（生物学重复1、2、3） J、K、L：未吸血成年雌虫（生物学重复1、2、3） M、N、O：半吸血成年雌虫（生物学重复1、2、3） 33. log2FoldChange_UnfedVsPartiallyFed：「未吸血组（包含雄虫）」与「半吸血组」的表达量以2为底的对数倍数变化 34. pvalue_UnfedVsPartiallyFed：「未吸血组（包含雄虫）」与「半吸血组」表达差异比较的p值 35. log2FoldChange_MaleVsFemale：雄虫与雌虫的表达量以2为底的对数倍数变化 36. pvalue_MaleVsFemale：雄虫与雌虫表达差异比较的p值 37. log2FoldChange_NymphsVsAdults：若虫与成虫（包含雄虫与雌虫）的表达量以2为底的对数倍数变化 38. pvalue_NymphsVsAdults：若虫与成虫（包含雄虫与雌虫）表达差异比较的p值
