Dataset Summary
Explore record counts and scope for queryable data. “—” means a live full-table count is unavailable. Record counts do not equal independent samples or evidence strength. See Downloads / Citation for provenance.
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| Layer | Role | Reference / method | Distinct genes | Records | Scope |
|---|---|---|---|---|---|
| TK1151 TF family candidate catalog | Active module | TK1151 / Pfam family rules | 1667 | 1701 | Family assignments used by the active TF page; records and genes counted separately |
| TK1151 motif homology transfer | Active module | TK1151 / BLAST residue-coordinate coverage | 786 | 1941 | Coverage recomputed from residue endpoints; homology candidates are not direct binding validation |
| TK1151 specific TF-motif candidates | Active module | TK1151 / Motif-specific homology | 951 | 3725 | Active source for specific TF-to-motif associations |
| OH1004 LocPro direct localization predictions | Active module | OH1004 / LocPro | 39092 | 195460 | Multiple locations can occur per protein; gene count differs from record count |
| TK1151 LocPro direct localization predictions | Active module | TK1151 / LocPro | 45209 | 226045 | Multiple locations can occur per protein; gene count differs from record count |
| Active coexpression query cache | Active module | dataset-specific / Pearson correlation | — | 216000 | Top 200 per query per dataset; references and units are dataset-specific; sample-local STRG and ambiguous TK1151 StringTie records are excluded |
| Candidate network · coexpression_predicted | Active module | TK1151 official-ID mapped / coexpression_predicted | 20082 | 257434 | Distinct genes within this layer; layers must not be summed as independent interactions. Pending denotes proposed tasks, not completed structural models. |
| Candidate network · domain_compatibility_predicted | Active module | TK1151 official-ID mapped / domain_compatibility_predicted | 3077 | 660897 | Distinct genes within this layer; layers must not be summed as independent interactions. Pending denotes proposed tasks, not completed structural models. |
| Candidate network · orthology_transferred | Active module | TK1151 official-ID mapped / orthology_transferred | 9905 | 140185 | Distinct genes within this layer; layers must not be summed as independent interactions. Pending denotes proposed tasks, not completed structural models. |
| Candidate network · pathway_co_membership | Active module | TK1151 official-ID mapped / pathway_co_membership | 3961 | 20000 | Distinct genes within this layer; layers must not be summed as independent interactions. Pending denotes proposed tasks, not completed structural models. |
| Candidate network · rubber_biosynthesis_co_membership | Active module | TK1151 official-ID mapped / rubber_biosynthesis_co_membership | 99 | 1666 | Distinct genes within this layer; layers must not be summed as independent interactions. Pending denotes proposed tasks, not completed structural models. |
| Candidate network · structure_prediction | Active module · pending | TK1151 official-ID mapped / structure_prediction | 45 | 50 | Distinct genes within this layer; layers must not be summed as independent interactions. Pending denotes proposed tasks, not completed structural models. |
| Candidate network · subcellular_compatibility | Active module | TK1151 official-ID mapped / subcellular_compatibility | 20643 | 416477 | Distinct genes within this layer; layers must not be summed as independent interactions. Pending denotes proposed tasks, not completed structural models. |
| core_gene | Active module | See scope / See scope | — | 39103 | OSU_TarKok_2.0 core genes and aliases |
| id_alias | Active module | See scope / See scope | — | 78206 | Site-wide ID and alias resolver |
| function_description | Active module | See scope / See scope | — | 39103 | GFF and homology-transfer gene descriptions |
| GO_annotation | Active module | See scope / See scope | — | 335702 | Swiss-Prot transferred GO annotation |
| KEGG_annotation | Active module | See scope / See scope | — | 86325 | Swiss-Prot transferred KEGG/KO annotation |
| rubber_biosynthesis | Active module | See scope / See scope | — | 5523 | Natural rubber, MVA/MEP, isoprenoid and terpene candidates |
| expression_atlas | Active module | See scope / See scope | — | 37578919 | Isolated uniform v4: 109 runs, 98,473 fixed TKU loci, separate TPM/FPKM/Coverage; independent OH1004 and publication layers retained; legacy TK1151 values quarantined with no fallback. |
| expression_sample | Active module | See scope / See scope | — | 578 | Sample metadata catalogue; some records lack expression units or complete study design, so inspect each dataset |
| tissue_expression_FPKM | Active module | See scope / See scope | — | 51844 | Gene FPKM from the in-house bred Zhaosu line across 8 tissues with 3 samples each; collection stage and public archive accession were not supplied |
| PMID30514210_expression | Active module | See scope / See scope | — | 46749 | Published supplement contig-level RPKM matrix |
| proteome | Active module | See scope / See scope | — | 9040 | PXD011773 proteome evidence table |
| homology | Active module | See scope / See scope | — | 121540 | Swiss-Prot DIAMOND/BLASTP homolog hits |
| domain_pfam | Active module | See scope / See scope | — | 71718 | Pfam-A hmmscan significant domains |
| subcellular | Auxiliary / historical source | See scope / Source layer | — | 20082 | Auxiliary/historical source layer, not complete coverage of the active module; Swiss-Prot homology-transferred subcellular candidates |
| tf_prediction | Auxiliary / historical source | See scope / Source layer | — | 313 | Auxiliary/historical source layer, not complete coverage of the active module; Conservative Pfam-domain TF family candidates |
| ppi_association | Auxiliary / historical source | See scope / Source layer | — | 500000 | Auxiliary/historical source layer, not complete coverage of the active module; Arabidopsis STRING homology-transferred protein associations |
| coexpression | Auxiliary / historical source | See scope / Source layer | — | 736025 | Auxiliary/historical source layer, not complete coverage of the active module; Precomputed PRJNA745038 coexpression edges |
| reference_gene_catalog | Active module | See scope / See scope | — | 85281 | TK1151 and OH-1004 GFF gene catalogs |
| id_converter_map | Active module | See scope / See scope | — | 84884 | TK1151-OH1004 gene-level RBH ID-mapping records |
| synteny_block | Active module | See scope / See scope | — | 427 | TK1151-OH1004 coordinate-anchor synteny blocks; counted separately from ID-mapping records |
| resequencing_CRA009020 | Active module | See scope / See scope | — | 129 | Metadata, MD5 values, and official GSA links for 129 paired WGS runs in CRA009020; raw FASTQ files are not mirrored locally |
| gene_variants_CRA009020 | Active module | See scope / See scope | — | — | Gene-body PASS SNP/Indel candidates for OH1004 and TK1151 from 129 CRA009020 samples; query by gene, as a live full-table count is not performed and the two references cannot be summed as distinct loci |
Supplementary Data and Software Sources
Sources, original download links, software references, publications and derived-file checksums are organized by category. Unresolved historical checksums, paper links and revisions are explicitly marked.