Category Record ID Filename Description Upstream sources Method or definition Public page URL File bytes Evidence layer Verification date Limitations Historical initial checksum Retained input SHA256 Published output SHA256 Checksum algorithm Hash record date Source URL Checksum scope Status Data type Metadata source Expression value rows Related tables Derived dataset DER01 CRA009020_gene_variants.sqlite3 Website variant calls for CRA009020 aligned to two references PUB_WGR_CRA009020;REF_TK1151;REF_OH1004 minimap2 short-read alignment, SAMtools and bcftools; 129 samples aligned to two references http://47.95.224.165/rubber/variants 169207660544 Website-derived data; upstream inputs documented in the source tables 2026-10-03 Same-named variant databases recorded separately by configured and resolved paths; computational results distinguished from source-species experiments Derived dataset DER02 coexpression.sqlite3 Independent historical OH-1004 exploratory coexpression; uniform-TKU network not rebuilt PRJNA745038;S1 Data Resources;REF_OH1004 Exploratory Pearson correlations in separate historical count/TPM datasets; not a new network for the 109 uniform samples http://47.95.224.165/rubber/coexpression 312512512 Website-derived data; upstream inputs documented in the source tables 2026-10-03 Same-named variant databases recorded separately by configured and resolved paths; computational results distinguished from source-species experiments Derived dataset DER03 expression.sqlite3 Uniform-v4 expression for 109 samples and independent historical OH expression S1 Data Resources;REF_TK1151;REF_OH1004 Fixed-model StringTie -e quantification for 109 samples; independent OH sources retained; mapping only where reference relations are unique http://47.95.224.165/rubber/expression 5670748160 Website-derived data; upstream inputs documented in the source tables 2026-10-03 Same-named variant databases recorded separately by configured and resolved paths; computational results distinguished from source-species experiments Derived dataset DER04 RubberDandelionOmics.core.sqlite3 Genes, sequences and core annotations REF_OH1004;REF_TK1151 Reference FASTA/GFF import http://47.95.224.165/rubber/gene 14540800 Website-derived data; upstream inputs documented in the source tables 2026-10-03 Same-named variant databases recorded separately by configured and resolved paths; computational results distinguished from source-species experiments Derived dataset DER05 RubberDandelionOmics.old_id_bridge.sqlite3 Historical gene-ID bridging REF_TKS_2017;REF_TK1151;REF_OH1004 BLAST+/DIAMOND sequence mapping with ambiguities retained http://47.95.224.165/rubber/idmap 102096896 Website-derived data; upstream inputs documented in the source tables 2026-10-03 Same-named variant databases recorded separately by configured and resolved paths; computational results distinguished from source-species experiments Derived dataset DER06 RubberDandelionOmics.proteome.sqlite3 Proteomic quantification and ID mapping PUB_PROTEOME_PXD011773;REF_TKS_2017;REF_OH1004 Import of author-processed MaxQuant outputs; cross-version relations recorded separately http://47.95.224.165/rubber/proteome 17580032 Website-derived data; upstream inputs documented in the source tables 2026-10-03 Same-named variant databases recorded separately by configured and resolved paths; computational results distinguished from source-species experiments Derived dataset DER07 RubberDandelion_expression_supplement_PMID30514210.sqlite3 HR/LR/Y11 expression and differential-expression supplements PUB_TRANSCRIPTOME_S7;PUB_TRANSCRIPTOME_S8 Import of author-supplied supplementary workbooks in the original contig namespace http://47.95.224.165/rubber/expression-supplement 30920704 Website-derived data; upstream inputs documented in the source tables 2026-10-03 Same-named variant databases recorded separately by configured and resolved paths; computational results distinguished from source-species experiments Derived dataset DER08 RubberDandelion_function.sqlite3 Homology-based function, GO and KEGG gene cross-references REF_TK1151;REF_OH1004;UniProtKB / Swiss-Prot;Gene Ontology (original);KEGG DIAMOND/BLAST homology transfer and GO taxon screening http://47.95.224.165/rubber/annotation 160833536 Website-derived data; upstream inputs documented in the source tables 2026-10-03 Same-named variant databases recorded separately by configured and resolved paths; computational results distinguished from source-species experiments Derived dataset DER09 RubberDandelion_homology_domain.sqlite3 Protein homology and domains REF_TK1151;REF_OH1004;UniProtKB / Swiss-Prot;Pfam (2021 publication) DIAMOND+HMMER http://47.95.224.165/rubber/domains 213307392 Website-derived data; upstream inputs documented in the source tables 2026-10-03 Same-named variant databases recorded separately by configured and resolved paths; computational results distinguished from source-species experiments Derived dataset DER10 RubberDandelion_jbrowse.sqlite3 Source reference models and browser tracks REF_TK1151;REF_OH1004 Source GFF model normalization and JBrowse 2 http://47.95.224.165/rubber/jbrowse 974807040 Website-derived data; upstream inputs documented in the source tables 2026-10-03 Same-named variant databases recorded separately by configured and resolved paths; computational results distinguished from source-species experiments Derived dataset DER11 RubberDandelion_pathway_candidate.sqlite3 Candidate metabolic genes REF_TK1151;REF_OH1004;UniProtKB / Swiss-Prot;KEGG Homology, functional keywords and domain rules http://47.95.224.165/rubber/rubber-biosynthesis 11866112 Website-derived data; upstream inputs documented in the source tables 2026-10-03 Same-named variant databases recorded separately by configured and resolved paths; computational results distinguished from source-species experiments Derived dataset DER12 RubberDandelion_candidate_network.sqlite3 Multiple layers of candidate protein associations STRING v12.0;PRJNA745038;Pfam (2021 publication);3did;LocPro;REF_TK1151;REF_OH1004 Separate layers for STRING transfer, historical coexpression, candidate pathways, 3did and localization compatibility http://47.95.224.165/rubber/ppi 724500480 Website-derived data; upstream inputs documented in the source tables 2026-10-03 Same-named variant databases recorded separately by configured and resolved paths; computational results distinguished from source-species experiments Derived dataset DER13 RubberDandelion_ppi_string_transfer.sqlite3 Homology-transferred STRING Arabidopsis associations STRING v12.0;UniProtKB / Swiss-Prot;REF_OH1004 Homology-based association transfer http://47.95.224.165/rubber/ppi 137125888 Website-derived data; upstream inputs documented in the source tables 2026-10-03 Same-named variant databases recorded separately by configured and resolved paths; computational results distinguished from source-species experiments Derived dataset DER14 RubberDandelion_reference_comparison.sqlite3 Reference comparison, ID relations and synteny REF_TK1151;REF_OH1004 DIAMOND reciprocal best hits and JCVI blocks; one-to-many relations and ambiguities retained http://47.95.224.165/rubber/reference 283213824 Website-derived data; upstream inputs documented in the source tables 2026-10-03 Same-named variant databases recorded separately by configured and resolved paths; computational results distinguished from source-species experiments Derived dataset DER15 RubberDandelion_CRA009020_resequencing.sqlite3 Resequencing metadata for 129 samples PUB_WGR_CRA009020 Import of official GSA sample, run and download metadata http://47.95.224.165/rubber/variants 102400 Website-derived data; upstream inputs documented in the source tables 2026-10-03 Same-named variant databases recorded separately by configured and resolved paths; computational results distinguished from source-species experiments Derived dataset DER16 RubberDandelion_rubber_biosynthesis.sqlite3 Candidate rubber-biosynthesis pathways REF_TKS_2017;REF_TK1151;REF_OH1004;UniProtKB / Swiss-Prot Literature-based pathway rules and homologous candidates; not experimental confirmation of all genes http://47.95.224.165/rubber/rubber-biosynthesis 81920 Website-derived data; upstream inputs documented in the source tables 2026-10-03 Same-named variant databases recorded separately by configured and resolved paths; computational results distinguished from source-species experiments Derived dataset DER17 RubberDandelion_cross_species_reference.sqlite3 Cross-species literature evidence for rubber biosynthesis S1 Data Resources Manual curation of evidence in the original species; not experimental mechanism validation in Taraxacum kok-saghyz http://47.95.224.165/rubber/rubber-biosynthesis 86016 Website-derived data; upstream inputs documented in the source tables 2026-10-03 Same-named variant databases recorded separately by configured and resolved paths; computational results distinguished from source-species experiments Derived dataset DER18 RubberDandelion_TK1151_subcellular.sqlite3 Subcellular localization of representative TK1151 proteins REF_TK1151;LocPro;ESM2;PROFEAT (sequence features; LocPro reference) Direct LocPro prediction for 45,224 representative proteins http://47.95.224.165/rubber/subcellular 210501632 Website-derived data; upstream inputs documented in the source tables 2026-10-03 Same-named variant databases recorded separately by configured and resolved paths; computational results distinguished from source-species experiments Derived dataset DER19 RubberDandelion_subcellular.sqlite3 Subcellular localization of representative OH-1004 proteins REF_OH1004;LocPro;ESM2;PROFEAT (sequence features; LocPro reference) Direct LocPro prediction for 39,103 longest gene-protein representatives http://47.95.224.165/rubber/subcellular 425144320 Website-derived data; upstream inputs documented in the source tables 2026-10-03 Same-named variant databases recorded separately by configured and resolved paths; computational results distinguished from source-species experiments Derived dataset DER20 RubberDandelion_TK1151_tfbs.sqlite3 Transcription-factor families, binding sites and candidate targets REF_TK1151;Pfam (2021 publication);JASPAR 2024 (conditional on actual release);PlantTFDB HMMER, homology/reciprocal best hits and cached FIMO scans; on-demand scanning uses a site-developed algorithm http://47.95.224.165/rubber/tfbs 1604378624 Website-derived data; upstream inputs documented in the source tables 2026-10-03 Same-named variant databases recorded separately by configured and resolved paths; computational results distinguished from source-species experiments Derived dataset DER21 tissue_expression_v02.sqlite3 Expression in eight Zhaosu tissues and 24 samples OWN_TKS_TISSUE_FPKM_202609;REF_TK1151 Import of the user-provided FPKM matrix with ID checks http://47.95.224.165/rubber/tissue-expression 66691072 Website-derived data; upstream inputs documented in the source tables 2026-10-03 Same-named variant databases recorded separately by configured and resolved paths; computational results distinguished from source-species experiments Derived dataset DER22 CRA009020_gene_variants.sqlite3 Website variant calls for CRA009020 aligned to two references PUB_WGR_CRA009020;REF_TK1151;REF_OH1004 minimap2 short-read alignment, SAMtools and bcftools; 129 samples aligned to two references http://47.95.224.165/rubber/variants 169207660544 Website-derived data; upstream inputs documented in the source tables 2026-10-03 Same-named variant databases recorded separately by configured and resolved paths; computational results distinguished from source-species experiments Derived dataset UNIFORM_COVERAGE TK1151_uniform_coverage_matrix.tsv 98,473 fixed TKU-model genes x 109 samples: coverage S1 Data Resources;S2 Samples and Reads;REF_TK1151 HISAT2 alignment and StringTie 3.0.3 -e -G using the same uniform model, followed by gene-level aggregation http://47.95.224.165/rubber/tk1151-assembly 57793009 Uniform-model re-quantification; historical TK values are not mixed in 2026-10-03 109 samples; coverage is not integer read counts; no new count or CPM matrix generated Derived dataset UNIFORM_FPKM TK1151_uniform_fpkm_matrix.tsv 98,473 fixed TKU-model genes x 109 samples: fpkm S1 Data Resources;S2 Samples and Reads;REF_TK1151 HISAT2 alignment and StringTie 3.0.3 -e -G using the same uniform model, followed by gene-level aggregation http://47.95.224.165/rubber/tk1151-assembly 56647397 Uniform-model re-quantification; historical TK values are not mixed in 2026-10-03 109 samples; coverage is not integer read counts; no new count or CPM matrix generated Derived dataset UNIFORM_TPM TK1151_uniform_tpm_matrix.tsv 98,473 fixed TKU-model genes x 109 samples: tpm S1 Data Resources;S2 Samples and Reads;REF_TK1151 HISAT2 alignment and StringTie 3.0.3 -e -G using the same uniform model, followed by gene-level aggregation http://47.95.224.165/rubber/tk1151-assembly 57103503 Uniform-model re-quantification; historical TK values are not mixed in 2026-10-03 109 samples; coverage is not integer read counts; no new count or CPM matrix generated File integrity string_transfer RubberDandelion_ppi_string_transfer.sqlite3 137125888 Existing cross-species candidate associations; not native PPI Not recorded; cannot be reconstructed retrospectively 1314e6cc35c8f59e58da053c119ea3d56a20f69df87355b03ad3e28e6caf07a6 d58b70879b10f801769804797986b982ee2e22cad9d07fc0aa7be97e563ed87d SHA256 (published prefixes retained) Computed on 2026-10-03T16:47:40.943182+08:00 https://stringdb-downloads.org/download/species.v12.0.txt Current retained inputs and published outputs are recorded separately; a current hash does not establish the identity of an initial historical file File integrity coexpression_prjna745038 RubberDandelion_coexpression_prjna745038.sqlite3 419074048 Historical coexpression input isolated and archived; no newly built uniform-TKU coexpression network claimed Not recorded; cannot be reconstructed retrospectively d445978bfc58f09fab2569ab06e788a3d9efe855f0302d5355533a201088a811 8f2e6d5751762f0358cec32ef71de594aab8206e9889a711513fd0a7baf111eb SHA256 (published prefixes retained) Computed on 2026-10-03T16:55:52.632611+08:00 https://www.ncbi.nlm.nih.gov/bioproject/PRJNA745038 Current retained inputs and published outputs are recorded separately; a current hash does not establish the identity of an initial historical file File integrity pathway_candidates RubberDandelion_pathway_candidate.sqlite3 11866112 Candidate pathway co-membership Not recorded; cannot be reconstructed retrospectively d15fdc652c519e7f274dde9c2c58e48e466f665e97b1d98740b036dbbc65299e b431f6a8c15e312d7deca061e9422b06e37f06c821fc13ad18cb4cf790dfb933 SHA256 (published prefixes retained) Computed on 2026-10-03T16:47:41.176575+08:00 https://www.uniprot.org/ Current retained inputs and published outputs are recorded separately; a current hash does not establish the identity of an initial historical file File integrity rubber_biosynthesis RubberDandelion_rubber_biosynthesis.sqlite3 81920 132 rubber/isoprenoid candidate rows Not recorded; cannot be reconstructed retrospectively dc32cb618a08a2503d92ac0657cce1f984abb85de51f564c521f81d8b1ab20b8 8532ec4c28614ddd4bf86c6f8fda89842a5b618b3f8525999161dac45ab52a73 SHA256 (published prefixes retained) Computed on 2026-10-03T16:47:41.177701+08:00 https://doi.org/10.1093/nsr/nwx101 Current retained inputs and published outputs are recorded separately; a current hash does not establish the identity of an initial historical file File integrity pfam_3did 3did_flat.gz Domain compatibility candidate source 092d404d77a36971053404bf3c45e5c8aeb7ea6ca0b9d54c26a3d24bfb96d433 092d404d77a36971053404bf3c45e5c8aeb7ea6ca0b9d54c26a3d24bfb96d433 SHA256 (published prefixes retained) Not recorded https://3did.irbbarcelona.org/download/current/3did_flat.gz Current retained inputs and published outputs are recorded separately; a current hash does not establish the identity of an initial historical file File integrity locpro RubberDandelion_subcellular.sqlite3 425144320 Localization compatibility only Not recorded; cannot be reconstructed retrospectively ee03c0268015b54f41708b10268a42f48fb5ba6b27eccbf04c71d8d8b7ce975d a48eae70c7b7162b4492e66627550687bd4adc7b1531b61baf1fb0023c5f8eff SHA256 (published prefixes retained) Computed on 2026-10-03T16:47:43.715953+08:00 https://github.com/idrblab/LocPro Current retained inputs and published outputs are recorded separately; a current hash does not establish the identity of an initial historical file File integrity current_RubberDandelion_TK1151_subcellular RubberDandelion_TK1151_subcellular.sqlite3 210501632 Current retained-file hash; not an original download checksum Not recorded 165c70ccf89faca723adfdbcd5611922a748944a9d0bcada4f18b70cf894bde5 SHA256 Computed on 2026-10-03T16:47:44.676377+08:00 https://github.com/idrblab/LocPro Full-file SHA256 of the retained file on 2026-10-03 File integrity current_1_RubberDandelion_coexpression_prjna745038 1_RubberDandelion_coexpression_prjna745038.sqlite3 419074048 Current retained-file hash; not an original download checksum Not recorded d445978bfc58f09fab2569ab06e788a3d9efe855f0302d5355533a201088a811 SHA256 Computed on 2026-10-03T16:55:52.632611+08:00 https://3did.irbbarcelona.org/ Full-file SHA256 of the retained file on 2026-10-03 File integrity UNIFORM_COVERAGE TK1151_uniform_coverage_matrix.tsv 57793009 Fixed-model SHA256 b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245 Not applicable: newly generated derived matrix d6f21ad1ac0322dafa3e027b2482defa6990d4a634a2df3495ee3a45f6e51eca SHA256 Uniform-v4 release manifest, 2026-10-03 http://47.95.224.165/rubber/tk1151-assembly Complete derived file; upstream raw-read MD5 checksums are listed in S2 Samples and Reads File integrity UNIFORM_FPKM TK1151_uniform_fpkm_matrix.tsv 56647397 Fixed-model SHA256 b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245 Not applicable: newly generated derived matrix adbf1e60097207700fac9f09c644d26456db10f8472a031a5df2a9e255c3c90f SHA256 Uniform-v4 release manifest, 2026-10-03 http://47.95.224.165/rubber/tk1151-assembly Complete derived file; upstream raw-read MD5 checksums are listed in S2 Samples and Reads File integrity UNIFORM_TPM TK1151_uniform_tpm_matrix.tsv 57103503 Fixed-model SHA256 b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245 Not applicable: newly generated derived matrix 499a3298df26fc29a72a53cecf5cb51427b03bdb530da56be3768ba0aa3b3dd1 SHA256 Uniform-v4 release manifest, 2026-10-03 http://47.95.224.165/rubber/tk1151-assembly Complete derived file; upstream raw-read MD5 checksums are listed in S2 Samples and Reads File integrity GCA_047496595.1 RubberDandelion_OSU_TarKok_2.0_genome.fna.gz 357335789 Website-converted/exported sequences distinguished from original database downloads Full upstream checksum not supplied; md5_first_1mb is not a full-file MD5 24e1c8f3c7ea21f88fc6d804291777e1ec4e404627de95c2b994fba71ce7e969 SHA256 (where supplied in the source manifest) Published download manifest; retained copy checked on 2026-10-03 https://www.ncbi.nlm.nih.gov/datasets/genome/GCA_047496595.1/ Actual published sequence-download manifest File integrity GCA_047496595.1 RubberDandelion_OSU_TarKok_2.0_genome.gff.gz 7820060 Website-converted/exported sequences distinguished from original database downloads Full upstream checksum not supplied; md5_first_1mb is not a full-file MD5 9201e9ef4918ea8ce4aded1eed8f9a6b6548ce9523727c66ca9475262448ea86 SHA256 (where supplied in the source manifest) Published download manifest; retained copy checked on 2026-10-03 https://www.ncbi.nlm.nih.gov/datasets/genome/GCA_047496595.1/ Actual published sequence-download manifest File integrity GCA_047496595.1 RubberDandelion_OSU_TarKok_2.0_cds.fna.gz 16072519 Website-converted/exported sequences distinguished from original database downloads Full upstream checksum not supplied; md5_first_1mb is not a full-file MD5 8365c440d384c0f54c811bbb72703205b8efc47a41cd34e23cf764aa6b3ba820 SHA256 (where supplied in the source manifest) Published download manifest; retained copy checked on 2026-10-03 https://www.ncbi.nlm.nih.gov/datasets/genome/GCA_047496595.1/ Actual published sequence-download manifest File integrity GCA_047496595.1 RubberDandelion_OSU_TarKok_2.0_protein.faa.gz 8875630 Website-converted/exported sequences distinguished from original database downloads Full upstream checksum not supplied; md5_first_1mb is not a full-file MD5 36e25dc8b0692de06ab0bad353f6541a84d75bc9b2175949c90fa950322daadf SHA256 (where supplied in the source manifest) Published download manifest; retained copy checked on 2026-10-03 https://www.ncbi.nlm.nih.gov/datasets/genome/GCA_047496595.1/ Actual published sequence-download manifest File integrity GWHAAAA00000000 RubberDandelion_GWHAAAA00000000_CDS.fasta.gz 18335596 Website-converted/exported sequences distinguished from original database downloads Full upstream checksum not supplied; md5_first_1mb is not a full-file MD5 5e809f96f270e1f6aa75bb17a981fff6e7957a902653d97c2f506243e72e1570 SHA256 (where supplied in the source manifest) Published download manifest; retained copy checked on 2026-10-03 https://download.cncb.ac.cn/gwh/Plants/Taraxacum_kok-saghyz_TKS_GWHAAAA00000000/GWHAAAA00000000.CDS.fasta.gz Actual published sequence-download manifest File integrity GWHAAAA00000000 RubberDandelion_GWHAAAA00000000_protein.faa.gz 12995401 Website-converted/exported sequences distinguished from original database downloads Full upstream checksum not supplied; md5_first_1mb is not a full-file MD5 689f29e17896dabe4847c5536a7bca5ece4ae0a9268c4856fbfb11d64febd0ee SHA256 (where supplied in the source manifest) Published download manifest; retained copy checked on 2026-10-03 https://download.cncb.ac.cn/gwh/Plants/Taraxacum_kok-saghyz_TKS_GWHAAAA00000000/GWHAAAA00000000.Protein.faa.gz Actual published sequence-download manifest Website module home Home/Search REF_TK1151;REF_OH1004 http://47.95.224.165/rubber/ Search formal IDs, version IDs, or keywords from one entry point. 2026-10-03 ready Website module gene Gene Card REF_TK1151;REF_OH1004;S3 Software and Databases http://47.95.224.165/rubber/gene/TkokChr01G006191 Query gene identity, sequences, and annotations by gene ID or keyword. 2026-10-03 ready Website module blast BLAST REF_TK1151;REF_OH1004;BLAST+ http://47.95.224.165/rubber/blast Supports 15 bp primer-level, CDS, protein, and gDNA BLAST against OH-1004 or TK1151. 2026-10-03 ready Website module jbrowse JBrowse Genome Browser REF_TK1151;REF_OH1004;JBrowse 2 http://47.95.224.165/rubber/jbrowse Browse genome structure, gene models, and the current gene context visually. 2026-10-03 ready Website module tissue_expression Tissue Expression OWN_TKS_TISSUE_FPKM_202609 http://47.95.224.165/rubber/tissue-expression Explore FPKM profiles from the in-house bred Zhaosu line across 8 tissues and 24 samples. 2026-10-03 ready Website module expression Expression Atlas S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance http://47.95.224.165/rubber/expression?q=TkokChr01G006191 Inspect gene expression patterns in public transcriptome datasets such as laticifer response. 2026-10-03 ready Website module annotation Gene Annotation S3 Software and Databases http://47.95.224.165/rubber/annotation?q=TkokChr01G006191 Query multidimensional annotations including Swiss-Prot, GO, KEGG, and functional descriptions. 2026-10-03 ready Website module gokegg GO/KEGG Annotation UniProtKB / Swiss-Prot;Gene Ontology (original);KEGG http://47.95.224.165/rubber/enrichment?genes=TkokChr01G006191 Summarize taxon-screened GO annotations and KEGG gene cross-references; enrichment significance testing is not yet available. 2026-10-03 ready Website module synteny Orthology / Synteny Evidence REF_TK1151;REF_OH1004;JCVI;DIAMOND http://47.95.224.165/rubber/synteny?q=TkokChr01G006191 Inspect cross-reference orthology and synteny-block evidence. 2026-10-03 ready Website module tf_prediction TF Prediction Compatibility Route Pfam (2021 publication);HMMER;PlantTFDB;JASPAR 2024 (conditional on actual release) http://47.95.224.165/rubber/tfbs?mode=gene&gene_id=TkokChr03G005784 Compatibility route retained; the canonical function is provided by the TFBS page. 2026-10-03 hidden Website module tfbs TF Binding Site Prediction S3 Software and Databases;FIMO;SITE_TFBS_SCAN http://47.95.224.165/rubber/tfbs?mode=gene&gene_id=TkokChr03G005784 Predict motif-supported candidate binding sites from 4000 bp upstream regions or submitted DNA sequences. 2026-10-03 ready Website module tf_targets TF Targets PlantTFDB;JASPAR 2024 (conditional on actual release);FIMO http://47.95.224.165/rubber/tf-targets?q=TkokChr03G005784 Query candidate target genes and regulatory-network clues from a TF or family. 2026-10-03 ready Website module domains Protein Domain / Pfam Pfam (2021 publication);HMMER http://47.95.224.165/rubber/domains?q=TkokChr01G006191 View protein domains, hit intervals, and confidence evidence. 2026-10-03 ready Website module subcellular Subcellular Localization LocPro;ESM2;PROFEAT (sequence features; LocPro reference);REF_TK1151;REF_OH1004 http://47.95.224.165/rubber/subcellular?q=TkokChr01G006191 Query species-native protein localization predictions and supplementary homology evidence. 2026-10-03 ready Website module ppi PPI / Protein Association S4 Website Data Provenance;S4 Website Data Provenance http://47.95.224.165/rubber/ppi?q=TkokChr05G001210 Query candidate protein-association networks to prioritize functional partners. 2026-10-03 ready Website module rubber_biosynthesis Rubber / Terpenoid / Isoprenoid Metabolism REF_TKS_2017;S1 Data Resources;UniProtKB / Swiss-Prot;KEGG http://47.95.224.165/rubber/rubber-biosynthesis?q=LXL04_000258 Explore rubber-biosynthesis pathways and candidate genes. 2026-10-03 ready Website module proteome Proteome Evidence PUB_PROTEOME_PXD011773;MaxQuant (upstream source analysis) http://47.95.224.165/rubber/proteome?q=LXL04_000258 Choose the dataset first, then inspect gene-level protein abundance, sample intensities, and version bridges. 2026-10-03 ready Website module expression_supplement Root/Latex Expression Supplement PUB_TRANSCRIPTOME_S7;PUB_TRANSCRIPTOME_S8 http://47.95.224.165/rubber/expression-supplement?q=contig00001 Inspect root and latex supplemental expression matrices, labeled separately from formal gene expression. 2026-10-03 ready Website module idmap ID Crosswalk REF_TKS_2017;REF_TK1151;REF_OH1004;DIAMOND;BLAST+ http://47.95.224.165/rubber/idmap Inspect gene-level matches and mapping categories across references. 2026-10-03 ready Website module tools Tools Hub S3 Software and Databases;REF_TK1151;REF_OH1004 http://47.95.224.165/rubber/tools Utility collection for sequence translation, interval lookup, and related tools. 2026-10-03 ready Website module downloads Downloads / Citation S1 Data Resources;S4 Website Data Provenance;S4 Website Data Provenance http://47.95.224.165/rubber/downloads Access public downloads, source notes, and citation information. 2026-10-03 ready Website module datasets Data Sources S1 Data Resources;S1 Data Resources;S1 Data Resources http://47.95.224.165/rubber/datasets Review data sources, processing state, and evidence boundaries. 2026-10-03 ready Website module about About S3 Software and Databases;S5 References http://47.95.224.165/rubber/about Read platform notes, data provenance, and citation wording. 2026-10-03 ready Website module help Help S4 Website Data Provenance http://47.95.224.165/rubber/help See example inputs, query workflows, and interpretation boundaries. 2026-10-03 ready Website module api API Docs S4 Website Data Provenance http://47.95.224.165/rubber/api-docs Developer interface notes and batch-query routes. 2026-10-03 ready Website module id_converter Gene ID Converter REF_TK1151;REF_OH1004;DIAMOND;JCVI http://47.95.224.165/rubber/id-converter?q=TkA01G000650 Submit a version ID to view cross-reference matches and mapping confidence. 2026-10-03 ready Website module reference Reference Comparison REF_TK1151;REF_OH1004 http://47.95.224.165/rubber/reference-comparison Review the TK1151 and OH-1004 reference-genome comparison notes. 2026-10-03 ready Website module interval Interval Tool REF_TK1151;REF_OH1004 http://47.95.224.165/rubber/interval?region=CM104799.1:59000-62000 Find genes within a genomic interval. 2026-10-03 ready Website module translate Translate SITE_SEQUENCE_TOOLS http://47.95.224.165/rubber/translate?seq=ATGGCTTAA Translate DNA to protein and flag invalid characters. 2026-10-03 ready Website module coexpression Coexpression PRJNA745038;REF_OH1004;S4 Website Data Provenance http://47.95.224.165/rubber/coexpression?q=TkokChr01G006191&dataset=PRJNA745038_TK1151_RNAseq_TPM Query candidate coexpression partners from deployed TK1151/OH-1004 public transcriptome matrices. 2026-10-03 ready Website module network Candidate Protein Association Network S4 Website Data Provenance;S4 Website Data Provenance http://47.95.224.165/rubber/network?q=TkokChr05G001210 Visualize gene-centered candidate protein associations with evidence rows and scoped downloads; these are not validated physical interactions. 2026-10-03 ready Website module tk1151_assembly TK1151-guided Transcriptome Assembly and Quantification REF_TK1151;S2 Samples and Reads;StringTie;HISAT2 http://47.95.224.165/rubber/tk1151-assembly Per-sample processing records and verified merged counts, TPM, FPKM and coverage matrices for 109 public RNA-seq runs. 2026-10-03 ready Website module variants Gene Variants PUB_WGR_CRA009020;S2 Samples and Reads;minimap2;SAMtools;bcftools http://47.95.224.165/rubber/variants Query PASS SNPs/Indels by gene across both CRA009020 references and view carrier samples among 129 samples; results are computational candidates. 2026-10-03 ready Website module qpcr qRT-PCR Primer Design SITE_QPCR;REF_TK1151;REF_OH1004 http://47.95.224.165/rubber/qpcr?query=TkokChr01G000001 Design qRT-PCR primers from Gene ID, cDNA, or CDS and flag homologous-CDS 3-prime seed risk. 2026-10-03 ready Website module hr_primer Homologous Recombination Primer Design SITE_SEQUENCE_TOOLS;REF_TK1151;REF_OH1004 http://47.95.224.165/rubber/hr-primer Detect common restriction sites in-browser and generate homology-arm PCR primers from vector and insert sequences. 2026-10-03 ready Website module crispr CRISPR Editing Target Design SITE_CRISPR;REF_TK1151;REF_OH1004 http://47.95.224.165/rubber/crispr?query=TkokChr01G000001 Rapidly rank SpCas9 NGG targets from Gene ID, CDS, cDNA, or DNA sequence using disclosed sequence rules; no vector-specific primers are generated. 2026-10-03 ready Expression dataset registration DRA_unassigned_DRR DRA_unassigned_DRR; 4 RNA-seq runs; platform=ILLUMINA PRJDB37370 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Metadata catalogue only; no expression values public RNA-seq metadata Public NCBI SRA RunInfo metadata 0 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJDB36270 PRJDB36270; 9 RNA-seq runs; platform=ILLUMINA PRJDB36270 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Metadata catalogue only; no expression values public RNA-seq metadata Public NCBI SRA RunInfo metadata 0 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA1262623 PRJNA1262623; 15 RNA-seq runs; platform=BGISEQ PRJNA1262623 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Metadata catalogue only; no expression values public RNA-seq metadata Public NCBI SRA RunInfo metadata 0 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA1490093 PRJNA1490093; 15 RNA-seq runs; platform=ILLUMINA PRJNA1490093 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Metadata catalogue only; no expression values public RNA-seq metadata Public NCBI SRA RunInfo metadata 0 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA361575 PRJNA361575; 6 RNA-seq runs; platform=ILLUMINA PRJNA361575 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Metadata catalogue only; no expression values public RNA-seq metadata Public NCBI SRA RunInfo metadata 0 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA413689 PRJNA413689; 3 RNA-seq runs; platform=LS454 PRJNA413689 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Metadata catalogue only; no expression values public RNA-seq metadata Public NCBI SRA RunInfo metadata 0 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA539838 PRJNA539838; 16 RNA-seq runs; platform=BGISEQ PRJNA539838 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Metadata catalogue only; no expression values public RNA-seq metadata Public NCBI SRA RunInfo metadata 0 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA681093 PRJNA681093; 12 RNA-seq runs; platform=ILLUMINA PRJNA681093 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Metadata catalogue only; no expression values public RNA-seq metadata Public NCBI SRA RunInfo metadata 0 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA745038 PRJNA745038; 9 RNA-seq runs; platform=ILLUMINA PRJNA745038 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Metadata catalogue only; no expression values public RNA-seq metadata Public NCBI SRA RunInfo metadata 0 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA827459 PRJNA827459; 15 RNA-seq runs; platform=ILLUMINA PRJNA827459 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Metadata catalogue only; no expression values public RNA-seq metadata Public NCBI SRA RunInfo metadata 0 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA918839 PRJNA918839; 6 RNA-seq runs; platform=ILLUMINA PRJNA918839 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Metadata catalogue only; no expression values public RNA-seq metadata Public NCBI SRA RunInfo metadata 0 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA931633 PRJNA931633; 9 RNA-seq runs; platform=ILLUMINA PRJNA931633 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Metadata catalogue only; no expression values public RNA-seq metadata Public NCBI SRA RunInfo metadata 0 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA985648 PRJNA985648; 2 RNA-seq runs; platform=ILLUMINA PRJNA985648 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Metadata catalogue only; no expression values public RNA-seq metadata Public NCBI SRA RunInfo metadata 0 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA745038_MeJA_laticifer_RNAseq PRJNA745038 MeJA-treated Taraxacum kok-saghyz laticifer RNA-seq; OH-1004 gene-level raw featureCounts counts from public SRA/ENA reads. PRJNA745038 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Independent historical OH expression data available for querying latex/laticifer response Public NCBI SRA/ENA; re-quantified against the specified reference genome 360513 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA413689_OH1004_RNAseq_TPM PRJNA413689 public RNA-seq realigned to the OH-1004 reference and quantified as gene TPM. PRJNA413689 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Independent historical OH expression data available for querying Public transcriptome quantification / OH-1004 / TPM Public NCBI SRA/ENA; re-quantified against the specified reference genome 120171 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA539838_OH1004_RNAseq_TPM PRJNA539838 public RNA-seq realigned to the OH-1004 reference and quantified as gene TPM. PRJNA539838 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Independent historical OH expression data available for querying Public transcriptome quantification / OH-1004 / TPM Public NCBI SRA/ENA; re-quantified against the specified reference genome 640912 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA827459_OH1004_RNAseq_TPM PRJNA827459 public RNA-seq realigned to the OH-1004 reference and quantified as gene TPM. PRJNA827459 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Independent historical OH expression data available for querying Public transcriptome quantification / OH-1004 / TPM Public NCBI SRA/ENA; re-quantified against the specified reference genome 600855 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA918839_OH1004_RNAseq_TPM PRJNA918839 public RNA-seq realigned to the OH-1004 reference and quantified as gene TPM. PRJNA918839 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Independent historical OH expression data available for querying Public transcriptome quantification / OH-1004 / TPM Public NCBI SRA/ENA; re-quantified against the specified reference genome 240342 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA931633_OH1004_RNAseq_TPM PRJNA931633 public RNA-seq realigned to the OH-1004 reference and quantified as gene TPM. PRJNA931633 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Independent historical OH expression data available for querying Public transcriptome quantification / OH-1004 / TPM Public NCBI SRA/ENA; re-quantified against the specified reference genome 360513 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA985648_OH1004_RNAseq_TPM PRJNA985648 public RNA-seq realigned to the OH-1004 reference and quantified as gene TPM. PRJNA985648 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Independent historical OH expression data available for querying Public transcriptome quantification / OH-1004 / TPM Public NCBI SRA/ENA; re-quantified against the specified reference genome 80114 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA1262623_OH1004_RNAseq_TPM PRJNA1262623 public RNA-seq realigned to the OH-1004 reference and quantified as gene TPM. PRJNA1262623 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Independent historical OH expression data available for querying Public transcriptome quantification / OH-1004 / TPM Public NCBI SRA/ENA; re-quantified against the specified reference genome 600855 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJDB36270_OH1004_RNAseq_TPM PRJDB36270 public RNA-seq realigned to the OH-1004 reference and quantified as gene TPM. PRJDB36270 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Independent historical OH expression data available for querying Public transcriptome quantification / OH-1004 / TPM Public NCBI SRA/ENA; re-quantified against the specified reference genome 360513 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration DRA_unassigned_DRR_OH1004_RNAseq_TPM DRA_unassigned_DRR public RNA-seq realigned to the OH-1004 reference and quantified as gene TPM. PRJDB37370 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Independent historical OH expression data available for querying Public transcriptome quantification / OH-1004 / TPM Public NCBI SRA/ENA; re-quantified against the specified reference genome 160228 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA1490093_OH1004_RNAseq_TPM PRJNA1490093 public RNA-seq realigned to the OH-1004 reference and quantified as gene TPM. PRJNA1490093 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Independent historical OH expression data available for querying Public transcriptome quantification / OH-1004 / TPM Public NCBI SRA/ENA; re-quantified against the specified reference genome 600855 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA745038_OH1004_RNAseq_TPM PRJNA745038 public RNA-seq realigned to the OH-1004 reference and quantified as gene TPM. PRJNA745038 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Independent historical OH expression data available for querying Public transcriptome quantification / OH-1004 / TPM Public NCBI SRA/ENA; re-quantified against the specified reference genome 360513 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJDB36270_TK1151_UNIFORM_V4_COVERAGE PRJDB36270; TK1151 unified fixed model v4; COVERAGE; 9 RNA-seq samples PRJDB36270 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; COVERAGE; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJDB36270 886257 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJDB37370_TK1151_UNIFORM_V4_COVERAGE PRJDB37370; TK1151 unified fixed model v4; COVERAGE; 4 RNA-seq samples PRJDB37370 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; COVERAGE; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJDB37370 393892 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA1262623_TK1151_UNIFORM_V4_COVERAGE PRJNA1262623; TK1151 unified fixed model v4; COVERAGE; 15 RNA-seq samples PRJNA1262623 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; COVERAGE; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJNA1262623 1477095 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA1490093_TK1151_UNIFORM_V4_COVERAGE PRJNA1490093; TK1151 unified fixed model v4; COVERAGE; 15 RNA-seq samples PRJNA1490093 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; COVERAGE; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJNA1490093 1477095 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA361575_TK1151_UNIFORM_V4_COVERAGE PRJNA361575; TK1151 unified fixed model v4; COVERAGE; 6 RNA-seq samples PRJNA361575 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; COVERAGE; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJNA361575 590838 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA413689_TK1151_UNIFORM_V4_COVERAGE PRJNA413689; TK1151 unified fixed model v4; COVERAGE; 3 RNA-seq samples PRJNA413689 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; COVERAGE; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJNA413689 295419 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA539838_TK1151_UNIFORM_V4_COVERAGE PRJNA539838; TK1151 unified fixed model v4; COVERAGE; 16 RNA-seq samples PRJNA539838 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; COVERAGE; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJNA539838 1575568 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA745038_TK1151_UNIFORM_V4_COVERAGE PRJNA745038; TK1151 unified fixed model v4; COVERAGE; 9 RNA-seq samples PRJNA745038 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; COVERAGE; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJNA745038 886257 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA827459_TK1151_UNIFORM_V4_COVERAGE PRJNA827459; TK1151 unified fixed model v4; COVERAGE; 15 RNA-seq samples PRJNA827459 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; COVERAGE; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJNA827459 1477095 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA918839_TK1151_UNIFORM_V4_COVERAGE PRJNA918839; TK1151 unified fixed model v4; COVERAGE; 6 RNA-seq samples PRJNA918839 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; COVERAGE; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJNA918839 590838 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA931633_TK1151_UNIFORM_V4_COVERAGE PRJNA931633; TK1151 unified fixed model v4; COVERAGE; 9 RNA-seq samples PRJNA931633 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; COVERAGE; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJNA931633 886257 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA985648_TK1151_UNIFORM_V4_COVERAGE PRJNA985648; TK1151 unified fixed model v4; COVERAGE; 2 RNA-seq samples PRJNA985648 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; COVERAGE; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJNA985648 196946 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJDB36270_TK1151_UNIFORM_V4_FPKM PRJDB36270; TK1151 unified fixed model v4; FPKM; 9 RNA-seq samples PRJDB36270 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; FPKM; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJDB36270 886257 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJDB37370_TK1151_UNIFORM_V4_FPKM PRJDB37370; TK1151 unified fixed model v4; FPKM; 4 RNA-seq samples PRJDB37370 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; FPKM; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJDB37370 393892 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA1262623_TK1151_UNIFORM_V4_FPKM PRJNA1262623; TK1151 unified fixed model v4; FPKM; 15 RNA-seq samples PRJNA1262623 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; FPKM; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJNA1262623 1477095 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA1490093_TK1151_UNIFORM_V4_FPKM PRJNA1490093; TK1151 unified fixed model v4; FPKM; 15 RNA-seq samples PRJNA1490093 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; FPKM; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJNA1490093 1477095 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA361575_TK1151_UNIFORM_V4_FPKM PRJNA361575; TK1151 unified fixed model v4; FPKM; 6 RNA-seq samples PRJNA361575 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; FPKM; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJNA361575 590838 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA413689_TK1151_UNIFORM_V4_FPKM PRJNA413689; TK1151 unified fixed model v4; FPKM; 3 RNA-seq samples PRJNA413689 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; FPKM; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJNA413689 295419 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA539838_TK1151_UNIFORM_V4_FPKM PRJNA539838; TK1151 unified fixed model v4; FPKM; 16 RNA-seq samples PRJNA539838 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; FPKM; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJNA539838 1575568 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA745038_TK1151_UNIFORM_V4_FPKM PRJNA745038; TK1151 unified fixed model v4; FPKM; 9 RNA-seq samples PRJNA745038 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; FPKM; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJNA745038 886257 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA827459_TK1151_UNIFORM_V4_FPKM PRJNA827459; TK1151 unified fixed model v4; FPKM; 15 RNA-seq samples PRJNA827459 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; FPKM; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJNA827459 1477095 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA918839_TK1151_UNIFORM_V4_FPKM PRJNA918839; TK1151 unified fixed model v4; FPKM; 6 RNA-seq samples PRJNA918839 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; FPKM; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJNA918839 590838 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA931633_TK1151_UNIFORM_V4_FPKM PRJNA931633; TK1151 unified fixed model v4; FPKM; 9 RNA-seq samples PRJNA931633 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; FPKM; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJNA931633 886257 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA985648_TK1151_UNIFORM_V4_FPKM PRJNA985648; TK1151 unified fixed model v4; FPKM; 2 RNA-seq samples PRJNA985648 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; FPKM; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJNA985648 196946 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJDB36270_TK1151_UNIFORM_V4_TPM PRJDB36270; TK1151 unified fixed model v4; TPM; 9 RNA-seq samples PRJDB36270 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; TPM; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJDB36270 886257 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJDB37370_TK1151_UNIFORM_V4_TPM PRJDB37370; TK1151 unified fixed model v4; TPM; 4 RNA-seq samples PRJDB37370 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; TPM; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJDB37370 393892 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA1262623_TK1151_UNIFORM_V4_TPM PRJNA1262623; TK1151 unified fixed model v4; TPM; 15 RNA-seq samples PRJNA1262623 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; TPM; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJNA1262623 1477095 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA1490093_TK1151_UNIFORM_V4_TPM PRJNA1490093; TK1151 unified fixed model v4; TPM; 15 RNA-seq samples PRJNA1490093 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; TPM; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJNA1490093 1477095 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA361575_TK1151_UNIFORM_V4_TPM PRJNA361575; TK1151 unified fixed model v4; TPM; 6 RNA-seq samples PRJNA361575 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; TPM; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJNA361575 590838 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA413689_TK1151_UNIFORM_V4_TPM PRJNA413689; TK1151 unified fixed model v4; TPM; 3 RNA-seq samples PRJNA413689 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; TPM; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJNA413689 295419 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA539838_TK1151_UNIFORM_V4_TPM PRJNA539838; TK1151 unified fixed model v4; TPM; 16 RNA-seq samples PRJNA539838 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; TPM; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJNA539838 1575568 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA745038_TK1151_UNIFORM_V4_TPM PRJNA745038; TK1151 unified fixed model v4; TPM; 9 RNA-seq samples PRJNA745038 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; TPM; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJNA745038 886257 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA827459_TK1151_UNIFORM_V4_TPM PRJNA827459; TK1151 unified fixed model v4; TPM; 15 RNA-seq samples PRJNA827459 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; TPM; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJNA827459 1477095 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA918839_TK1151_UNIFORM_V4_TPM PRJNA918839; TK1151 unified fixed model v4; TPM; 6 RNA-seq samples PRJNA918839 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; TPM; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJNA918839 590838 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA931633_TK1151_UNIFORM_V4_TPM PRJNA931633; TK1151 unified fixed model v4; TPM; 9 RNA-seq samples PRJNA931633 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; TPM; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJNA931633 886257 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance Expression dataset registration PRJNA985648_TK1151_UNIFORM_V4_TPM PRJNA985648; TK1151 unified fixed model v4; TPM; 2 RNA-seq samples PRJNA985648 Fixed TKU-model and independent OH datasets kept separate; metadata entries do not establish quantified samples Uniform-v4 expression data available for querying Public transcriptome quantification / TK1151 / TPM Uniform v4 fixed TKU loci; model b63dabd24e9d3cd96fb574a1adfe0d0f64c385da0eb3d272d012f299694b2245; TPM; accepted 109-run transcript-derived quantification 2026-10-03; NCBI SRA/ENA PRJNA985648 196946 S1 Data Resources;S2 Samples and Reads;S4 Website Data Provenance