{"version":"oxtr-human-sites-2026-10-19-v1","date":"2026-10-19","notion_url":"https://www.notion.so/3fd7b9c99c56815a8b84e6839dc1d3ed","status":"First harmonisation pass complete; legacy site recovery in progress","question":"Which human OXTR binding elements and regional evidence are reported, where are they located, and which records overlap or reuse evidence?","summary":{"total_observations":218320,"literature_records":45,"human_literature_records":28,"distinct_reference_intervals":87815,"colocated_interval_groups":34819,"retained_observations":218320,"discarded_observations":0,"mapped_human_literature_records":3,"exact_published_sequence_mappings":2,"literature_database_overlap_pairs":5118,"human_evidence_categories":{"annotation_prediction":8,"laboratory_tested":20,"binding_evidence":12,"functional_evidence":9,"regulatory_context":5},"unique_confirmed_human_site_total":null},"categories":[{"id":"laboratory_tested","label":"Laboratory tested","definition":"The record reports a laboratory assay. Includes positive, mixed and negative results; a group-level test does not resolve every member."},{"id":"binding_evidence","label":"Binding evidence","definition":"Reported DNA binding or regional occupancy, at the resolution and in the system stated by the source."},{"id":"functional_evidence","label":"Functional evidence","definition":"An element, region or element-based reporter has an experimental regulatory response. This does not imply every nucleotide or predicted motif was independently validated."},{"id":"annotation_prediction","label":"Annotation or prediction","definition":"Sequence or database annotation; direct binding is not established by the annotation alone."},{"id":"regulatory_context","label":"Regulatory context","definition":"Evidence concerning gene regulation without an independently resolved binding site in this record."}],"input_sha256":{"literature-evidence.json":"952570dbf5dc5de4b65a0ab7b7843d437943449debd3df4aa8856f78d73fdd5e","jaspar-predictions.json.gz":"ef1e2bf01dfcddab0e7096fae52c20a1e9ed06d4517ca21467377e8a2fa46832","encode-clusters.json":"7a111b4d6e937ae5fbfadf5cba1ffc9dba968402aa04b2587b120a4fc6c3c198","oreganno-regions.json":"0153bdfd211ebe4522fab37fac333d6d11cf7d8edd3a83a4d993e38ea6405c34","reference-dna.json":"b505a95d97ed1db084e0dbe07f6cb2e9123d833e62ada29deb5d6bc11c6e5b9f","study-additions-v1/braintf-peaks.json":"2135e0f2198bba5b0a2d2a3c60ba425d52e212dae6978f3d613b638b585777a9"},"coordinate_system":"GRCh38, 0-based start and exclusive end. Historical TSS/ATG/CpG positions retained verbatim until anchored.","normalisation":"Common columns and stable identifiers. Original source records remain unchanged. Source scores retain their own scales; missing values remain null.","deduplication":"Group exact intervals by species, assembly, chromosome, start and end. Preserve all observations, strands, factors and experiments. Interval identity is not biological-site identity.","overlap_scope":"Mapped human literature records versus imported ENCODE, ORegAnno, JASPAR and screened BrainTF observations. Not an all-pairs motif network. Prediction display-threshold flags are retained.","species_policy":"Human and animal observations remain distinguishable; no cross-species deduplication or coordinate projection.","atlas_status":"No DNA-to-M9 mapping or statistical comparison performed. Native positions remain the basis for future defined comparisons.","original_fifteen":{"pmid":"16569740","species":"Homo sapiens","reported_count":15,"groups":{"AP1":3,"C/EBP":9,"NF-kappaB":3},"individual_coordinates_recovered":0,"status":"Full-text tables and figures still required","evidence":"Human promoter study reports computer analysis, EMSA and mutation assays; effects differ by factor and combination.","source":"https://academic.oup.com/jcem/article/91/6/2317/2843585"},"priorities":["Recover the 2006 paper and any supplementary sequence or oligonucleotide tables through library access, publisher purchase or an author-provided copy.","Resolve the 2006 and 2011 promoter anchors and exact tested sequences before mapping their sites to GRCh38.","Recover GABP/CRE-like and ERE-like motif extents from human primary studies; preserve assay-specific outcomes.","Inspect GSE197160 processed tracks for human myometrial HIF1A; bigWig signal is not an independently recovered peak interval.","Expand human primary-source screening and deduplicate with sequence, factor, experiment and cell-context checks.","Develop the original DNA line, full-position circle and M9 view once mapping rules are defined."],"access_routes":["University or public-library document delivery","Publisher purchase after checking included tables and supplements","Author manuscript or original site-data request; no request sent"],"sources":[{"url":"https://pubmed.ncbi.nlm.nih.gov/10221779/","use":"Published US-1 sequence and laboratory findings"},{"url":"https://pubmed.ncbi.nlm.nih.gov/10527846/","use":"Published US-2 sequence and MAFF binding"},{"url":"https://pubmed.ncbi.nlm.nih.gov/21734268/","use":"Shared 20-base human response region"},{"url":"https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE197160","use":"Human myometrial HIF1A source data located; no peak file imported"}]}