{"version":"oxtr-study-additions-2026-10-21-v1","reviewed_on":"2026-10-21","window":{"assembly":"GRCh38","chromosome":"chr3","start_0based":8740380,"end_exclusive":8779628},"braintf":{"records":126,"targets":43,"contexts":13,"promoter_records":114,"selection":"One matching QC row; author replication test passes; both reported FRiP values at least 1%; overlapping author union regions labelled NOT-HOT; no identified target-label conflict.","FRiP_interpretation":"The 1% cutoff is an explicit Atlas review filter, not a universal quality threshold or the authors’ replication-pass definition.","HOT_interpretation":"Uses the authors’ union-region annotation; high-occupancy, conflicting and unassessed classifications are excluded.","count_unit":"Peak observations across assay contexts, not unique sites or independent donors.","coordinate_conversion":"Author GRanges starts were converted from 1-based to 0-based by subtracting one; exclusive ends equal the converted start plus GRanges width.","donor_limit":"The experiments share four postmortem donors across regions. Repeated contexts do not establish population replication.","assay_limit":"Assayed targets include chromatin-associated proteins and cofactors as well as transcription factors. ChIP-seq measures regional occupancy; it does not locate a contact nucleotide.","contextual_annotations":"Overlaps with existing ENCODE and PsychSCREEN brain candidate regulatory regions are spatial context, not independent validation of OXTR regulation.","review_scope":"13 author-packaged peak datasets and 226 additional public portal peak files inspected. The browser retains the conservative subset; all 390 locus observations, including histone marks, remain in the review download.","excluded_result":"No nominal allele-specific result in the separately reviewed BrainTF table passed BH-adjusted P < 0.05 at this locus; none is presented as confirmed allele-specific binding.","sources":["https://doi.org/10.1038/s41593-024-01658-8","https://github.com/aanderson54/Loupe_BrainTF","https://chip-portal.hudsonalpha.org/"]},"enhancer":{"pmid":"39957428","doi":"10.1093/hmg/ddaf022","result":"OCE1, OCE5 and OCE7 enhanced reporter activity in mouse hypothalamic cells. The tested DNA was human. OCE7 also drove reporter activity in mouse olfactory bulb at P28 and P56; adult hypothalamic activity was not detected.","atlas_scope":"OCE2, OCE6 and OCE7 reported regions intersect the current window. OCE2 and OCE6 were negative in the reporter assay. The window is unchanged.","boundary":"Reporter activity does not establish a named transcription-factor binding site or causal regulation of native human OXTR.","coordinates":"The reported OCE7 candidate interval and the Table 1 luciferase-primer span differ. Reported intervals and primer matches are retained separately, without a precise binding-site overlay.","source":"https://pmc.ncbi.nlm.nih.gov/articles/PMC12056307/"},"geometry_scope":"The Studies comparison and data browser both include 128 observations: US-1, US-2 and 126 screened BrainTF occupancy regions. Region centres are plotting representatives, not precise binding sites. The enhancer paper remains functional literature evidence.","files":{"peaks":"study-additions-v1/braintf-peaks.json","peak_csv":"study-additions-v1/braintf-peaks.csv","review":"study-additions-v1/braintf-locus-review.json","enhancers":"study-additions-v1/enhancer-regions.json"}}