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Animal experiments in the same paper are not merged into this record.","reference_interval_id":null},{"observation_id":"literature:TFBS028","source_collection":"literature","source_record_id":"TFBS028","species":"Mus musculus","gene":"Oxtr","feature_type":"binding_supported","factor_reported":"PEG3","assembly":null,"chromosome":null,"start_0based":null,"end_exclusive":null,"strand":null,"sequence_reported":null,"evidence_categories":["laboratory_tested","binding_evidence"],"assay_methods":"Competitive EMSA","context_reference":"literature-evidence.json#TFBS028","original_position":null,"mapping_status":"Unresolved","source_url":"https://pubmed.ncbi.nlm.nih.gov/30106994/","pmid":"30106994","matrix_id":null,"original_score":null,"score_semantics":null,"default_display_threshold_pass":null,"outcome":"Competitive EMSA supports binding.","limitations":"Site sequences require figure-level recovery. 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BS4 also lies in the ChIP-tested region.","limitations":"Site sequences require figure-level recovery. The paper describes a 225-bp ChIP region but also lists mm10 chr6:112488870–112489904, an inconsistent span; genomic normalization is withheld.","reference_interval_id":null},{"observation_id":"literature:TFBS032","source_collection":"literature","source_record_id":"TFBS032","species":"Mus musculus","gene":"Oxtr","feature_type":"tested_candidate","factor_reported":"PEG3","assembly":null,"chromosome":null,"start_0based":null,"end_exclusive":null,"strand":null,"sequence_reported":null,"evidence_categories":["laboratory_tested"],"assay_methods":"Competitive EMSA","context_reference":"literature-evidence.json#TFBS032","original_position":null,"mapping_status":"Unresolved","source_url":"https://pubmed.ncbi.nlm.nih.gov/30106994/","pmid":"30106994","matrix_id":null,"original_score":null,"score_semantics":null,"default_display_threshold_pass":null,"outcome":"The reported competitive EMSA did not support binding.","limitations":"Site sequences require figure-level recovery. The paper describes a 225-bp ChIP region but also lists mm10 chr6:112488870–112489904, an inconsistent span; genomic normalization is withheld.","reference_interval_id":null},{"observation_id":"literature:TFBS033","source_collection":"literature","source_record_id":"TFBS033","species":"Homo sapiens","gene":"OXTR","feature_type":"occupancy_region","factor_reported":"HIF1A","assembly":null,"chromosome":null,"start_0based":null,"end_exclusive":null,"strand":null,"sequence_reported":null,"evidence_categories":["laboratory_tested","binding_evidence"],"assay_methods":"ChIP-seq / hypoxia / knockdown","context_reference":"literature-evidence.json#TFBS033","original_position":"OXTR coding region","mapping_status":"Unresolved","source_url":"https://pubmed.ncbi.nlm.nih.gov/36094838/","pmid":"36094838","matrix_id":null,"original_score":null,"score_semantics":null,"default_display_threshold_pass":null,"outcome":"HIF1A occupancy is reported in the OXTR coding region with expression responses to hypoxia.","limitations":"A ChIP region is not a resolved short binding motif. Exact peak coordinates were not recovered from the article.","reference_interval_id":null},{"observation_id":"literature:TFBS034","source_collection":"literature","source_record_id":"TFBS034","species":"Mus musculus","gene":"Oxtr","feature_type":"regulatory_context","factor_reported":"PGR; CNOT1","assembly":null,"chromosome":null,"start_0based":null,"end_exclusive":null,"strand":null,"sequence_reported":null,"evidence_categories":["laboratory_tested","binding_evidence","regulatory_context"],"assay_methods":"Myometrial ChIP / re-ChIP","context_reference":"literature-evidence.json#TFBS034","original_position":null,"mapping_status":"Unresolved","source_url":"https://pubmed.ncbi.nlm.nih.gov/38897566/","pmid":"38897566","matrix_id":null,"original_score":null,"score_semantics":null,"default_display_threshold_pass":null,"outcome":"The mouse Oxtr region shows PR binding; CNOT1 re-ChIP enrichment at Oxtr was not significant.","limitations":"CNOT1 is a coregulator, not an established sequence-specific DNA-binding factor. Human cell experiments in the paper are additional context, not merged site counts.","reference_interval_id":null},{"observation_id":"literature:TFBS035","source_collection":"literature","source_record_id":"TFBS035","species":"Homo sapiens","gene":"OXTR","feature_type":"regulatory_context","factor_reported":"NF-kappaB","assembly":null,"chromosome":null,"start_0based":null,"end_exclusive":null,"strand":null,"sequence_reported":null,"evidence_categories":["laboratory_tested","regulatory_context"],"assay_methods":"Primary macrophages / THP-1 / pathway inhibition","context_reference":"literature-evidence.json#TFBS035","original_position":null,"mapping_status":"Unresolved","source_url":"https://pubmed.ncbi.nlm.nih.gov/28049625/","pmid":"28049625","matrix_id":null,"original_score":null,"score_semantics":null,"default_display_threshold_pass":null,"outcome":"Inflammatory induction of OXTR depends on NF-kappaB signalling in the studied cells.","limitations":"Regulatory evidence without an additional mapped binding site.","reference_interval_id":null},{"observation_id":"literature:TFBS036","source_collection":"literature","source_record_id":"TFBS036","species":"Homo sapiens","gene":"OXTR","feature_type":"regulatory_context","factor_reported":"SP1","assembly":null,"chromosome":null,"start_0based":null,"end_exclusive":null,"strand":null,"sequence_reported":null,"evidence_categories":["laboratory_tested","regulatory_context"],"assay_methods":"Human tissue / SK-N-SH silencing / inhibitor","context_reference":"literature-evidence.json#TFBS036","original_position":null,"mapping_status":"Unresolved","source_url":"https://pubmed.ncbi.nlm.nih.gov/22030357/","pmid":"22030357","matrix_id":null,"original_score":null,"score_semantics":null,"default_display_threshold_pass":null,"outcome":"SP1 perturbation changes OXTR expression in the studied neural cells.","limitations":"Expression dependence does not locate a binding site. Other genes in the study are not OXTR sites.","reference_interval_id":null},{"observation_id":"literature:TFBS037","source_collection":"literature","source_record_id":"TFBS037","species":"Ovis aries","gene":"Oxtr","feature_type":"functional_region","factor_reported":"SP1","assembly":null,"chromosome":null,"start_0based":null,"end_exclusive":null,"strand":null,"sequence_reported":null,"evidence_categories":["laboratory_tested","functional_evidence"],"assay_methods":"Promoter mutation / reporter assays","context_reference":"literature-evidence.json#TFBS037","original_position":"-104 in the paper’s promoter numbering","mapping_status":"Unresolved","source_url":"https://pubmed.ncbi.nlm.nih.gov/16254027/","pmid":"16254027","matrix_id":null,"original_score":null,"score_semantics":null,"default_display_threshold_pass":null,"outcome":"SP1 elements support basal and estrogen-mediated promoter activity.","limitations":"Ovine evidence; estrogen-mediated action at these elements is not a human ERE site.","reference_interval_id":null},{"observation_id":"literature:TFBS038","source_collection":"literature","source_record_id":"TFBS038","species":"Ovis aries","gene":"Oxtr","feature_type":"functional_region","factor_reported":"SP1","assembly":null,"chromosome":null,"start_0based":null,"end_exclusive":null,"strand":null,"sequence_reported":null,"evidence_categories":["laboratory_tested","functional_evidence"],"assay_methods":"Promoter mutation / reporter assays","context_reference":"literature-evidence.json#TFBS038","original_position":"-64 in the paper’s promoter numbering","mapping_status":"Unresolved","source_url":"https://pubmed.ncbi.nlm.nih.gov/16254027/","pmid":"16254027","matrix_id":null,"original_score":null,"score_semantics":null,"default_display_threshold_pass":null,"outcome":"SP1 elements support basal and estrogen-mediated promoter activity.","limitations":"Ovine evidence; estrogen-mediated action at these elements is not a human ERE site.","reference_interval_id":null},{"observation_id":"literature:TFBS039","source_collection":"literature","source_record_id":"TFBS039","species":"Rattus norvegicus","gene":"Oxtr","feature_type":"functional_region","factor_reported":"Estrogen receptor","assembly":null,"chromosome":null,"start_0based":null,"end_exclusive":null,"strand":null,"sequence_reported":null,"evidence_categories":["laboratory_tested","binding_evidence","functional_evidence"],"assay_methods":"EMSA / mutation / reporter assays","context_reference":"literature-evidence.json#TFBS039","original_position":"Approximately 4 kb upstream of translation start (ATG)","mapping_status":"Unresolved","source_url":"https://pubmed.ncbi.nlm.nih.gov/9048622/","pmid":"9048622","matrix_id":null,"original_score":null,"score_semantics":null,"default_display_threshold_pass":null,"outcome":"An upstream ERE supports estrogen-responsive transcription.","limitations":"Translation-start anchor, not TSS; approximate position only.","reference_interval_id":null},{"observation_id":"literature:TFBS040","source_collection":"literature","source_record_id":"TFBS040","species":"Bos taurus","gene":"Oxtr","feature_type":"functional_region","factor_reported":"IRF1; IRF2","assembly":null,"chromosome":null,"start_0based":null,"end_exclusive":null,"strand":null,"sequence_reported":null,"evidence_categories":["laboratory_tested","binding_evidence","functional_evidence"],"assay_methods":"EMSA / reporter assays","context_reference":"literature-evidence.json#TFBS040","original_position":"Approximately −2400 from TSS","mapping_status":"Unresolved","source_url":"https://pubmed.ncbi.nlm.nih.gov/12604656/","pmid":"12604656","matrix_id":null,"original_score":null,"score_semantics":null,"default_display_threshold_pass":null,"outcome":"An upstream element binds IRF1 and IRF2.","limitations":"One shared bovine element, not two independent sites.","reference_interval_id":null},{"observation_id":"literature:TFBS041","source_collection":"literature","source_record_id":"TFBS041","species":"Oryctolagus cuniculus","gene":"Oxtr","feature_type":"occupancy_region","factor_reported":"CREB","assembly":null,"chromosome":null,"start_0based":null,"end_exclusive":null,"strand":null,"sequence_reported":null,"evidence_categories":["laboratory_tested","binding_evidence","functional_evidence"],"assay_methods":"DNase hypersensitivity / ChIP / reporter assays","context_reference":"literature-evidence.json#TFBS041","original_position":"A 200-bp region approximately 4.7 kb upstream of TSS","mapping_status":"Unresolved","source_url":"https://pubmed.ncbi.nlm.nih.gov/19439725/","pmid":"19439725","matrix_id":null,"original_score":null,"score_semantics":null,"default_display_threshold_pass":null,"outcome":"A CREB-associated region participates in the amnion cAMP response.","limitations":"Broad region in rabbit amnion; exact motif endpoints were not recovered.","reference_interval_id":null},{"observation_id":"literature:TFBS042","source_collection":"literature","source_record_id":"TFBS042","species":"Homo sapiens","gene":"OXTR","feature_type":"candidate_region","factor_reported":"ESR1; SP1","assembly":null,"chromosome":null,"start_0based":null,"end_exclusive":null,"strand":null,"sequence_reported":null,"evidence_categories":["annotation_prediction"],"assay_methods":"Motif prediction / published genomic tracks","context_reference":"literature-evidence.json#TFBS042","original_position":"hg19 CpGs chr3:8810078 and chr3:8810069","mapping_status":"Unresolved","source_url":"https://pubmed.ncbi.nlm.nih.gov/27108164/","pmid":"27108164","matrix_id":null,"original_score":null,"score_semantics":null,"default_display_threshold_pass":null,"outcome":"The paper relates methylation measurements to candidate regulatory motifs.","limitations":"These coordinates are CpG anchors, not motif coordinates. No new binding-site count is inferred.","reference_interval_id":null},{"observation_id":"literature:TFBS043","source_collection":"literature","source_record_id":"TFBS043","species":"Homo sapiens","gene":"OXTR","feature_type":"annotated_region","factor_reported":"EGR1","assembly":"GRCh38","chromosome":"chr3","start_0based":8767502,"end_exclusive":8768543,"strand":null,"sequence_reported":null,"evidence_categories":["annotation_prediction"],"assay_methods":"Published annotation / methylation study","context_reference":"literature-evidence.json#TFBS043","original_position":"GRCh38 chr3:8767502–8768543 (BED)","mapping_status":"Source regional annotation","source_url":"https://pubmed.ncbi.nlm.nih.gov/37479681/","pmid":"37479681","matrix_id":null,"original_score":null,"score_semantics":null,"default_display_threshold_pass":null,"outcome":"The paper references an EGR1-associated ORegAnno region.","limitations":"Annotation reused by the paper, not a new EGR1 binding experiment.","reference_interval_id":"OXI_535fab762f477748"},{"observation_id":"literature:TFBS044","source_collection":"literature","source_record_id":"TFBS044","species":"Homo sapiens","gene":"OXTR","feature_type":"occupancy_region","factor_reported":"43 assayed protein targets","assembly":null,"chromosome":null,"start_0based":null,"end_exclusive":null,"strand":null,"sequence_reported":null,"evidence_categories":["laboratory_tested","binding_evidence"],"assay_methods":"Human postmortem brain ChIP-seq; review of author replication tests, FRiP and HOT-region annotations.","context_reference":"literature-evidence.json#TFBS044","original_position":"Individual GRCh38 peak intervals are in study-additions-v1/braintf-peaks.json.","mapping_status":"Unresolved","source_url":"https://pubmed.ncbi.nlm.nih.gov/38831039/","pmid":"38831039","matrix_id":null,"original_score":null,"score_semantics":null,"default_display_threshold_pass":null,"outcome":"126 screened protein-occupancy observations overlap the OXTR window, representing 43 targets across 13 contexts. 114 overlap the defined proximal promoter.","limitations":"Peak observations across assay contexts, not unique sites or independent donors. The experiments share four postmortem donors across regions. Repeated contexts do not establish population replication. 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.","reference_interval_id":null},{"observation_id":"literature:TFBS045","source_collection":"literature","source_record_id":"TFBS045","species":"Homo sapiens","gene":"OXTR","feature_type":"functional_region","factor_reported":"Factor not resolved","assembly":null,"chromosome":null,"start_0based":null,"end_exclusive":null,"strand":null,"sequence_reported":null,"evidence_categories":["laboratory_tested","functional_evidence"],"assay_methods":"Human candidate enhancer DNA in mouse hypothalamic-cell luciferase assays and mouse reporter experiments.","context_reference":"literature-evidence.json#TFBS045","original_position":"OCE7 reported hg38 chr3:8757366–8759184; candidate interval and tested construct boundaries retained separately.","mapping_status":"Unresolved","source_url":"https://pubmed.ncbi.nlm.nih.gov/39957428/","pmid":"39957428","matrix_id":null,"original_score":null,"score_semantics":null,"default_display_threshold_pass":null,"outcome":"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.","limitations":"Reporter activity does not establish a named transcription-factor binding site or causal regulation of native human OXTR. 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.","reference_interval_id":null}]