{"gene":"JPH4","run_date":"2026-06-10T01:55:23","timeline":{"discoveries":[],"current_model":"No mechanistic findings about the JPH4 protein (Junctophilin-4) are present in the available literature corpus; all retrieved papers concern a chemical compound (JP4-039) or unrelated biological entities sharing the JP4 designation."},"narrative":{"mechanistic_narrative":"No mechanistic discoveries found in literature.","teleology":[],"mechanism_profile":null},"prefetch_data":{"uniprot":{"accession":"Q96JJ6","full_name":"Junctophilin-4","aliases":["Junctophilin-like 1 protein"],"length_aa":628,"mass_kda":65.9,"function":"Junctophilins contribute to the formation of junctional membrane complexes (JMCs) which link the plasma membrane with the endoplasmic or sarcoplasmic reticulum in excitable cells. Provides a structural foundation for functional cross-talk between the cell surface and intracellular calcium release channels. JPH4 is brain-specific and appears to have an active role in certain neurons involved in motor coordination and memory (By similarity)","subcellular_location":"Cell membrane; Endoplasmic reticulum membrane","url":"https://www.uniprot.org/uniprotkb/Q96JJ6/entry"},"depmap":{"release":"DepMap","has_data":true,"is_common_essential":false,"resolved_as":"","url":"https://depmap.org/portal/gene/JPH4","classification":"Not Classified","n_dependent_lines":48,"n_total_lines":1208,"dependency_fraction":0.039735099337748346},"opencell":{"profiled":false,"resolved_as":"","ensg_id":"","cell_line_id":"","localizations":[],"interactors":[],"url":"https://opencell.sf.czbiohub.org/search/JPH4","total_profiled":1310},"omim":[{"mim_id":"619863","title":"JUNCTOPHILIN 4; JPH4","url":"https://www.omim.org/entry/619863"},{"mim_id":"605268","title":"JUNCTOPHILIN 3; JPH3","url":"https://www.omim.org/entry/605268"}],"hpa":{"profiled":true,"resolved_as":"","reliability":"Approved","locations":[{"location":"Cytosol","reliability":"Approved"}],"tissue_specificity":"Tissue enhanced","tissue_distribution":"Detected in many","driving_tissues":[{"tissue":"brain","ntpm":136.2},{"tissue":"pituitary gland","ntpm":54.0}],"url":"https://www.proteinatlas.org/search/JPH4"},"hgnc":{"alias_symbol":["KIAA1831","JP4"],"prev_symbol":["JPHL1"]},"alphafold":{"accession":"Q96JJ6","domains":[{"cath_id":"2.20.110.10","chopping":"3-168_277-339_350-415","consensus_level":"medium","plddt":91.5045,"start":3,"end":415}],"viewer_url":"https://alphafold.ebi.ac.uk/entry/Q96JJ6","model_url":"https://alphafold.ebi.ac.uk/files/AF-Q96JJ6-F1-model_v6.cif","pae_url":"https://alphafold.ebi.ac.uk/files/AF-Q96JJ6-F1-predicted_aligned_error_v6.png","plddt_mean":63.31},"mouse_models":{"mgi_url":"https://www.informatics.jax.org/marker/summary?nomen=JPH4","jax_strain_url":"https://www.jax.org/strain/search?query=JPH4"},"sequence":{"accession":"Q96JJ6","fasta_url":"https://rest.uniprot.org/uniprotkb/Q96JJ6.fasta","uniprot_url":"https://www.uniprot.org/uniprotkb/Q96JJ6/entry","alphafold_viewer_url":"https://alphafold.ebi.ac.uk/entry/Q96JJ6"}},"corpus_meta":[{"pmid":"19779106","id":"PMC_19779106","title":"The mitochondria-targeted nitroxide JP4-039 augments potentially lethal irradiation damage repair.","date":"2009","source":"In vivo (Athens, Greece)","url":"https://pubmed.ncbi.nlm.nih.gov/19779106","citation_count":46,"is_preprint":false},{"pmid":"21939290","id":"PMC_21939290","title":"GS-nitroxide (JP4-039)-mediated radioprotection of human Fanconi anemia cell lines.","date":"2011","source":"Radiation research","url":"https://pubmed.ncbi.nlm.nih.gov/21939290","citation_count":37,"is_preprint":false},{"pmid":"24932534","id":"PMC_24932534","title":"Amelioration of radiation-induced oral cavity mucositis and distant bone marrow suppression in fanconi anemia Fancd2-/- (FVB/N) mice by intraoral GS-nitroxide JP4-039.","date":"2014","source":"Radiation research","url":"https://pubmed.ncbi.nlm.nih.gov/24932534","citation_count":34,"is_preprint":false},{"pmid":"26789701","id":"PMC_26789701","title":"Intraoral Mitochondrial-Targeted GS-Nitroxide, JP4-039, Radioprotects Normal Tissue in Tumor-Bearing Radiosensitive Fancd2(-/-) (C57BL/6) Mice.","date":"2016","source":"Radiation research","url":"https://pubmed.ncbi.nlm.nih.gov/26789701","citation_count":32,"is_preprint":false},{"pmid":"29391546","id":"PMC_29391546","title":"The GS-nitroxide JP4-039 improves intestinal barrier and stem cell recovery in irradiated mice.","date":"2018","source":"Scientific reports","url":"https://pubmed.ncbi.nlm.nih.gov/29391546","citation_count":20,"is_preprint":false},{"pmid":"29584588","id":"PMC_29584588","title":"Amelioration of Head and Neck Radiation-Induced Mucositis and Distant Marrow Suppression in Fanca-/- and Fancg-/- Mice by Intraoral Administration of GS-Nitroxide (JP4-039).","date":"2018","source":"Radiation research","url":"https://pubmed.ncbi.nlm.nih.gov/29584588","citation_count":19,"is_preprint":false},{"pmid":"32882059","id":"PMC_32882059","title":"The mitochondrial-targeted reactive species scavenger JP4-039 prevents sulfite-induced alterations in antioxidant defenses, energy transfer, and cell death signaling in striatum of rats.","date":"2020","source":"Journal of inherited metabolic disease","url":"https://pubmed.ncbi.nlm.nih.gov/32882059","citation_count":14,"is_preprint":false},{"pmid":"9523452","id":"PMC_9523452","title":"Implementation of natural attenuation at a JP-4 jet fuel release after active remediation.","date":"1997","source":"Biodegradation","url":"https://pubmed.ncbi.nlm.nih.gov/9523452","citation_count":11,"is_preprint":false},{"pmid":"40129610","id":"PMC_40129610","title":"JP4-039 protects chondrocytes from ferroptosis to attenuate osteoarthritis progression by promoting Pink1/Parkin-dependent mitophagy.","date":"2025","source":"Journal of orthopaedic translation","url":"https://pubmed.ncbi.nlm.nih.gov/40129610","citation_count":10,"is_preprint":false},{"pmid":"25189880","id":"PMC_25189880","title":"Improved hematopoiesis in GS-nitroxide (JP4-039)-treated mouse long-term bone marrow cultures and radioresistance of derived bone marrow stromal cell lines.","date":"2014","source":"In vivo (Athens, Greece)","url":"https://pubmed.ncbi.nlm.nih.gov/25189880","citation_count":9,"is_preprint":false},{"pmid":"31882460","id":"PMC_31882460","title":"Fanconi Anemia Mouse Genotype-specific Mitigation of Total Body Irradiation by GS-Nitroxide JP4-039.","date":"2020","source":"In vivo (Athens, Greece)","url":"https://pubmed.ncbi.nlm.nih.gov/31882460","citation_count":8,"is_preprint":false},{"pmid":"29245086","id":"PMC_29245086","title":"Liquid chromatography-tandem mass spectrometric assay for the quantitation of the novel radiation protective agent and radiation mitigator JP4-039 in murine plasma.","date":"2017","source":"Journal of pharmaceutical and biomedical analysis","url":"https://pubmed.ncbi.nlm.nih.gov/29245086","citation_count":7,"is_preprint":false},{"pmid":"28358695","id":"PMC_28358695","title":"Induction of TGF-β by Irradiation or Chemotherapy in Fanconi Anemia (FA) Mouse Bone Marrow Is Modulated by Small Molecule Radiation Mitigators JP4-039 and MMS350.","date":"2017","source":"In vivo (Athens, Greece)","url":"https://pubmed.ncbi.nlm.nih.gov/28358695","citation_count":6,"is_preprint":false},{"pmid":"40273045","id":"PMC_40273045","title":"Mitochondria-targeted ROS scavenger JP4-039 improves cardiac function in a post-myocardial infarction animal model and induces angiogenesis in vitro.","date":"2025","source":"PloS one","url":"https://pubmed.ncbi.nlm.nih.gov/40273045","citation_count":5,"is_preprint":false},{"pmid":"39074819","id":"PMC_39074819","title":"Mitigation of Fetal Radiation Injury from Mid-Gestation Total-body Irradiation by Maternal Administration of Mitochondrial-Targeted GS-Nitroxide JP4-039.","date":"2024","source":"Radiation research","url":"https://pubmed.ncbi.nlm.nih.gov/39074819","citation_count":4,"is_preprint":false},{"pmid":"38928220","id":"PMC_38928220","title":"JP4-039, a Mitochondria-Targeted Nitroxide, Mitigates the Effect of Apoptosis and Inflammatory Cell Migration in the Irradiated Mouse Retina.","date":"2024","source":"International journal of molecular sciences","url":"https://pubmed.ncbi.nlm.nih.gov/38928220","citation_count":2,"is_preprint":false},{"pmid":"41291724","id":"PMC_41291724","title":"Characterization of a novel Jumbo phage JP4 with potential to control pathogenic Escherichia coli.","date":"2025","source":"Virology journal","url":"https://pubmed.ncbi.nlm.nih.gov/41291724","citation_count":2,"is_preprint":false},{"pmid":"38405696","id":"PMC_38405696","title":"Mitigation of Fetal Irradiation Injury from Mid-Gestation Total Body Radiation with Mitochondrial-Targeted GS-Nitroxide JP4-039.","date":"2024","source":"bioRxiv : the preprint server for biology","url":"https://pubmed.ncbi.nlm.nih.gov/38405696","citation_count":0,"is_preprint":false},{"pmid":"42117680","id":"PMC_42117680","title":"Complete genome sequence of polyurethane-degrading Aeromicrobium sp. JP4.","date":"2026","source":"Microbiology resource announcements","url":"https://pubmed.ncbi.nlm.nih.gov/42117680","citation_count":0,"is_preprint":false}],"cost":{"stage1":{"model":"claude-sonnet-4-6","input_tokens":12517,"output_tokens":322,"usd":0.021191,"stage1_stop_reason":"end_turn"},"stage2":{"model":"","input_tokens":0,"output_tokens":0,"usd":0.0},"total_usd":0.021191,"stage1_batch_id":"msgbatch_01DUPACZi7AAWwuZiUjseQF4","stage2_batch_id":"msgbatch_018yt7chE3f48PEFtDwtj6AE","note":"batch pricing = 50% of standard"},"stage1_raw":"Looking at the corpus, I need to identify papers about the human gene JPH4 (also known as KIAA1831, JP4, JPHL1 - a junctophilin family member involved in membrane junctions).\n\nAfter reviewing all 19 papers:\n- Papers 1-16, 18: These are about \"JP4-039,\" a mitochondria-targeted nitroxide chemical compound (a drug/small molecule radioprotector), NOT the JPH4 protein/gene.\n- Paper 17: About a bacteriophage named \"JP4\" - symbol collision, not the human gene.\n- Paper 19: About a bacterium \"Aeromicrobium sp. JP4\" - symbol collision, not the human gene.\n\nNone of these papers describe the canonical JPH4 protein (Junctophilin-4, a membrane junction protein involved in calcium signaling). The corpus has been populated entirely with papers about the chemical compound \"JP4-039\" and other unrelated \"JP4\" entities, none of which are about the JPH4 gene product.\n\n```json\n{\n  \"discoveries\": [],\n  \"current_model\": \"No mechanistic findings about the JPH4 protein (Junctophilin-4) are present in the available literature corpus; all retrieved papers concern a chemical compound (JP4-039) or unrelated biological entities sharing the JP4 designation.\"\n}\n```","stage2_raw":"","audit_flag":null,"evaluation":null}