% Bibliography for hypothesis h-seaad-51323624
% Title: Cell-Type Specific TREM2 Upregulation in DAM Microglia
% Generated: 2026-04-28T18:44:28Z

@article{pmid41435973,
  title = {AI-guided design of cyclic peptide binders targeting TREM2 using CycleRFdiffusion and experimental validation.},
  author = {Cho S, Zhu R, Kuncewicz K, Duan H, Gabr M},
  journal = {Bioorg Med Chem Lett},
  year = {2026},
  pmid = {41435973},
  doi = {doi: 10.1016/j.bmcl.2025.130512},
  url = {https://pubmed.ncbi.nlm.nih.gov/41435973/},
}

@article{pmid41490759,
  title = {ITAM-Syk signaling mediates the rebound phenomenon after anti-RANKL antibody discontinuation.},
  author = {Ishizu H, Hasegawa T, Shimizu T, Yamamoto T, Asano T et al.},
  journal = {Bone},
  year = {2026},
  pmid = {41490759},
  doi = {doi: 10.1016/j.bone.2026.117776},
  url = {https://pubmed.ncbi.nlm.nih.gov/41490759/},
}

@article{pmid41520444,
  title = {Oxaliplatin-artesunate conjugate intensifies suppression on colorectal cancer by boosting antitumor immunity.},
  author = {Tan Y, Yang T, Jiang S, Li S, Cai L et al.},
  journal = {J Inorg Biochem},
  year = {2026},
  pmid = {41520444},
  doi = {doi: 10.1016/j.jinorgbio.2026.113212},
  url = {https://pubmed.ncbi.nlm.nih.gov/41520444/},
}

@article{pmid41643896,
  title = {Loss of Triggering Receptor Expressed on Myeloid Cells 2 Impairs Microglial Function and Exacerbates Retinal Neurodegeneration in Glaucoma.},
  author = {Chen G, Wang Z, Zhao C, Wang C, Li Y et al.},
  journal = {Am J Pathol},
  year = {2026},
  pmid = {41643896},
  doi = {doi: 10.1016/j.ajpath.2026.01.009},
  url = {https://pubmed.ncbi.nlm.nih.gov/41643896/},
}

@article{pmid41651180,
  title = {Microglial metabolic reprogramming in Alzheimer's disease: Pathways, mechanisms, and therapeutic implications.},
  author = {Yang FG, Yang H, Han SW, Wang JT, Gao W et al.},
  journal = {Ageing Res Rev},
  year = {2026},
  pmid = {41651180},
  doi = {doi: 10.1016/j.arr.2026.103050},
  url = {https://pubmed.ncbi.nlm.nih.gov/41651180/},
}

@article{pmid41678917,
  title = {Plant-derived bioactive compounds modulate the gut microbiota in Alzheimer's disease: Metabolite signaling, neuroimmune circuits, and systems-level regulation.},
  author = {Xue D, Hu X, Li R, Sun T, Qian S et al.},
  journal = {Phytomedicine},
  year = {2026},
  pmid = {41678917},
  doi = {doi: 10.1016/j.phymed.2026.157919},
  url = {https://pubmed.ncbi.nlm.nih.gov/41678917/},
}

@article{pmid41862118,
  title = {TREM2 as a possible link between Alzheimer's disease and diabetes mellitus.},
  author = {Chen W, Huang N, Huang W, Wang M, Luo Y, Huang J},
  journal = {Experimental neurology},
  year = {2026},
  pmid = {41862118},
  doi = {10.1016/j.expneurol.2026.115739},
  url = {https://pubmed.ncbi.nlm.nih.gov/41862118/},
}

@article{pmid41867223,
  title = {Population-scale burden analysis of rare damaging coding variants identifies novel risk genes for Alzheimer's disease and Parkinson's disease.},
  author = {Le Guen Y, Peña-Tauber A, Pulgrossi RC, Park J, Orias H, Greicius MD},
  journal = {medRxiv : the preprint server for health sciences},
  year = {2026},
  pmid = {41867223},
  doi = {10.64898/2026.03.03.26347540},
  url = {https://pubmed.ncbi.nlm.nih.gov/41867223/},
}

@article{pmid41887542,
  title = {The microglial TREM2 receptor programs hippocampal development in a mouse model of childhood deprivation.},
  author = {Ahmed S, Bowers C, Munoz-Martin J, Jamwal S, Sanganahalli BG, Chen K, Giuliano L, MacDowell Kaswan ZA, Hyder F, Yang XW, Kaffman A},
  journal = {Brain, behavior, and immunity},
  year = {2026},
  pmid = {41887542},
  doi = {10.1016/j.bbi.2026.106555},
  url = {https://pubmed.ncbi.nlm.nih.gov/41887542/},
}

@article{pmid41890852,
  title = {Moderate Effects of the Arginine to Histidine R47H Variant of the Triggering Receptor Expressed on Myeloid Cells 2 (TREM2) on Bone Structure in Male and Female Mice: Insights from the Four Core Genotypes mice.},
  author = {["Ramirez G", "Hernandez D", "Teal A", "Chellaganapathy L", "Pianeta R", "Segvich D", "Wallace J", "Plotkin L"]},
  journal = {Research square},
  year = {2026},
  pmid = {41890852},
  doi = {10.21203/rs.3.rs-9076483/v1},
}

@article{pmid41920402,
  title = {Increased plasma soluble TREM2 levels in non-Alzheimer's dementia.},
  author = {Güven Gamze; Gezegen Haşim; Şahin Erdi; Samancı Bedia; Hanağası Haşmet; Gürvit Hakan; Alaylıoğlu Merve; Gezen-Ak Duygu; Dursun Erdinç; Bilgiç Başar},
  journal = {Acta neurologica Belgica},
  year = {2026},
  pmid = {41920402},
  doi = {10.1007/s13760-026-03042-8},
  url = {https://pubmed.ncbi.nlm.nih.gov/41920402/},
}

@article{pmid41928407,
  title = {Triggering Receptor Expressed on Myeloid Cells-2 Regulates Innate Lymphoid Cell Levels in Bleomycin-Induced Pulmonary Fibrosis.},
  author = {Shen HC, Chen NJ, Sun CY, Yu WK, Su VY et al.},
  journal = {Kaohsiung J Med Sci},
  year = {2026},
  pmid = {41928407},
  doi = {doi: 10.1002/kjm2.70209},
  url = {https://pubmed.ncbi.nlm.nih.gov/41928407/},
}

@article{pmid41930604,
  title = {TREM2 deficiency delays postnatal microglial maturation and synaptic pruning, leading to anxiety-like behaviors.},
  author = {Yang HC, Deng YS, Zhang J, Zhang T, Song W et al.},
  journal = {J Alzheimers Dis},
  year = {2026},
  pmid = {41930604},
  doi = {doi: 10.1177/13872877261437264},
  url = {https://pubmed.ncbi.nlm.nih.gov/41930604/},
}

@article{pmid39609160,
  title = {Dehydroervatamine as a promising novel TREM2 agonist, attenuates neuroinflammation.},
  author = {Li L, Xu N, He Y, Tang M, Yang B, Du J, Chen L, Mao X, Song B, Hua Z, Tang B, Lee SM},
  journal = {Neurotherapeutics : the journal of the American Society for Experimental NeuroTherapeutics},
  year = {2025},
  pmid = {39609160},
  doi = {10.1016/j.neurot.2024.e00479},
  url = {https://pubmed.ncbi.nlm.nih.gov/39609160/},
}

@article{pmid40938771,
  title = {Neuroinflammation and Alzheimer's disease: Unravelling the molecular mechanisms.},
  author = {Kakkar A, Singh H, Singh BK, Kumar A, Mishra AK, Chopra H},
  journal = {Journal of Alzheimer's disease : JAD},
  year = {2025},
  pmid = {40938771},
  doi = {10.1177/13872877251374353},
  url = {https://pubmed.ncbi.nlm.nih.gov/40938771/},
}

@article{pmid38042110,
  title = {TREM2 regulates microglial lipid droplet formation and represses post-ischemic brain injury.},
  author = {Wei W, Zhang L, Xin W, Pan Y, Tatenhorst L, Hao Z, Gerner ST, Huber S, Juenemann M, Butz M, Huttner HB, Bähr M, Fitzner D, Jia F, Doeppner TR},
  journal = {Biomedicine & pharmacotherapy = Biomedecine & pharmacotherapie},
  year = {2024},
  pmid = {38042110},
  doi = {10.1016/j.biopha.2023.115962},
  url = {https://pubmed.ncbi.nlm.nih.gov/38042110/},
}

@article{pmid37115208,
  title = {Defects in lysosomal function and lipid metabolism in human microglia harboring a TREM2 loss of function mutation.},
  author = {Filipello F, You SF, Mirfakhar FS, Mahali S, Bollman B, Acquarone M, Korvatska O, Marsh JA, Sivaraman A, Martinez R, Cantoni C, De Feo L, Ghezzi L, Minaya MA, Renganathan A, Cashikar AG, Satoh JI, Beatty W, Iyer AK, Cella M, Raskind WH, Piccio L, Karch CM},
  journal = {Acta neuropathologica},
  year = {2023},
  pmid = {37115208},
  doi = {10.1007/s00401-023-02568-y},
  url = {https://pubmed.ncbi.nlm.nih.gov/37115208/},
}

@article{pmid37292694,
  title = {Integrated multimodal cell atlas of Alzheimer’s disease},
  author = {Gabitto MI, Travaglini KJ, Rachleff VM, Kaplan ES, Long B, Ariza J, Ding Y, Mahoney JT, Dee N, Goldy J, Melief EJ, Brouner K, Campos J, Carr AJ, Casper T, Chakrabarty R, Clark M, Compos J, Cool J, Valera Cuevas NJ, Dalley R, Darvas M, Ding SL, Dolbeare T, Mac Donald CL, Egdorf T, Esposito L, Ferrer R, Gala R, Gary A},
  journal = {Research Square},
  year = {2023},
  pmid = {37292694},
  doi = {10.21203/rs.3.rs-2921860/v1},
  url = {https://www.researchsquare.com/article/rs-2921860/latest.pdf},
}

@article{pmid37824655,
  title = {Transcriptomic cytoarchitecture reveals principles of human neocortex organization},
  author = {Jorstad NL, Close J, Johansen N, Yanny AM, Barkan ER, Travaglini KJ, Bertagnolli D, Campos J, Casper T, Crichton K, Dee N, Ding SL, Gelfand E, Goldy J, Hirschstein D, Kiick K, Kroll M, Kunst M, Lathia K, Long B, Martin N, McMillen D, Pham T, Rimorin C, Ruiz A, Shapovalova N, Shehata S, Siletti K, Somasundaram S, Sulc J},
  journal = {Science},
  year = {2023},
  pmid = {37824655},
  doi = {10.1126/science.adf6812},
  url = {https://repository.cshl.edu/id/eprint/41277/1/science.adf6812.pdf},
}

@article{pmid35772903,
  title = {Preface},
  author = {Nuwer Marc R; MacDonald David B},
  journal = {Handbook of Clinical Neurology Intraoperative Neuromonitoring},
  year = {2022},
  pmid = {35772903},
  doi = {10.1016/B978-0-12-819826-1.09997-X},
  url = {https://pubmed.ncbi.nlm.nih.gov/35772903/},
}

@article{pmid36104346,
  title = {Maternal immune activation induces autism-like changes in behavior, neuroinflammatory profile and gut microbiota in mouse offspring of both sexes.},
  author = {Tartaglione AM, Villani A, Ajmone-Cat MA, Minghetti L, Ricceri L, Pazienza V, De Simone R, Calamandrei G},
  journal = {Translational psychiatry},
  year = {2022},
  pmid = {36104346},
  doi = {10.1038/s41398-022-02149-9},
  url = {https://pubmed.ncbi.nlm.nih.gov/36104346/},
}

@article{pmid36306735,
  title = {TREM2 drives microglia response to amyloid-β via SYK-dependent and -independent pathways.},
  author = {Wang S, Sudan R, Peng V, Zhou Y, Du S, Yuede CM, Lei T, Hou J, Cai Z, Cella M, Nguyen K, Poliani PL, Beatty WL, Chen Y, Cao S, Lin K, Rodrigues C, Ellebedy AH, Gilfillan S, Brown GD, Holtzman DM, Brioschi S, Colonna M},
  journal = {Cell},
  year = {2022},
  pmid = {36306735},
  doi = {10.1016/j.cell.2022.09.033},
  url = {https://pubmed.ncbi.nlm.nih.gov/36306735/},
}

@article{pmid36306735,
  title = {TREM2 drives microglia response to amyloid-β via SYK-dependent and -independent pathways.},
  author = {Wang S, Sudan R, Peng V, Zhou Y, Du S et al.},
  journal = {Cell},
  year = {2022},
  pmid = {36306735},
  doi = {doi: 10.1016/j.cell.2022.09.033},
  url = {https://pubmed.ncbi.nlm.nih.gov/36306735/},
}

@article{pmid31932797,
  title = {Human and mouse single-nucleus transcriptomics reveal TREM2-dependent and TREM2-independent cellular responses in Alzheimer's disease.},
  author = {Zhou Y, Song WM, Andhey PS, Swain A, Levy T, Miller KR, Poliani PL, Cominelli M, Grover S, Gilfillan S},
  journal = {Nat Med},
  year = {2020},
  pmid = {31932797},
  doi = {10.1038/s41591-019-0695-9},
  url = {https://pubmed.ncbi.nlm.nih.gov/31932797},
}

@article{pmid31932797,
  title = {Human and mouse single-nucleus transcriptomics reveal TREM2-dependent and TREM2-independent cellular responses in Alzheimer's disease.},
  author = {Zhou Y, Song WM, Andhey PS, Swain A, Levy T et al.},
  journal = {Nat Med},
  year = {2020},
  pmid = {31932797},
  doi = {doi: 10.1038/s41591-019-0695-9},
  url = {https://pubmed.ncbi.nlm.nih.gov/31932797/},
}

@article{pmid32579671,
  title = {Anti-human TREM2 induces microglia proliferation and reduces pathology in an Alzheimer's disease model.},
  author = {Wang S, Mustafa M, Yuede CM, Salazar SV, Kong P, Long H, Ward M, Siddiqui O, Paul R, Gilfillan S, Ibrahim A, Rhinn H, Tassi I, Rosenthal A, Schwabe T, Colonna M},
  journal = {The Journal of experimental medicine},
  year = {2020},
  pmid = {32579671},
  doi = {10.1084/jem.20200785},
  url = {https://pubmed.ncbi.nlm.nih.gov/32579671/},
}

@article{pmid32579671,
  title = {Anti-human TREM2 induces microglia proliferation and reduces pathology in an Alzheimer's disease model.},
  author = {Wang S, Mustafa M, Yuede CM, Salazar SV, Kong P et al.},
  journal = {J Exp Med},
  year = {2020},
  pmid = {32579671},
  doi = {doi: 10.1084/jem.20200785},
  url = {https://pubmed.ncbi.nlm.nih.gov/32579671/},
}

@article{pmid31061532,
  title = {Defining inflammatory cell states in rheumatoid arthritis joint synovial tissues by integrating single-cell transcriptomics and mass cytometry.},
  author = {["Zhang F", "Wei K", "Slowikowski K", "Fonseka C", "Rao D", "Kelly S", "Goodman S", "Tabechian D", "Hughes L", "Salomon-Escoto K"]},
  journal = {Nature immunology},
  year = {2019},
  pmid = {31061532},
  doi = {10.1038/s41590-019-0378-1},
}

@article{pmid28602351,
  title = {A Unique Microglia Type Associated with Restricting Development of Alzheimer's Disease.},
  author = {["Keren-Shaul H", "Spinrad A", "Weiner A", "Matcovitch-Natan O", "Dvir-Szternfeld R", "Ulland TK", "David E", "Baruch K", "Lara-Astaiso D", "Toth B", "Itzkovitz S", "Colonna M", "Schwartz M", "Amit I"]},
  journal = {Cell},
  year = {2017},
  pmid = {28602351},
  doi = {10.1016/j.cell.2017.05.018},
  url = {https://pubmed.ncbi.nlm.nih.gov/28602351/},
}

@article{pmid23150934,
  title = {TREM2 variants in Alzheimer's disease.},
  author = {Rita Guerreiro, Aleksandra Wojtas, Jose Bras, Minerva Carrasquillo, Ekaterina Rogaeva et al.},
  journal = {The New England journal of medicine},
  year = {2013},
  pmid = {23150934},
  doi = {10.1056/NEJMoa1211851},
  url = {https://pubmed.ncbi.nlm.nih.gov/23150934/},
}