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Vidana Gamage, H. E., Shahoei, S. H., Wang, Y., Jacquin, E., Weisser, E., Bautista, R. O., Henn, M. A., Schane, C. P., Nelczyk, A. T., Ma, L., Das Gupta, A., Bendre, S. V., Nguyen, T., Tiwari, S., Tjoanda, E., Krawczynska, N., He, S., Albright, S. T., Farmer, R., ... Nelson, E. R. (2024). NR0B2 re-educates myeloid immune cells to reduce regulatory T cell expansion and progression of breast and other solid tumors. Cancer Letters, 597, Article 217042. https://doi.org/10.1016/j.canlet.2024.217042

Stinson, J. A., Barbosa, M. M. P., Sheen, A., Momin, N., Fink, E., Hampel, J., Selting, K. A., Kamerer, R. L., Bailey, K. L., Wittrup, K. D., & Fan, T. M. (2024). Tumor-Localized Interleukin-2 and Interleukin-12 Combine with Radiation Therapy to Safely Potentiate Regression of Advanced Malignant Melanoma in Pet Dogs. Clinical Cancer Research, 30(18), 4029-4043. https://doi.org/10.1158/1078-0432.CCR-24-0861

Sands, M., Zhang, X., gal, A., Laws, M., Spinella, M., Erdogan, Z. M., & Irudayaraj, J. (2024). Comparative hepatotoxicity of novel lithium bis(trifluoromethanesulfonyl)imide (LiTFSI, ie. HQ-115) and legacy Perfluorooctanoic acid (PFOA) in male mice: Insights into epigenetic mechanisms and pathway-specific responses. Environment international, 185, Article 108556. https://doi.org/10.1016/j.envint.2024.108556

Saba, C. F., Fan, T. M., Phillips, B. S., Wright, Z. M., & Thamm, D. H. (2024). Alternating rabacfosadine and doxorubicin for treatment of naïve canine lymphoma. Veterinary and comparative oncology, 22(2), 278-283. https://doi.org/10.1111/vco.12975

Ranoa, D. R. E., Holland, R. L., Alnaji, F. G., Green, K. J., Wang, L., Brooke, C. B., Burke, M. D., Fan, T. M., & Hergenrother, P. J. (2024). Saliva-based molecular testing for SARS-CoV-2. (U.S. Patent No. 11926877).

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Kim, S., Yuan, J. B., Woods, W. S., Newton, D. A., Perez-Pinera, P., & Song, J. S. (2024). Corrigendum: Chromatin structure and context-dependent sequence features control prime editing efficiency(Front. Genet., (2023), 14, (1222112), 10.3389/fgene.2023.1222112). Frontiers in Genetics, 15, Article 1391923. https://doi.org/10.3389/fgene.2024.1391923

Jiang, L., Liu, Y., Tumbath, S., Boudreau, M. W., Chatkewitz, L. E., Wang, J., Su, X., Zahid, K. R., Li, K., Chen, Y., Yang, K., Hergenrother, P. J., & Huang, X. (2024). Isopentyl-Deoxynboquinone Induces Mitochondrial Dysfunction and G2/M Phase Cell Cycle Arrest to Selectively Kill NQO1-Positive Pancreatic Cancer Cells. Antioxidants and Redox Signaling, 41(1-3), 74-92. https://doi.org/10.1089/ars.2022.0224

Hur, S. W., Kwon, M., Manoharaan, R., Mohammadi, M. H., Samuel, A. Z., Mulligan, M. P., Hergenrother, P. J., & Bhargava, R. (2024). Capturing cell morphology dynamics with high temporal resolution using single-shot quantitative phase gradient imaging. Journal of biomedical optics, 29, S22712. https://doi.org/10.1117/1.JBO.29.S2.S22712

Huang, Y., Li, X., Mai, B. K., Tonogai, E. J., Smith, A. J., Hergenrother, P. J., Liu, P., & Hoveyda, A. H. (2024). A catalytic process enables efficient and programmable access to precisely altered indole alkaloid scaffolds. Nature Chemistry, 16(6), 1003-1014. https://doi.org/10.1038/s41557-024-01455-7

Hergenrother, P. J., Richter, M. F., Riley, A., Drown, B. S., Chavez, M. G., Tasker, S., & Garcia, A. (2024). Small Molecules Active Against Gram-negative Bacteria. (U.S. Patent No. 11858946).

Hergenrother, P. J., & Boudreau, M. W. (2024). Combination Therapy For The Treatment Of Uveal Melanoma. (U.S. Patent No. 12090153).

Han, X., Ju, L., Saengow, C., Ren, W., Ewoldt, R., Fan, T., & Irudayaraj, J. (2024). Nano oxygen chamber by cascade reaction for hypoxia mitigation and reactive oxygen species scavenging in wound healing. Bioactive Materials, 35, 67-81. https://doi.org/10.1016/j.bioactmat.2024.01.010

Hampel, J. M., Cheuk, N., Barbosa, M. M. P., & Fan, T. M. (2024). The promise of immunotherapeutic strategies to advance cancer treatment in pet dogs. Journal of the American Veterinary Medical Association, 262(12), 1583-1593. https://doi.org/10.2460/javma.24.08.0532

Gupta, A. D., Park, J., Sorrells, J. E., Kim, H., Krawczynska, N., Pradeep, D., Wang, Y., Gamage, H. E. V., Nelczyk, A. T., Boppart, S. A., Boppart, M. D., & Nelson, E. R. (2024). 27-Hydroxycholesterol Enhances Secretion of Extracellular Vesicles by ROS-Induced Dysregulation of Lysosomes. Endocrinology (United States), 165(11), Article bqae127. https://doi.org/10.1210/endocr/bqae127

Gugger, M. K., & Hergenrother, P. J. (2024). A new type of antibiotic targets a drug-resistant bacterium. Nature, 625(7995), 451-452. https://doi.org/10.1038/d41586-023-03988-2

González-López, A., Larsson, D. S. D., Koripella, R. K., Cain, B. N., Chavez, M. G., Hergenrother, P. J., Sanyal, S., & Selmer, M. (2024). Structures of the Staphylococcus aureus ribosome inhibited by fusidic acid and fusidic acid cyclopentane. Scientific reports, 14(1), Article 14253. https://doi.org/10.1038/s41598-024-64868-x

Drown, B. S., Gupta, R., McGee, J. P., Hollas, M. A. R., Hergenrother, P. J., Kafader, J. O., & Kelleher, N. L. (2024). Precise Readout of MEK1 Proteoforms upon MAPK Pathway Modulation by Individual Ion Mass Spectrometry. Analytical Chemistry, 96(11), 4455-4462. https://doi.org/10.1021/acs.analchem.3c04758

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Boyd, R. I., Shokry, D., Fazal, Z., Rennels, B. C., Freemantle, S. J., La Frano, M. R., Prins, G. S., Madak Erdogan, Z., Irudayaraj, J., Singh, R., & Spinella, M. J. (2024). Perfluorooctanesulfonic Acid Alters Pro-Cancer Phenotypes and Metabolic and Transcriptional Signatures in Testicular Germ Cell Tumors. Toxics, 12(4), Article 232. https://doi.org/10.3390/toxics12040232

Blake, A. D., Chao, J., SantaMaria, A. M., Ekaputri, S., Green, K. J., Brown, S. T., Rakowski, C. K., Choi, E. K., Aring, L., Chen, P. J., Snead, N. M., Matje, D. M., Geng, T., Octaviani, A., Bailey, K., Hollenbach, S. J., Fan, T. M., Seo, Y. A., & Burke, M. D. (2024). Minimizing higher-order aggregation maximizes iron mobilization by small molecules. Nature chemical biology, 20(10), 1282-1293. https://doi.org/10.1038/s41589-024-01596-3

Geddes, E. J., Gugger, M., Garcia, A., Garcia Chavez, M., Lee, M. R., Perlmutter, S. J., Bieniossek, C., Guasch, L., & Hergenrother, P. (2023). Porin-independent accumulation in Pseudomonas enables antibiotic discovery. Nature, 624(7990), 145-153. https://doi.org/10.1038/s41586-023-06760-8

Boudreau, M. W., Tonogai, E. J., Schane, C. P., Xi, M. X., Fischer, J. H., Vijayakumar, J., Ji, Y., Tarasow, T. M., Fan, T. M., Hergenrother, P. J., & Dudek, A. Z. (2023). The combination of PAC-1 and entrectinib for the treatment of metastatic uveal melanoma. Melanoma research, 33(6), 514-524. https://doi.org/10.1097/CMR.0000000000000927

Yu, L., Xu, L., Chu, H., Peng, J., Sacharidou, A., Hsieh, H. H., Weinstock, A., Khan, S., Ma, L., Durán, J. G. B., McDonald, J., Nelson, E. R., Park, S., McDonnell, D. P., Moore, K. J., Huang, L. J. S., Fisher, E. A., Mineo, C., Huang, L., & Shaul, P. W. (2023). Macrophage-to-endothelial cell crosstalk by the cholesterol metabolite 27HC promotes atherosclerosis in male mice. Nature communications, 14(1), Article 4101. https://doi.org/10.1038/s41467-023-39586-z

Maji, A., Soutar, C. P., Zhang, J., Lewandowska, A., Uno, B. E., Yan, S., Shelke, Y., Murhade, G., Nimerovsky, E., Borcik, C. G., Arango, A. S., Lange, J. D., Marin-Toledo, J. P., Lyu, Y., Bailey, K. L., Roady, P. J., Holler, J. T., Khandelwal, A., SantaMaria, A. M., ... Burke, M. D. (2023). Tuning sterol extraction kinetics yields a renal-sparing polyene antifungal. Nature, 623(7989), 1079-1085. https://doi.org/10.1038/s41586-023-06710-4

Ghosh, S., Yang, R., Duraki, D., Zhu, J., Kim, J. E., Jabeen, M., Mao, C., Dai, X., Livezey, M. R., Boudreau, M. W., Park, B. H., Nelson, E. R., Hergenrother, P. J., & Shapiro, D. J. (2023). Plasma Membrane Channel TRPM4 Mediates Immunogenic Therapy–Induced Necrosis. Cancer Research, 83(18), 3115-3130. https://doi.org/10.1158/0008-5472.CAN-23-0157

Gapinske, M., Winter, J., Swami, D., Gapinske, L., Woods, W. S., Shirguppe, S., Miskalis, A., Busza, A., Joulani, D., Kao, C. J., Kostan, K., Bigot, A., Bashir, R., & Perez-Pinera, P. (2023). Targeting Duchenne muscular dystrophy by skipping DMD exon 45 with base editors. Molecular Therapy - Nucleic Acids, 33, 572-586. https://doi.org/10.1016/j.omtn.2023.07.029

Gordon, D. L., Foreman, J. H., Connolly, S. L., Schnelle, A. N., Fan, T. M., & Barger, A. M. (2023). Acute phase protein concentrations following serial procaine penicillin G injections in horses. Equine veterinary journal, 55(5), 916-922. https://doi.org/10.1111/evj.13886

Corbet, A. K., Bikorimana, E., Boyd, R. I., Shokry, D., Kries, K., Gupta, A., Paton, A., Sun, Z., Fazal, Z., Freemantle, S. J., Nelson, E. R., Spinella, M. J., & Singh, R. (2023). G0S2 promotes antiestrogenic and pro-migratory responses in ER+ and ER- breast cancer cells. Translational Oncology, 33, Article 101676. https://doi.org/10.1016/j.tranon.2023.101676

Baur, B., Shin, J., Schreiber, J., Zhang, S., Zhang, Y., Manjunath, M., Song, J. S., Noble, W. S., & Roy, S. (2023). Leveraging epigenomes and three-dimensional genome organization for interpreting regulatory variation. PLoS computational biology, 19(7), Article e1011286. https://doi.org/10.1371/journal.pcbi.1011286

Stinson, J. A., Sheen, A., Momin, N., Hampel, J., Bernstein, R., Kamerer, R., Fadl-Alla, B., Samuelson, J., Fink, E., Fan, T. M., & Wittrup, K. D. (2023). Collagen-Anchored Interleukin-2 and Interleukin-12 Safely Reprogram the Tumor Microenvironment in Canine Soft-Tissue Sarcomas. Clinical Cancer Research, 29(11), 2110-2122. https://doi.org/10.1158/1078-0432.CCR-23-0006

Ranoa, D. R. E., Sharma, P., Schane, C. P., Lewis, A. N., Valdez, E., Marada, V. V. V. R., Hager, M. V., Montgomery, W., Wolf, S. P., Schreiber, K., Schreiber, H., Bailey, K., Fan, T. M., Hergenrother, P. J., Roy, E. J., & Kranz, D. M. (2023). Single CAR-T cell treatment controls disseminated ovarian cancer in a syngeneic mouse model. Journal for ImmunoTherapy of Cancer, 11(5), Article e006509. https://doi.org/10.1136/jitc-2022-006509

Anmangandla, A., Jana, S., Peng, K., Wallace, S. D., Bagde, S. R., Drown, B. S., Xu, J., Hergenrother, P. J., Fromme, J. C., & Lin, H. (2023). A Fluorescence Polarization Assay for Macrodomains Facilitates the Identification of Potent Inhibitors of the SARS-CoV-2 Macrodomain. ACS chemical biology, 18(5), 1200-1207. https://doi.org/10.1021/acschembio.3c00092

Miller, J. C., Lee, J. H. Z., Mclean, M. A., Chao, R. R., Stone, I. S. J., Pukala, T. L., Bruning, J. B., De Voss, J. J., Schuler, M. A., Sligar, S. G., & Bell, S. G. (2023). Engineering C-C Bond Cleavage Activity into a P450 Monooxygenase Enzyme. Journal of the American Chemical Society, 145(16), 9207-9222. https://doi.org/10.1021/jacs.3c01456

Putt, K. S., Tarasow, T., Sandhorst, J. S., Hergenrother, P. J., Fako, V. E., & Peterson, Q. P. (2023). Compounds And Methods For The Treatment Of Cancer. (U.S. Patent No. 11612598).

Danciu, O. C., Holdhoff, M., Peterson, R. A., Fischer, J. H., Liu, L. C., Wang, H., Venepalli, N. K., Chowdhery, R., Nicholas, M. K., Russell, M. J., Fan, T. M., Hergenrother, P. J., Tarasow, T. M., & Dudek, A. Z. (2023). Phase I study of procaspase-activating compound-1 (PAC-1) in the treatment of advanced malignancies. British Journal of Cancer, 128(5), 783-792. https://doi.org/10.1038/s41416-022-02089-7

Hergenrother, P. J., Shapiro, D. J., & Boudreau, M. W. (2023). Activators Of The Unfolded Protein Response. (U.S. Patent No. 11584718).

Kwon, J. Y., Moskwa, N., Kang, W., Fan, T. M., & Lee, C. (2023). Canine as a Comparative and Translational Model for Human Mammary Tumor. Journal of Breast Cancer, 26(1), 1-13. https://doi.org/10.4048/jbc.2023.26.e4

Zhang, X., Flaws, J. A., Spinella, M. J., & Irudayaraj, J. (2023). The Relationship between Typical Environmental Endocrine Disruptors and Kidney Disease. Toxics, 11(1), Article 32. https://doi.org/10.3390/toxics11010032

Wang, J., Su, X., Jiang, L., Boudreau, M. W., Chatkewitz, L. E., Kilgore, J. A., Zahid, K. R., Williams, N. S., Chen, Y., Liu, S., Hergenrother, P. J., & Huang, X. (2023). Augmented Concentration of Isopentyl-Deoxynyboquinone in Tumors Selectively Kills NAD(P)H Quinone Oxidoreductase 1-Positive Cancer Cells through Programmed Necrotic and Apoptotic Mechanisms. Cancers, 15(24). https://doi.org/10.3390/cancers15245844

Kim, S., Yuan, J. B., Woods, W. S., Newton, D. A., Perez-Pinera, P., & Song, J. S. (2023). Chromatin structure and context-dependent sequence features control prime editing efficiency. Frontiers in Genetics, 14, Article 1222112. https://doi.org/10.3389/fgene.2023.1222112

Lichtor, T., Tang, B., & Roy, E. J. (2023). Cytokine Gene Vaccine Therapy for Treatment of a Brain Tumor. Brain Sciences, 13(11). https://doi.org/10.3390/brainsci13111505

Lim, C. K. W., Miskalis, A. J., Perez-Pinera, P., & Gaj, T. (2023). Delivering Base Editors In Vivo by Adeno-Associated Virus Vectors. In Methods in Molecular Biology (pp. 135-158). (Methods in Molecular Biology; Vol. 2606). Humana Press Inc.. https://doi.org/10.1007/978-1-0716-2879-9_11

Holdhoff, M., Nicholas, M. K., Peterson, R. A., Maraka, S., Liu, L. C., Fischer, J. H., Wefel, J. S., Fan, T. M., Vannorsdall, T., Russell, M., Iacoboni, M., Tarasow, T. M., Hergenrother, P. J., Dudek, A. Z., & Danciu, O. C. (2023). Phase I dose escalation study of procaspase-activating compound-1 (PAC-1) in combination with temozolomide in patients with recurrent high-grade astrocytomas. Neuro-Oncology Advances, 5(1), Article vdad087. https://doi.org/10.1093/noajnl/vdad087

Song, J. S., & Manjunath, M. (2023). Predicting the molecular functions of regulatory genetic variants associated with cancer. Oncotarget, 14, 775-777. https://doi.org/10.18632/oncotarget.28451

Burke, M. D., Fan, T. M., Hergenrother, P. J., Brooke, C. B., Ranoa, D. R. E., Holland, R. L., Alnaji, F. G., Green, K. J., & Wang, L. (2022). Saliva-based Molecular Testing For SARS-CoV-2. (U.S. Patent No. 11530457).

Lim, C. K. W., McCallister, T. X., Saporito-Magriña, C., McPheron, G. D., Krishnan, R., Zeballos C, M. A., Powell, J. E., Clark, L. V., Perez-Pinera, P., & Gaj, T. (2022). CRISPR base editing of cis-regulatory elements enables the perturbation of neurodegeneration-linked genes. Molecular Therapy, 30(12), 3619-3631. https://doi.org/10.1016/j.ymthe.2022.08.008

Jain, I., Berg, I. C., Acharya, A., Blaauw, M., Gosstola, N., Perez-Pinera, P., & Underhill, G. H. (2022). Delineating cooperative effects of Notch and biomechanical signals on patterned liver differentiation. Communications biology, 5(1), [1073]. https://doi.org/10.1038/s42003-022-03840-9

Berry, M. R., Fadl-Alla, B. A., Samuelson, J., Rosol, T. J., & Fan, T. M. (2022). Investigating PSMA differential expression in canine uroepithelial carcinomas to aid disease-based stratification and guide therapeutic selection. BMC Veterinary Research, 18(1), [441]. https://doi.org/10.1186/s12917-022-03544-6

Ranoa, D. R. E., Holland, R. L., Alnaji, F. G., Green, K. J., Wang, L., Fredrickson, R. L., Wang, T., Wong, G. N., Uelmen, J., Maslov, S., Weiner, Z. J., Tkachenko, A. V., Zhang, H., Liu, Z., Ibrahim, A., Patel, S. J., Paul, J. M., Vance, N. P., Gulick, J. G., ... Burke, M. D. (2022). Mitigation of SARS-CoV-2 transmission at a large public university. Nature communications, 13(1), [3207]. https://doi.org/10.1038/s41467-022-30833-3

Tarasow, T., Peh, J., Hergenrother, P. J., & Boudreau, M. W. (2022). Cancer Therapy By Degrading Dual Mek Signaling. (U.S. Patent No. 11510919).

Nelczyk, A. T., Ma, L., Gupta, A. D., Gamage, H. E. V., McHenry, M. T., Henn, M. A., Kadiri, M., Wang, Y., Krawczynska, N., Bendre, S., He, S., Shahoei, S. H., Madak-Erdogan, Z., Hsiao, S. H., Saleh, T., Carpenter, V., Gewirtz, D. A., Spinella, M. J., & Nelson, E. R. (2022). The nuclear receptor TLX (NR2E1) inhibits growth and progression of triple- negative breast cancer. Biochimica et Biophysica Acta - Molecular Basis of Disease, 1868(11), [166515]. https://doi.org/10.1016/j.bbadis.2022.166515

Gordon, D. L., Foreman, J. H., Connolly, S. L., Schnelle, A. N., Fan, T. M., & Barger, A. M. (2022). Acute phase protein concentrations following serial procaine penicillin G injections in horses. Equine veterinary journal. https://doi.org/10.1111/evj.13886

Ren, P., Tiede, C., Fanning, S. W., Adams, T., Speirs, V., Nelson, E. R., Cheng, C., Moore, T. W., Greene, G. L., Tomlinson, D., & Selvin, P. R. (2022). Labeling of a mutant estrogen receptor with an Affimer in a breast cancer cell line. Biophysical journal, 121(19), 3651-3662. https://doi.org/10.1016/j.bpj.2022.06.028

LeBlanc, A. K., Mazcko, C. N., Fan, T. M., Vail, D. M., Flesner, B. K., Bryan, J. N., Li, S., Wang, F., Harris, S., Vargas, J. D., Govindharajulu, J. P., Jaganathan, S., Tomaino, F., Srivastava, A. K., Chou, T. F., Stott, G. M., Covey, J. M., Mroczkowski, B., & Doroshow, J. H. (2022). Comparative Oncology Assessment of a Novel Inhibitor of Valosin-Containing Protein in Tumor-Bearing Dogs. Molecular Cancer Therapeutics, 21(10), 1510-1523. https://doi.org/10.1158/1535-7163.MCT-22-0167

Muñoz, K. A., & Hergenrother, P. J. (2022). Computational discovery of dynobactin antibiotics. Nature Microbiology, 7(10), 1512-1513. https://doi.org/10.1038/s41564-022-01234-5

Fan, T. M., Garrett, L. D., Selting, K. A., & Constable, P. D. (2022). Novel immunotherapy offers promising weapon against canine melanoma. American journal of veterinary research, 83(10). https://doi.org/10.2460/ajvr.22.08.0133

Parker, E. N., Cain, B. N., Hajian, B., Ulrich, R. J., Geddes, E. J., Barkho, S., Lee, H. Y., Williams, J. D., Raynor, M., Caridha, D., Zaino, A., Rohde, J. M., Zak, M., Shekhar, M., Muñoz, K. A., Rzasa, K. M., Temple, E. R., Hunt, D., Jin, X., ... Hergenrother, P. J. (2022). Erratum: An Iterative Approach Guides Discovery of the FabI Inhibitor Fabimycin, a Late-Stage Antibiotic Candidate with In Vivo Efficacy against Drug-Resistant Gram-Negative Infections (ACS Central Science (2022) 8:8 (1145-1158) DOI: 10.1021/acscentsci.2c00598). ACS Central Science, 8(9), 1362. https://doi.org/10.1021/acscentsci.2c00969

Parker, E. N., Cain, B. N., Hajian, B., Ulrich, R. J., Geddes, E. J., Barkho, S., Lee, H. Y., Williams, J. D., Raynor, M., Caridha, D., Zaino, A., Shekhar, M., Muñoz, K. A., Rzasa, K. M., Temple, E. R., Hunt, D., Jin, X., Vuong, C., Pannone, K., ... Hergenrother, P. J. (2022). An Iterative Approach Guides Discovery of the FabI Inhibitor Fabimycin, a Late-Stage Antibiotic Candidate with In Vivo Efficacy against Drug-Resistant Gram-Negative Infections. ACS Central Science, 8(8), 1145-1158. https://doi.org/10.1021/acscentsci.2c00598

Zhang, S., Leistico, J. R., Cho, R. J., Cheng, J. B., & Song, J. S. (2022). Spectral clustering of single-cell multi-omics data on multilayer graphs. Bioinformatics, 38(14), 3600-3608. https://doi.org/10.1093/bioinformatics/btac378

Kelly, A. M., Berry, M. R., Tasker, S. Z., McKee, S. A., Fan, T. M., & Hergenrother, P. J. (2022). Target-Agnostic P-Glycoprotein Assessment Yields Strategies to Evade Efflux, Leading to a BRAF Inhibitor with Intracranial Efficacy. Journal of the American Chemical Society, 144(27), 12367-12380. https://doi.org/10.1021/jacs.2c03944

Ma, L., Vidana Gamage, H. E., Tiwari, S., Han, C., Henn, M. A., Krawczynska, N., Dibaeinia, P., Koelwyn, G. J., Das Gupta, A., Bautista Rivas, R. O., Wright, C. L., Xu, F., Moore, K. J., Sinha, S., & Nelson, E. R. (2022). The Liver X Receptor Is Selectively Modulated to Differentially Alter Female Mammary Metastasis-associated Myeloid Cells. Endocrinology (United States), 163(7), [bqac072]. https://doi.org/10.1210/endocr/bqac072

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