Matthew Breen

Bray, J., Eward, W., & Breen, M. (2023, February 15). Defining the relevance of surgical margins. Part two: Strategies to improve prediction of recurrence risk. VETERINARY AND COMPARATIVE ONCOLOGY. https://doi.org/10.1111/vco.12881

Gregory, T. M., Livingston, I., Hawkins, E. C., Loyola, A., Cave, A., Vaden, S. L., … Paez-Rosas, D. (2023). Dirofilaria immitis Identified in Galapagos Sea Lions (Zalophus wollebaeki): A Wildlife Health and Conservation Concern. JOURNAL OF WILDLIFE DISEASES, 59(3), 487–494. https://doi.org/10.7589/JWD-D-22-00119

Spatola, G. J., Buckley, R. M., Dillon, M., V. Dutrow, E., Betz, J. A., Pilot, M., … Mousseau, T. A. (2023). The dogs of Chernobyl: Demographic insights into populations inhabiting the nuclear exclusion zone. SCIENCE ADVANCES, 9(9). https://doi.org/10.1126/sciadv.ade2537

Thomas, R., Wiley, C. A., Droste, E. L., Robertson, J., Inman, B. A., & Breen, M. (2023). Whole exome sequencing analysis of canine urothelial carcinomas without BRAF V595E mutation: Short in-frame deletions in BRAF and MAP2K1 suggest alternative mechanisms for MAPK pathway disruption. PLOS GENETICS, 19(4). https://doi.org/10.1371/journal.pgen.1010575

Bray, J., Eward, W., & Breen, M. (2022, November 25). Evaluating the relevance of surgical margins. Part one: The problems with current methodology. VETERINARY AND COMPARATIVE ONCOLOGY. https://doi.org/10.1111/vco.12865

Krane, G. A., Shockley, K. R., Malarkey, D. E., Miller, A. D., Miller, C. R., Tokarz, D. A., … Mariani, C. L. (2022, July 30). Inter-pathologist agreement on diagnosis, classification and grading of canine glioma. VETERINARY AND COMPARATIVE ONCOLOGY, Vol. 7. https://doi.org/10.1111/vco.12853

Lewis, A. M., Jr., Thomas, R., Breen, M., Peden, K., Teferedegne, B., Foseh, G., … Lewis, G. (2022). The AGMK1-9T7 cell model of neoplasia: Evolution of DNA copy-number aberrations and miRNA expression during transition from normal to metastatic cancer cells. PLOS ONE, 17(10). https://doi.org/10.1371/journal.pone.0275394

Carlson, K. B., Wcisel, D. J., Ackerman, H. D., Romanet, J., Christiansen, E. F., Niemuth, J. N., … Yoder, J. A. (2022, April 28). Transcriptome annotation reveals minimal immunogenetic diversity among Wyoming toads, Anaxyrus baxteri. CONSERVATION GENETICS, Vol. 4. https://doi.org/10.1007/s10592-022-01444-8

Wise, C. F., Hammel, S. C., Herkert, N. J., Ospina, M., Calafat, A. M., Breen, M., & Stapleton, H. M. (2021, December 29). Comparative Assessment of Pesticide Exposures in Domestic Dogs and Their Owners Using Silicone Passive Samplers and Biomonitoring. ENVIRONMENTAL SCIENCE & TECHNOLOGY. https://doi.org/10.1021/acs.est.1c06819

Kim, J. H., Megquier, K., Thomas, R., Sarver, A. L., Song, J. M., Kim, Y. T., … Modiano, J. F. (2021). Genomically Complex Human Angiosarcoma and Canine Hemangiosarcoma Establish Convergent Angiogenic Transcriptional Programs Driven by Novel Gene Fusions. MOLECULAR CANCER RESEARCH, 19(5), 847–861. https://doi.org/10.1158/1541-7786.MCR-20-0937

Peart, C. R., Williams, C., Pophaly, S. D., Neely, B. A., Gulland, F. M. D., Adams, D. J., … Wolf, J. B. W. (2021, June 27). Hi-C scaffolded short- and long-read genome assemblies of the California sea lion are broadly consistent for syntenic inference across 45 million years of evolution. MOLECULAR ECOLOGY RESOURCES. https://doi.org/10.1111/1755-0998.13443

Rossman, P., Zabka, T. S., Ruple, A., Tuerck, D., Ramos-Vara, J. A., Liu, L., … Knapp, D. W. (2021). Phase I/II Trial of Vemurafenib in Dogs with Naturally Occurring, BRAF-mutated Urothelial Carcinoma. MOLECULAR CANCER THERAPEUTICS, 20(11), 2177–2188. https://doi.org/10.1158/1535-7163.MCT-20-0893

Tawa, G. J., Braisted, J., Gerhold, D., Grewal, G., Mazcko, C., Breen, M., … LeBlanc, A. K. (2021). Transcriptomic profiling in canines and humans reveals cancer specific gene modules and biological mechanisms common to both species. PLOS COMPUTATIONAL BIOLOGY, 17(9). https://doi.org/10.1371/journal.pcbi.1009450

LeBlanc, A. K., Mazcko, C. N., Breen, M., Thomas, R., & Thamm, D. H. (2020, August). A comparative oncology approach to biomarker and drug discovery for cancer diagnosis and treatment in dogs and humans. CANCER RESEARCH, Vol. 80. https://doi.org/10.1158/1538-7445.AM2020-6134

Wise, C. F., Hammel, S. C., Herkert, N., Ma, J., Motsinger-Reif, A., Stapleton, H. M., & Breen, M. (2020). Comparative Exposure Assessment Using Silicone Passive Samplers Indicates That Domestic Dogs Are Sentinels To Support Human Health Research. ENVIRONMENTAL SCIENCE & TECHNOLOGY, 54(12), 7409–7419. https://doi.org/10.1021/acs.est.9b06605

Thomas, R., Pontius, J. U., Borst, L. B., & Breen, M. (2020). Development of a Genome-Wide Oligonucleotide Microarray Platform for Detection of DNA Copy Number Aberrations in Feline Cancers. VETERINARY SCIENCES, 7(3). https://doi.org/10.3390/vetsci7030088

Kim, J. H., Megquier, K., Sarver, A. L., Thomas, R., Schulte, A. J., Wang, C., … Modiano, J. F. (2020, August). Molecular mechanisms that activate convergent oncogenic pathway in genomically complex angiosarcoma. CANCER RESEARCH, Vol. 80. https://doi.org/10.1158/1538-7445.AM2020-195

Hedan, B., Rault, M., Abadie, J., Ulve, R., Botherel, N., Devauchelle, P., … Andre, C. (2020). PTPN11mutations in canine and human disseminated histiocytic sarcoma. INTERNATIONAL JOURNAL OF CANCER, 147(6), 1657–1665. https://doi.org/10.1002/ijc.32991

Allwood, J. S., Fierer, N., Dunn, R. R., Breen, M., Reich, B. J., Laber, E. B., … Faith, S. A. (2020). Use of standardized bioinformatics for the analysis of fungal DNA signatures applied to sample provenance. FORENSIC SCIENCE INTERNATIONAL, 310. https://doi.org/10.1016/j.forsciint.2020.110250

Megquier, K., Turner-Maier, J., Swofford, R., Kim, J.-H., Sarver, A. L., Wang, C., … Lindblad-Toh, K. (2019). Comparative Genomics Reveals Shared Mutational Landscape in Canine Hemangiosarcoma and Human Angiosarcoma. MOLECULAR CANCER RESEARCH, 17(12), 2410–2421. https://doi.org/10.1158/1541-7786.MCR-19-0221

Kennedy, K., Thomas, R., Durrant, J., Jiang, T., Motsinger-Reif, A., & Breen, M. (2019). Genome-wide DNA copy number analysis and targeted transcriptional analysis of canine histiocytic malignancies identifies diagnostic signatures and highlights disruption of spindle assembly complex. CHROMOSOME RESEARCH, 27(3), 179–202. https://doi.org/10.1007/s10577-019-09606-0

Fisher, M. L., Levine, J. F., Guy, J. S., Mochizuki, H., Breen, M., Schal, C., & Watson, D. W. (2019). Lack of influence by endosymbiont Wolbachia on virus titer in the common bed bug, Cimex lectularius. Parasites & Vectors, 12(1). https://doi.org/10.1186/s13071-019-3694-2

Wiley, C., Wise, C. F., & Breen, M. (2019). Novel Noninvasive Diagnostics. VETERINARY CLINICS OF NORTH AMERICA-SMALL ANIMAL PRACTICE, 49(5), 781-+. https://doi.org/10.1016/j.cvsm.2019.05.002

Palkopoulou, E., Lipson, M., Mallick, S., Nielsen, S., Rohland, N., Baleka, S., … Reich, D. (2018). A comprehensive genomic history of extinct and living elephants. Proceedings of the National Academy of Sciences, 115(11), E2566–E2574. https://doi.org/10.1073/PNAS.1720554115

Sarver, A. L., Mills, L., Temiz, N., Scott, M. I., Sarver, A., Spector, L., … Largaespada, D. (2018, July). Comparative genomic analyses of osteosarcoma etiology reveal a chromosomal structural rationale for the increased incidence of osteosarcoma in dogs. CANCER RESEARCH, Vol. 78. https://doi.org/10.1158/1538-7445.AM2018-3399

Fisher, M. L., Watson, D. W., Osborne, J. A., Mochizuki, H., Breen, M., & Schal, C. (2018). Growth kinetics of endosymbiont Wolbachia in the common bed bug, Cimex lectularius. Scientific Reports, 8(1). https://doi.org/10.1038/S41598-018-29682-2

Kim, J. H., Megquier, K., Sarver, A. L., Thomas, R., Wang, C., Elvers, I., … Modiano, J. F. (2018, July). Mutational and transcriptomic profiling identify distinct angiogenic and inflammatory subtypes of angiosarcoma. CANCER RESEARCH, Vol. 78. https://doi.org/10.1158/1538-7445.AM2018-5357

Dumont, B. L., Williams, C. L., Ng, B. L., Horncastle, V., Chambers, C. L., McGraw, L. A., … Breen, M. (2018). Relationship Between Sequence Homology, Genome Architecture, and Meiotic Behavior of the Sex Chromosomes in North American Voles. GENETICS, 210(1), 83–97. https://doi.org/10.1534/genetics.118.301182

Hendricks, W. P. D., Zismann, V., Sivaprakasam, K., Legendre, C., Poorman, K., Tembe, W., … Trent, J. M. (2018). Somatic inactivating PTPRJ mutations and dysregulated pathways identified in canine malignant melanoma by integrated comparative genomic analysis. PLOS GENETICS, 14(9). https://doi.org/10.1371/journal.pgen.1007589

Mochizuki, H., Motsinger-Reif, A., Bettini, C., Moroff, S., & Breen, M. (2017). Association of breed and histopathological grade in canine mast cell tumours. VETERINARY AND COMPARATIVE ONCOLOGY, 15(3), 829–839. https://doi.org/10.1111/vco.12225

Seelig, D. M., Ito, D., Forster, C. L., Yoon, U. A., Breen, M., Burns, L. J., … Linden, M. A. (2017). Constitutive activation of alternative nuclear factor kappa B pathway in canine diffuse large B-cell lymphoma contributes to tumor cell survival and is a target of new adjuvant therapies. LEUKEMIA & LYMPHOMA, 58(7), 1702–1710. https://doi.org/10.1080/10428194.2016.1260122

Lim, J.-H., Koh, S., Thomas, R., Breen, M., & Olby, N. J. (2017). Evaluation of gene expression and DNA copy number profiles of adipose tissue-derived stromal cells and consecutive neurosphere-like cells generated from dogs with naturally occurring spinal cord injury. American Journal of Veterinary Research, 78(3), 371–380. https://doi.org/10.2460/ajvr.78.3.371

Gonçalves, N. J. N., Bressan, F. F., Roballo, K. C. S., Meirelles, F. V., Xavier, P. L. P., Fukumasu, H., … Ambrósio, C. E. (2017). Generation of LIF-independent induced pluripotent stem cells from canine fetal fibroblasts. Theriogenology, 92, 75–82. https://doi.org/10.1016/j.theriogenology.2017.01.013

Mochizuki, H., Thomas, R., Moroff, S., & Breen, M. (2017). Genomic profiling of canine mast cell tumors identifies DNA copy number aberrations associated with KIT mutations and high histological grade. CHROMOSOME RESEARCH, 25(2), 129–143. https://doi.org/10.1007/s10577-016-9543-7

Thomas, R., Demeter, Z., Kennedy, K. A., Borst, L., Singh, K., Valli, V. E., … Breen, M. (2017). Integrated immunohistochemical and DNA copy number profiling analysis provides insight into the molecular pathogenesis of canine follicular lymphoma. VETERINARY AND COMPARATIVE ONCOLOGY, 15(3), 852–867. https://doi.org/10.1111/vco.12227

Im, K. S., Graef, A. J., Breen, M., Lindblad-Toh, K., Modiano, J. F., & Kim, J.-H. (2017). Interactions between CXCR4 and CXCL12 promote cell migration and invasion of canine hemangiosarcoma. VETERINARY AND COMPARATIVE ONCOLOGY, 15(2), 315–327. https://doi.org/10.1111/vco.12165

Hensley, M. T., Tang, J., Woodruff, K., Defrancesco, T., Tou, S., Williams, C. M., … al. (2017). Intracoronary allogeneic cardiosphere-derived stem cells are safe for use in dogs with dilated cardiomyopathy. Journal of Cellular and Molecular Medicine, 21(8), 1503–1512. https://doi.org/10.1111/jcmm.13077

Santos, M., Dias-Pereira, P., Williams, C., Lopes, C., & Breen, M. (2017). Malignant canine mammary tumours: Preliminary genomic insights using oligonucleotide array comparative genomic hybridisation analysis. VETERINARY JOURNAL, 222, 68–71. https://doi.org/10.1016/j.tvjl.2017.03.005

Mochizuki, H., & Breen, M. (2017). Sequence analysis of RAS and RAF mutation hot spots in canine carcinoma. VETERINARY AND COMPARATIVE ONCOLOGY, 15(4), 1598–1605. https://doi.org/10.1111/vco.12275

Roode, S. C., Rotroff, D., Richards, K. L., Moore, P., Motsinger-Reif, A., Okamura, Y., … Breen, M. (2016). Comprehensive genomic characterization of five canine lymphoid tumor cell lines. BMC Veterinary Research, 12.

Mochizuki, H., Shapiro, S. G., Breen, M., & pathology, V. (2016). Detection of Copy Number Imbalance in Canine Urothelial Carcinoma With Droplet Digital Polymerase Chain Reaction. VETERINARY PATHOLOGY, 53(4), 764–772. https://doi.org/10.1177/0300985815614975

Omeir, R., Thomas, R., Teferedegne, B., Williams, C., Foseh, G., Macauley, J., … Lewis, A. M., Jr. (2015). A novel canine kidney cell line model for the evaluation of neoplastic development: karyotype evolution associated with spontaneous immortalization and tumorigenicity. CHROMOSOME RESEARCH, 23(4), 663–680. https://doi.org/10.1007/s10577-015-9474-8

Mochizuki, H., Kennedy, K., Shapiro, S. G., & Breen, M. (2015). BRAF Mutations in Canine Cancers. PLOS ONE, 10(6). https://doi.org/10.1371/journal.pone.0129534

Shapiro, S. G., Raghunath, S., Williams, C., Motsinger-Reif, A. A., Cullen, J. M., Liu, T., … Breen, M. (2015). Canine urothelial carcinoma: genomically aberrant and comparatively relevant. Chromosome Research, 23(2), 311–331. https://doi.org/10.1007/s10577-015-9471-y

Poorman, K., Borst, L., Moroff, S., Roy, S., Labelle, P., Motsinger-Reif, A., & Breen, M. (2015). Comparative cytogenetic characterization of primary canine melanocytic lesions using array CGH and fluorescence in situ hybridization. CHROMOSOME RESEARCH, 23(2), 171–186. https://doi.org/10.1007/s10577-014-9444-6

Schiffman, J. D., & Breen, M. (2015). [Review of Comparative oncology: what dogs and other species can teach us about humans with cancer]. PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES, 370(1673). https://doi.org/10.1098/rstb.2014.0231

Mochizuki, H., Shapiro, S. G., & Breen, M. (2015). Detection of BRAF Mutation in Urine DNA as a Molecular Diagnostic for Canine Urothelial and Prostatic Carcinoma. PLOS ONE, 10(12). https://doi.org/10.1371/journal.pone.0144170

Roode, S. C., Rotroff, D., Avery, A. C., Suter, S. E., Bienzle, D., Schiffman, J. D., … Breen, M. (2015). Genome-wide assessment of recurrent genomic imbalances in canine leukemia identifies evolutionarily conserved regions for subtype differentiation. Chromosome Research, 23(4), 681–708. https://doi.org/10.1007/s10577-015-9475-7

Nunney, L., Maley, C. C., Breen, M., Hochberg, M. E., & Schiffman, J. D. (2015, July 19). Peto's paradox and the promise of comparative oncology. PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES, Vol. 370. https://doi.org/10.1098/rstb.2014.0177

Simmons, J. K., Dirksen, W. P., Hildreth, B. E., III, Dorr, C., Williams, C., Thomas, R., … Rosol, T. J. (2014). Canine Prostate Cancer Cell Line (Probasco) Produces Osteoblastic Metastases In Vivo. PROSTATE, 74(13), 1251–1265. https://doi.org/10.1002/pros.22838

Sanderson, N. D., Norman, P. J., Guethlein, L. A., Ellis, S. A., Williams, C., Breen, M., … Hammond, J. A. (2014). Definition of the Cattle Killer Cell Ig-like Receptor Gene Family: Comparison with Aurochs and Human Counterparts. JOURNAL OF IMMUNOLOGY, 193(12), 6016–6030. https://doi.org/10.4049/jimmunol.1401980

Thomas, R., Borst, L., Rotroff, D., Motsinger-Reif, A., Lindblad-Toh, K., Modiano, J. F., & Breen, M. (2014). Genomic profiling reveals extensive heterogeneity in somatic DNA copy number aberrations of canine hemangiosarcoma. CHROMOSOME RESEARCH, 22(3), 305–319. https://doi.org/10.1007/s10577-014-9406-z

Gorden, B. H., Kim, J.-H., Sarver, A. L., Frantz, A. M., Breen, M., Lindblad-Toh, K., … Dickerson, E. B. (2014). Identification of Three Molecular and Functional Subtypes in Canine Hemangiosarcoma through Gene Expression Profiling and Progenitor Cell Characterization. AMERICAN JOURNAL OF PATHOLOGY, 184(4), 985–995. https://doi.org/10.1016/j.ajpath.2013.12.025

Su, Y. H., Nielsen, D., Zhu, L., Richards, K., Suter, S., Breen, M., … Osborne, J. (2013). Gene selection and cancer type classification of diffuse large-B-cell lymphoma using a bivariate mixture model for two-species data. Human Genomics, 7.

Koh, S., Thomas, R., Tsai, S., Bischoff, S., Lim, J.-H., Breen, M., … Piedrahita, J. A. (2013). Growth Requirements and Chromosomal Instability of Induced Pluripotent Stem Cells Generated from Adult Canine Fibroblasts. Stem Cells and Development, 22(6), 951–963. https://doi.org/10.1089/scd.2012.0393

Culver, S., Ito, D., Borst, L., Bell, J. S., Modiano, J. F., & Breen, M. (2013). Molecular characterization of canine BCR-ABL-positive chronic myelomonocytic leukemia before and after chemotherapy. Veterinary Clinical Pathology, 42(3), 314–322. https://doi.org/10.1111/vcp.12055

Rotroff, D. M., Thomas, R., Breen, M., & Motsinger-Reif, A. A. (2013, December). Naturally occuring canine cancers: powerful models for stimulating pharmacogenomic advancement in human medicine. PHARMACOGENOMICS, Vol. 14, pp. 1929–1931. https://doi.org/10.2217/pgs.13.178

Perez, M. L., Culver, S., Owen, J. L., Dunbar, M., Kow, K., Breen, M., & Milner, R. J. (2013). Partial cytogenetic response with toceranib and prednisone treatment in a young dog with chronic monocytic leukemia. ANTI-CANCER DRUGS, 24(10), 1098–1103. https://doi.org/10.1097/cad.0000000000000018

Angstadt, A. Y., Thayanithy, V., Subramanian, S., Modiano, J. F., & Breen, M. (2012). A genome-wide approach to comparative oncology: high-resolution oligonucleotide aCGH of canine and human osteosarcoma pinpoints shared microaberrations. Cancer Genetics, 205(11), 572–587. https://doi.org/10.1016/j.cancergen.2012.09.005

Figueiredo, J. F., Culver, S., Behling-Kelly, E., Breen, M., & Friedrichs, K. R. (2012). Acute myeloblastic leukemia with associated BCR-ABL translocation in a dog. VETERINARY CLINICAL PATHOLOGY, 41(3), 362–368. https://doi.org/10.1111/j.1939-165x.2012.00450.x

Italiano, A., Chen, C.-L., Thomas, R., Breen, M., Bonnet, F., Sevenet, N., … Antonescu, C. R. (2012). Alterations of the p53 and PIK3CA/AKT/mTOR pathways in angiosarcomas. Cancer, 118(23), 5878–5887. https://doi.org/10.1002/cncr.27614

Tsai, P.-C., & Breen, M. (2012). Array-based comparative genomic hybridization-guided identification of reference genes for normalization of real-time quantitative polymerase chain reaction assay data for lymphomas, histiocytic sarcomas, and osteosarcomas of dogs. AMERICAN JOURNAL OF VETERINARY RESEARCH, 73(9), 1335–1343. https://doi.org/10.2460/ajvr.73.9.1335

Ito, D., Frantz, A. M., Williams, C., Thomas, R., Burnett, R. C., Avery, A. C., … Modiano, J. F. (2012). CD40 ligand is necessary and sufficient to support primary diffuse large B-cell lymphoma cells in culture: a tool for in vitro preclinical studies with primary B-cell malignancies. LEUKEMIA & LYMPHOMA, 53(7), 1390–1398. https://doi.org/10.3109/10428194.2011.654337

Koh, S., Tsai, S., Bischoff, S., Thomas, R., Lim, J. H., Breen, M., … Piedrahita, J. (2012). Generation and characterization of induced pluripotent stem cells (iPS) from adult canine fibroblasts. Reproduction in Domestic Animals, 47, 418–419.

Thayanithy, V., Sarver, A. L., Kartha, R. V., Li, L., Angstadt, A. Y., Breen, M., … Subramanian, S. (2012). Perturbation of 14q32 miRNAs-cMYC gene network in osteosarcoma. BONE, 50(1), 171–181. https://doi.org/10.1016/j.bone.2011.10.012

Italiano, A., Thomas, R., Breen, M., Zhang, L., Crago, A. M., Singer, S., … Antonescu, C. R. (2012). The miR-17-92 cluster and its target THBS1 are differentially expressed in angiosarcomas dependent on MYC amplification. GENES CHROMOSOMES & CANCER, 51(6), 569–578. https://doi.org/10.1002/gcc.21943

Becker, S. E. D., Thomas, R., Trifonov, V. A., Wayne, R. K., Graphodatsky, A. S., & Breen, M. (2011). Anchoring the dog to its relatives reveals new evolutionary breakpoints across 11 species of the Canidae and provides new clues for the role of B chromosomes. CHROMOSOME RESEARCH, 19(6), 685–708. https://doi.org/10.1007/s10577-011-9233-4

Cardona, J. A. C., Milner, R., Alleman, A. R., Williams, C., Vernau, W., Breen, M., & Tompkins, M. (2011). BCR-ABL translocation in a dog with chronic monocytic leukemia. VETERINARY CLINICAL PATHOLOGY, 40(1), 40–47. https://doi.org/10.1111/j.1939-165x.2010.00277.x

Angstadt, A. Y., Motsinger-Reif, A., Thomas, R., Kisseberth, W. C., Couto, C. G., Duval, D. L., … Breen, M. (2011). Characterization of Canine Osteosarcoma by Array Comparative Genomic Hybridization and RT-qPCR: Signatures of Genomic Imbalance in Canine Osteosarcoma Parallel the Human Counterpart. GENES CHROMOSOMES & CANCER, 50(11), 859–874. https://doi.org/10.1002/gcc.20908

Thudi, N. K., Shu, S. T., Martin, C. K., Lanigan, L. G., Nadella, M. V. P., Van Bokhoven, A., … Rosol, T. J. (2011). Development of a Brain Metastatic Canine Prostate Cancer Cell Line. PROSTATE, 71(12), 1251–1263. https://doi.org/10.1002/pros.21341

Suter, S. E., Small, G. W., Seiser, E. L., Thomas, R., Breen, M., & Richards, K. L. (2011). FLT3 mutations in canine acute lymphocytic leukemia. BMC CANCER, 11. https://doi.org/10.1186/1471-2407-11-38

Scott, M. C., Sarver, A. L., Gavin, K. J., Thayanithy, V., Getzy, D. M., Newman, R. A., … Modiano, J. F. (2011). Molecular subtypes of osteosarcoma identified by reducing tumor heterogeneity through an interspecies comparative approach. BONE, 49(3), 356–367. https://doi.org/10.1016/j.bone.2011.05.008

Seiser, E. L., Thomas, R., Richards, K. L., Kathryn Kelley, M., Moore, P., Suter, S. E., & Breen, M. (2011). Reading between the lines: molecular characterization of five widely used canine lymphoid tumour cell lines. Veterinary and Comparative Oncology, 11(1), 30–50. https://doi.org/10.1111/j.1476-5829.2011.00299.x

Thomas, R., Seiser, E. L., Motsinger-Reif, A., Borst, L., Valli, V. E., Kelley, K., … Breen, M. (2011). Refining tumor-associated aneuploidy through ‘genomic recoding’ of recurrent DNA copy number aberrations in 150 canine non-Hodgkin lymphomas. Leukemia & Lymphoma, 52(7), 1321–1335. https://doi.org/10.3109/10428194.2011.559802

Alföldi, J., Di Palma, F., Grabherr, M., Williams, C., Kong, L., Mauceli, E., … Lindblad-Toh, K. (2011). The genome of the green anole lizard and a comparative analysis with birds and mammals. Nature, 477(7366), 587–591. https://doi.org/10.1038/nature10390

Zheng, Y., Nace, A., Chen, W., Watkins, K., Sergott, L., Homan, Y., … Stenn, K. (2010). Mature Hair Follicles Generated from Dissociated Cells: A Universal Mechanism of Folliculoneogenesis. DEVELOPMENTAL DYNAMICS, 239(10), 2619–2626. https://doi.org/10.1002/dvdy.22398

Breen, M. S., Breen, M., Williams, R. W., & Schultz, B. D. (2010). Predicting Residential Air Exchange Rates from Questionnaires and Meteorology: Model Evaluation in Central North Carolina. ENVIRONMENTAL SCIENCE & TECHNOLOGY, 44(24), 9349–9356. https://doi.org/10.1021/es101800k

Thomas, R., Rebbeck, C., Leroi, A. M., Burt, A., & Breen, M. (2009). Extensive conservation of genomic imbalances in canine transmissible venereal tumors (CTVT) detected by microarray-based CGH analysis. CHROMOSOME RESEARCH, 17(7), 927–934. https://doi.org/10.1007/s10577-009-9080-8

Lin, T.-Y., Thomas, R., Tsai, P.-C., Breen, M., & London, C. A. (2009). Generation and characterization of novel canine malignant mast cell line CL1. VETERINARY IMMUNOLOGY AND IMMUNOPATHOLOGY, 127(1-2), 114–124. https://doi.org/10.1016/j.vetimm.2008.09.027

Reitman, Z. J., Olby, N. J., Mariani, C. L., Thomas, R., Breen, M., Bigner, D. D., … Yan, H. (2009). IDH1 and IDH2 hotspot mutations are not found in canine glioma. International Journal of Cancer, 127(1), 245–246. https://doi.org/10.1002/ijc.25017

Thomas, R., Wang, H. J., Tsai, P.-C., Langford, C. F., Fosmire, S. P., Jubala, C. M., … Breen, M. (2009). Influence of genetic background on tumor karyotypes: Evidence for breed-associated cytogenetic aberrations in canine appendicular osteosarcoma. CHROMOSOME RESEARCH, 17(3), 365–377. https://doi.org/10.1007/s10577-009-9028-z

Thomas, R., Valli, V. E., Ellis, P., Bell, J., Karlsson, E. K., Cullen, J., … Breen, M. (2009). Microarray-based cytogenetic profiling reveals recurrent and subtype-associated genomic copy number aberrations in feline sarcomas. CHROMOSOME RESEARCH, 17(8), 987–1000. https://doi.org/10.1007/s10577-009-9096-0

Rebbeck, C. A., Thomas, R., Breen, M., Leroi, A. M., & Burt, A. (2009). ORIGINS AND EVOLUTION OF A TRANSMISSIBLE CANCER. EVOLUTION, 63(9), 2340–2349. https://doi.org/10.1111/j.1558-5646.2009.00724.x

Breen, M. (2009). [Review of Update on Genomics in Veterinary Oncology]. TOPICS IN COMPANION ANIMAL MEDICINE, 24(3), 113–121. https://doi.org/10.1053/j.tcam.2009.03.002

Thomas, R., Duke, S. E., Wang, H. J., Breen, T. E., Higgins, R. J., Linder, K. E., … Breen, M. (2009). ‘Putting our heads together’: insights into genomic conservation between human and canine intracranial tumors. Journal of Neuro-Oncology, 94(3), 333–349. https://doi.org/10.1007/s11060-009-9877-5

Thomas, R., Duke, S. E., Karlsson, E. K., Evans, A., Ellis, P., Lindblad-Toh, K., … Breen, M. (2008). A genome assembly-integrated dog 1 Mb BAC microarray: a cytogenetic resource for canine cancer studies and comparative genomic analysis. CYTOGENETIC AND GENOME RESEARCH, 122(2), 110–121. https://doi.org/10.1159/000163088

Breen, M. (2008). Canine cytogenetics - from band to basepair. CYTOGENETIC AND GENOME RESEARCH, Vol. 120, pp. 50–60. https://doi.org/10.1159/000118740

Zaunbrecher, G. M., Mir, B., Dunne, P. W., Breen, M., & Piedrahita, J. A. (2008). Enhancement of extra chromosomal recombination in somatic cells by affecting the ratio of homologous recombination (HR) to non-homologous end joining (NHEJ). ANIMAL BIOTECHNOLOGY, 19(1), 6–21. https://doi.org/10.1080/10495390701670099

Breen, M., & Modiano, J. F. (2008). Evolutionarily conserved cytogenetic changes in hematological malignancies of dogs and humans - man and his best friend share more than companionship. CHROMOSOME RESEARCH, 16(1), 145–154. https://doi.org/10.1007/s10577-007-1212-4

Young, A. C., Kirkness, E. F., & Breen, M. (2008). Tackling the characterization of canine chromosomal breakpoints with an integrated in-situ/in-silico approach: The canine PAR and PAB. CHROMOSOME RESEARCH, 16(8), 1193–1202. https://doi.org/10.1007/s10577-008-1268-9

Thomas, R., Duke, S. E., Bloom, S. K., Breen, T. E., Young, A. C., Feiste, E., … Breen, M. (2007). A cytogenetically characterized, genome-anchored 10-Mb BAC set and CGH array for the domestic dog. JOURNAL OF HEREDITY, Vol. 98, pp. 474–484. https://doi.org/10.1093/jhered/esm053

Kisseberth, W. C., Nadella, M. V. P., Breen, M., Thomas, R., Duke, S. E., Murahari, S., … Rosol, T. J. (2007). A novel canine lymphoma cell line: A translational and comparative model for lymphoma research. LEUKEMIA RESEARCH, 31(12), 1709–1720. https://doi.org/10.1016/j.leukres.2007.04.003

Mikkelsen, T. S., Wakefield, M. J., Aken, B., Amemiya, C. T., Chang, J. L., Duke, S., … Lindblad-Toh, K. (2007). [Review of Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences]. NATURE, 447(7141), 167–U1. https://doi.org/10.1038/nature05805

Fosmire, S. P., Thomas, R., Jubala, C. M., Wojcieszyn, J. W., Valli, V. E. O., Getzy, D. M., … Modiano, J. F. (2007). Inactivation of the p16 cyclin-dependent kinase inhibitor in high-grade canine non-Hodgkin's T-Cell lymphoma. VETERINARY PATHOLOGY, 44(4), 467–478. https://doi.org/10.1354/vp.44-4-467

Duke, S. E., Samollow, P. B., Mauceli, E., Lindblad-Toh, K., & Breen, M. (2007). Integrated cytogenetic BAC map of the genome of the gray, short-tailed opossum, Monodelphis domestica. CHROMOSOME RESEARCH, 15(3), 361–370. https://doi.org/10.1007/s10577-007-1131-4

Modiano, J. F., Breen, M., Valli, V. E. O., Wojcieszyn, J. W., & Cutter, G. R. (2007). Predictive value of p16 or Rb inactivation in a model of naturally occurring canine non-Hodgkin's lymphoma. Leukemia, 21(1), 184–187. https://doi.org/10.1038/sj.leu.2404392

Davidow, L. S., Breen, M., Duke, S. E., Samollow, P. B., McCarrey, J. R., & Lee, J. T. (2007). The search for a marsupial XIC reveals a break with vertebrate synteny. Chromosome Research, 15(2), 137–146. https://doi.org/10.1007/s10577-007-1121-6

Khanna, C., Lindblad-Toh, K., Vail, D., London, C., Bergman, P., Barber, L., … Withrow, S. (2006, September). The dog as a cancer model. https://doi.org/10.1038/nbt0906-1065b

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Comstock, K. E., Lingaas, F., Kirkness, E. F., Hitte, C., Thomas, R., Breen, M., … Ostrander, E. A. (2004). A high-resolution comparative map of canine Chromosome 5q14.3–q33 constructed utilizing the 1.5× canine genomesequence. Mammalian Genome, 15(7), 544–551. https://doi.org/10.1007/s00335-004-2365-5

Fosmire, S. P., Dickerson, E. B., Scott, A. M., Bianco, S. R., Pettengill, M. J., Meylemans, H., … Modiano, J. F. (2004). Canine malignant hemangiosarcoma as a model of primitive angiogenic endothelium. Laboratory Investigation, 84(5), 562–572. https://doi.org/10.1038/labinvest.3700080

Palkopoulou, E., Lipson, M., Mallick, S., Nielsen, S., Rohland, N., Baleka, S., … Meller, H. A comprehensive genomic history of extinct and living elephants. Proceedings of the National Academy of Sciences of the United States of America, 115(11), E2566–2574.

LeBlanc, A. K., Mazcko, C., Brown, D. E., Koehler, J. W., Miller, A. D., Miller, C. R., … Dickinson, P. J. Creation of an NCI comparative brain tumor consortium: informing the translation of new knowledge from canine to human brain tumor patients. Neuro-Oncology, 18(9), 1209–1218.

Duke, S. E., Samallow, P., Mauceli, E., Lindblad-Toh, K., & Breen, M. Cytogenetic BAC map of the genome of Monodelphis domestica. Chromosome Research, 15, 3610–3670.

Elvers, I., Turner-Maier, J., Swofford, R., Koltookian, M., Johnson, J., Stewart, C., … Lindblad-Toh, K. Exome sequencing of lymphomas from three dog breeds reveals somatic mutation patterns reflecting genetic background. Genome Research, 25(11), 1634–1645.

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Karlsson, E. K., Sigurdsson, S., Ivansson, E., Thomas, R., Elvers, I., Wright, J., … Rivera, P. Genome-wide analyses implicate 33 loci in heritable dog osteosarcoma, including regulatory variants near CDKN2A/B. Genome Biology, 14(12).

Tonomura, N., Elvers, I., Thomas, R., Megquier, K., Turner-Maier, J., Howald, C., … Kim, J. H. Genome-wide association study identifies shared risk loci common to two malignancies in golden retrievers. PLoS Genetics, 11(2).

Frantz, A. M., Sarver, A. L., Ito, D., Phang, T. L., Karimpour-Fard, A., Scott, M. C., … O'Brien, T. D. Molecular profiling reveals prognostically significant subtypes of canine lymphoma. Veterinary Pathology, 50(4), 693–703.

Modiano, J. F., Breen, M., Lana, S. E., Ehrhart, N., Fosmire, S. P., Thomas, R., … Bellgrau, D. Naturally occurring translational models for development of cancer gene therapy. Gene Therapy & Molecular Biology, 10A, 31–40.

LeBlanc, A. K., Breen, M., Choyke, P., Dewhirst, M., Fan, T. M., Gustafson, D. L., … Trent, J. M. Perspectives from man's best friend: National Academy of Medicine's Workshop on Comparative Oncology. Science Translational Medicine, 8(324).

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Sakthikumar, S., Elvers, I., Kim, J., Arendt, M. L., Thomas, R., Turner-Maier, J., … Modiano, J. F. SETD2 is recurrently mutated in whole-exome sequenced canine osteosarcoma. Cancer Research, 78(13), 3421–3431.

Borgatti, A., Koopmeiners, J. S., Sarver, A. L., Winter, A. L., Stuebner, K., Todhunter, D., … Oh, F. Safe and effective sarcoma therapy through bispecific targeting of EGFR and uPAR. Molecular Cancer Therapeutics, 16(5), 956–965.

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