PA-NextGen Sequencing

2023

Adenoid Cystic Carcinoma with Striking Tubular Hypereosinophilia: A Unique Pattern Associated with Nonparotid Location and Both Canonical and Novel EWSR1::MYB and FUS::MYB Fusions

Weinreb, I., Rooper, L. M., Dickson, B. C., Hahn, E., Perez-Ordonez, B., Smith, S. M., Lewis, J. S., Skalova, A., Baněčková, M., Wakely, P. E., Thompson, L. D. R., Rupp, N. J., Freiberger, S. N., Koduru, P., Gagan, J. & Bishop, J. A., Apr 1 2023, In: American Journal of Surgical Pathology. 47, 4, p. 497-503 7 p.

Research output: Contribution to journal › Article › peer-review

5 Scopus citations

Distinct mutational and clinicopathologic profiles characterize acute myeloid leukemia with cup-like nuclei

Oertling, E., Fuda, F., Koduru, P., Chen, M., Weinberg, O., Juntilla, M., Jaso, J., Vusirikala, M., Chung, S., Geethakumari, P. R., Madanat, Y. F., Collins, R., Gagan, J. & Chen, W., Jan 2023, In: Leukemia Research. 124, 106995.

Research output: Contribution to journal › Letter › peer-review

Microsecretory adenocarcinoma of the skin harboring recurrent SS18 fusions: A cutaneous analog to a newly described salivary gland tumor

Bishop, J. A., Williams, E. A., McLean, A. C., Gagan, J., Rooper, L. M., Jordan, R. C. K. & LeBoit, P. E., Feb 2023, In: Journal of Cutaneous Pathology. 50, 2, p. 134-139 6 p.

Research output: Contribution to journal › Article › peer-review

5 Scopus citations

Mucoepidermoid carcinoma may be devoid of squamoid cells by immunohistochemistry: expanding the histologic and immunohistochemical spectrum of MAML2- rearranged salivary gland tumours

Bishop, J. A., Thompson, L. D. R., Siegele, B., Gagan, J., Mansour, M., Chernock, R. D. & Rooper, L. M., Jan 2023, In: Histopathology. 82, 2, p. 305-313 9 p.

Research output: Contribution to journal › Article › peer-review

13 Scopus citations

2022

Adult Wilms Tumor: Genetic Evidence of Origin of a Subset of Cases From Metanephric Adenoma

Argani, P., Tickoo, S. K., Matoso, A., Pratilas, C. A., Mehra, R., Tretiakova, M., Sibony, M., Meeker, A. K., Lin, M. T., Reuter, V. E., Epstein, J. I., Gagan, J. & Palsgrove, D. N., Jul 1 2022, In: American Journal of Surgical Pathology. 46, 7, p. 988-999 12 p.

Research output: Contribution to journal › Article › peer-review

Open Access

1 Scopus citations

ANSWER: Annotation Software for Electronic Reporting

Raulerson, C., Jimenez, G., Wakeland, B., Villa, E., Sorelle, J., Malter, J., Gagan, J. & Cantarel, B., 2022, In: JCO Clinical Cancer Informatics. 6, e2100113.

Research output: Contribution to journal › Article › peer-review

4 Scopus citations

Distinct NSCLC EGFR Variants in a Family With Li-Fraumeni Syndrome: Case Report

Edmondson, S., von Itzstein, M. S., Reys, B., Mayer, M., Gagan, J. & Gerber, D. E., Aug 2022, In: JTO Clinical and Research Reports. 3, 8, 100368.

Research output: Contribution to journal › Article › peer-review

Open Access

2 Scopus citations

Endometrial polyps are non-neoplastic but harbor epithelial mutations in endometrial cancer drivers at low allelic frequencies

Sahoo, S. S., Aguilar, M., Xu, Y., Lucas, E., Miller, V., Chen, H., Zheng, W., Cuevas, I. C., Li, H. D., Hitrys, D., Wachsmann, M. B., Bishop, J. A., Cantarell, B., Gagan, J., Koduru, P., SoRelle, J. A. & Castrillon, D. H., Nov 2022, In: Modern Pathology. 35, 11, p. 1702-1712 11 p.

Research output: Contribution to journal › Article › peer-review

Open Access

8 Scopus citations

Enrichment of “Cribriform” morphologies (intraductal and cribriform adenocarcinoma) and genomic alterations in radiorecurrent prostate cancer

Shah, R. B., Palsgrove, D. N., Desai, N. B., Gagan, J., Mennie, A., Raj, G. & Hannan, R., Oct 2022, In: Modern Pathology. 35, 10, p. 1468-1474 7 p.

Research output: Contribution to journal › Article › peer-review

Open Access

3 Scopus citations

Frankly Invasive Carcinoma Ex-intraductal Carcinoma: Expanding on an Emerging and Perplexing Concept in Salivary Gland Tumor Pathology

McLean-Holden, A. C., Rooper, L. M., Lubin, D. J., Magliocca, K. R., Manucha, V., Sadow, P. M., Tobias, J., Vargo, R. J., Thompson, L. D. R., Heidarian, A., Weinreb, I., Wenig, B., Gagan, J., Hernandez-Prera, J. C. & Bishop, J. A., 2022, (Accepted/In press) In: Head and Neck Pathology.

Research output: Contribution to journal › Article › peer-review

Open Access

10 Scopus citations

Genomic profile of TdT^positive MYC/BCL2 rearranged high-grade B-cell lymphoma supporting its diagnosis as mature aggressive lymphoma

Hamdan, H., Luu, L., Opsahl, M., Weinberg, O., Fuda, F., Koduru, P., Wilson, K., Gagan, J., Ramakrishnan Geethakumari, P., Collins, R. & Chen, W., Nov 2022, In: Cytometry Part B - Clinical Cytometry. 102, 6, p. 448-450 3 p.

Research output: Contribution to journal › Letter › peer-review

3 Scopus citations

GLI1-Altered Soft Tissue Tumors of the Head and Neck: Frequent Oropharyngeal Involvement, p16 Immunoreactivity, and Detectable Alterations by DDIT3 Break Apart FISH

Palsgrove, D. N., Rooper, L. M., Stevens, T. M., Shin, C., Damm, D. D., Gagan, J., Bridge, J. A., Thompson, L. D. R., Koduru, P. R. & Bishop, J. A., Dec 2022, In: Head and Neck Pathology. 16, 4, p. 1146-1156 11 p.

Research output: Contribution to journal › Article › peer-review

Open Access

9 Scopus citations

Limited sinonasal Rosai–Dorfman disease presenting as chronic sinusitis

Rooper, L. M., White, M. J., Duffield, A. S., Gagan, J., London, N. R., Montgomery, E. A. & Bishop, J. A., Jul 2022, In: Histopathology. 81, 1, p. 99-107 9 p.

Research output: Contribution to journal › Article › peer-review

Open Access

1 Scopus citations

Low-grade non-intestinal-type sinonasal adenocarcinoma: a histologically distinctive but molecularly heterogeneous entity

Rooper, L. M., Thompson, L. D. R., Gagan, J., Hwang, J. S. G., London, N. R., Mikula, M. W., Stevens, T. M. & Bishop, J. A., Sep 2022, In: Modern Pathology. 35, 9, p. 1160-1167 8 p.

Research output: Contribution to journal › Article › peer-review

Open Access

10 Scopus citations

Multiplex Fragment Analysis for Flexible Detection of All SARS-CoV-2 Variants of Concern

Clark, A. E., Wang, Z., Ostman, E., Zheng, H., Yao, H., Cantarel, B., Kanchwala, M., Xing, C., Chen, L., Irwin, P., Xu, Y., Oliver, D., Lee, F. M., Gagan, J. R., Filkins, L., Muthukumar, A., Park, J. Y., Sarode, R. & SoRelle, J. A., Aug 1 2022, In: Clinical chemistry. 68, 8, p. 1042-1052 11 p.

Research output: Contribution to journal › Article › peer-review

Open Access

9 Scopus citations

Pitfalls in the diagnosis of yolk sac tumor: Lessons from a clinical trial

Yang, A., Patterson, A., Pavlock, T., Chen, K. S., Gagan, J., Hatley, M. E., Frazier, A. L., Amatruda, J. F., Laetsch, T. W. & Rakheja, D., Feb 2022, In: Pediatric Blood and Cancer. 69, 2, e29451.

Research output: Contribution to journal › Article › peer-review

Open Access

1 Scopus citations

Poor Humoral Response in Solid Organ Transplant Recipients Following Complete mRNA SARS-CoV-2 Vaccination

Cao, J., Liu, X., Muthukumar, A., Gagan, J., Jones, P. & Zu, Y., Jan 1 2022, In: Clinical chemistry. 68, 1, p. 251-253 3 p.

Research output: Contribution to journal › Letter › peer-review

Open Access

7 Scopus citations

Primary renal sarcoma with SS18::POU5F1 gene fusion

Argani, P., Matoso, A., Gross, J. M., Zhang, Y., SoRelle, J. A., Gagan, J., Antonescu, C. R. & Palsgrove, D., Sep 2022, In: Genes Chromosomes and Cancer. 61, 9, p. 572-577 6 p.

Research output: Contribution to journal › Article › peer-review

Open Access

2 Scopus citations

SCHOOL: Software for Clinical Health in Oncology for Omics Laboratories

Raulerson, C. K., Villa, E. C., Mathews, J. A., Wakeland, B., Xu, Y., Gagan, J. & Cantarel, B. L., Jan 1 2022, In: Journal of Pathology Informatics. 13, 1, p. 1 1 p.

Research output: Contribution to journal › Article › peer-review

Open Access

5 Scopus citations

Standardized Comparison of Different DNA Sequencing Platforms

Cantu, M., Morrison, M. A. & Gagan, J., Jul 1 2022, In: Clinical chemistry. 68, 7, p. 872-876 5 p.

Research output: Contribution to journal › Article › peer-review

Open Access

4 Scopus citations

Systemic and Intracranial Efficacy of Osimertinib in EGFR L747P-Mutant NSCLC: Case Report

Gerber, D. E., Mayer, M., Gagan, J. & von Itzstein, M. S., Mar 2022, In: JTO Clinical and Research Reports. 3, 3, 100291.

Research output: Contribution to journal › Article › peer-review

Open Access

5 Scopus citations

Targeted molecular profiling of salivary duct carcinoma with rhabdoid features highlights parallels to other apocrine and discohesive neoplasms: which phenotype should drive classification?

Rooper, L. M., Gagan, J. & Bishop, J. A., Dec 2022, In: Head and Neck Pathology. 16, 4, p. 1063-1072 10 p.

Research output: Contribution to journal › Article › peer-review

Open Access

1 Scopus citations

Teratocarcinosarcoma-Like and Adamantinoma-Like Head and Neck Neoplasms Harboring NAB2::STAT6: Unusual Variants of Solitary Fibrous Tumor or Novel Tumor Entities?

Stevens, T. M., Rooper, L. M., Bacchi, C. E., Fernandes, I. L., Antonescu, C. R., Gagan, J. & Bishop, J. A., 2022, (Accepted/In press) In: Head and Neck Pathology.

Research output: Contribution to journal › Article › peer-review

Open Access

8 Scopus citations

TP53 mutation defines a unique subgroup within complex karyotype de novo and therapy-related MDS/AML

Weinberg, O. K., Siddon, A., Madanat, Y. F., Gagan, J., Arber, D. A., Cin, P. D., Narayanan, D., Ouseph, M. M., Kurzer, J. H. & Hasserjian, R. P., May 10 2022, In: Blood Advances. 6, 9, p. 2847-2853 7 p.

Research output: Contribution to journal › Article › peer-review

Open Access

83 Scopus citations

Unclassified Neuroendocrine Tumor with a Novel CHD4::AFF2 Fusion: Expanding the Family of AFF2-Rearranged Head and Neck Malignancies

Miller, D. L., Palsgrove, D. N., Rijal, A., Hathuc, V., Chernock, R., Gagan, J. & Bishop, J. A., 2022, (Accepted/In press) In: Head and Neck Pathology.

Research output: Contribution to journal › Article › peer-review

6 Scopus citations

2021

A Curriculum for Genomic Education of Molecular Genetic Pathology Fellows: A Report of the Association for Molecular Pathology Training and Education Committee

Rosenbaum, J. N., Berry, A. B., Church, A. J., Crooks, K., Gagan, J. R., López-Terrada, D., Pfeifer, J. D., Rennert, H., Schrijver, I., Snow, A. N., Wu, D. & Ewalt, M. D., Oct 2021, In: Journal of Molecular Diagnostics. 23, 10, p. 1218-1240 23 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

2 Scopus citations

Alterations in the RB Pathway With Inactivation of RB1 Characterize Glioblastomas With a Primitive Neuronal Component

Chkheidze, R., Raisanen, J., Gagan, J., Richardson, T. E., Pinho, M. C., Raj, K., Achilleos, M., Slepicka, C., White, C. L., Evers, B. M., Patel, T. R., Malter, J. S. & Hatanpaa, K. J., Dec 1 2021, In: Journal of neuropathology and experimental neurology. 80, 12, p. 1092-1098 7 p.

Research output: Contribution to journal › Article › peer-review

Open Access

10 Scopus citations

DEK-AFF2 Carcinoma of the Sinonasal Region and Skull Base: Detailed Clinicopathologic Characterization of a Distinctive Entity

Rooper, L. M., Agaimy, A., Dickson, B. C., Dueber, J. C., Eberhart, C. G., Gagan, J., Hartmann, A., Khararjian, A., London, N. R., MacMillan, C. M., Palsgrove, D. N., Nix, J. S., Sandison, A., Stoehr, R., Truong, T., Weinreb, I. & Bishop, J. A., Dec 1 2021, In: American Journal of Surgical Pathology. 45, 12, p. 1682-1693 12 p.

Research output: Contribution to journal › Article › peer-review

46 Scopus citations

Digital Droplet PCR for SARS-CoV-2 Resolves Borderline Cases

Xu, J., Kirtek, T., Xu, Y., Zheng, H., Yao, H., Ostman, E., Oliver, D., Malter, J. S., Gagan, J. R. & Sorelle, J. A., Jun 1 2021, In: American journal of clinical pathology. 155, 6, p. 815-822 8 p.

Research output: Contribution to journal › Article › peer-review

Open Access

17 Scopus citations

Microsecretory Adenocarcinoma of Salivary Glands: An Expanded Series of 24 Cases

Bishop, J. A., Sajed, D. P., Weinreb, I., Dickson, B. C., Bilodeau, E. A., Agaimy, A., Franchi, A., Khurram, S. A., Da Forno, P., Robledo, J., Kalmar, J. R., Aguirre, S., Krane, J. F., Tapia, J. L., Kiss, K., Cordell, K., Rosebush, M., Barrett, A. W., Oda, D., Assaad, A., & 11 othersNagao, T., Kawakami, F., Nakaguro, M., Zahir, I., Wakeman, K., Ihrler, S., Chenevert, J., Lin, Y. L., Westra, W. H., Gagan, J. & Rooper, L. M., Dec 2021, In: Head and Neck Pathology. 15, 4, p. 1192-1201 10 p.

Research output: Contribution to journal › Article › peer-review

Open Access

28 Scopus citations

Nonkeratinizing Squamous Cell Carcinoma of the Sinonasal Tract with DEK-AFF2: Further Solidifying an Emerging Entity

Bishop, J. A., Gagan, J., Paterson, C., McLellan, D. & Sandison, A., May 2021, In: American Journal of Surgical Pathology. 45, 5, p. 718-720 3 p.

Research output: Contribution to journal › Letter › peer-review

22 Scopus citations

NUT Carcinoma in a Patient with Unusually Long Survival and False Negative FISH Results

McLean-Holden, A. C., Moore, S. A., Gagan, J., French, C. A., Sher, D., Truelson, J. M. & Bishop, J. A., Jun 2021, In: Head and Neck Pathology. 15, 2, p. 698-703 6 p.

Research output: Contribution to journal › Article › peer-review

Open Access

8 Scopus citations

Oncocytic intraductal carcinoma of salivary glands: a distinct variant with TRIM33–RET fusions and BRAF V600E mutations

Bishop, J. A., Nakaguro, M., Whaley, R. D., Ogura, K., Imai, H., Laklouk, I., Faquin, W. C., Sadow, P. M., Gagan, J. & Nagao, T., Sep 2021, In: Histopathology. 79, 3, p. 338-346 9 p.

Research output: Contribution to journal › Article › peer-review

Open Access

33 Scopus citations

Salivary Intraductal Carcinoma Arising within Intraparotid Lymph Node: A Report of 4 Cases with Identification of a Novel STRN-ALK Fusion

Rooper, L. M., Thompson, L. D. R., Gagan, J., Oliai, B. R., Weinreb, I. & Bishop, J. A., Mar 2021, In: Head and Neck Pathology. 15, 1, p. 179-185 7 p.

Research output: Contribution to journal › Article › peer-review

Open Access

27 Scopus citations

Salivary Mucinous Adenocarcinoma Is a Histologically Diverse Single Entity with Recurrent AKT1 E17K Mutations: Clinicopathologic and Molecular Characterization with Proposal for a Unified Classification

Rooper, L. M., Argyris, P. P., Thompson, L. D. R., Gagan, J., Westra, W. H., Jordan, R. C., Koutlas, I. G. & Bishop, J. A., Oct 1 2021, In: American Journal of Surgical Pathology. 45, 10, p. 1337-1347 11 p.

Research output: Contribution to journal › Article › peer-review

33 Scopus citations

Serial genomic analysis of endometrium supports the existence of histologically indistinct endometrial cancer precursors

Aguilar, M., Zhang, H., Zhang, M., Cantarell, B., Sahoo, S. S., Li, H. D., Cuevas, I. C., Lea, J., Miller, D. S., Chen, H., Zheng, W., Gagan, J., Lucas, E. & Castrillon, D. H., May 2021, In: Journal of Pathology. 254, 1, p. 20-30 11 p.

Research output: Contribution to journal › Article › peer-review

Open Access

11 Scopus citations

Spinal Cord Pilocytic Astrocytoma with FGFR1-TACC1 Fusion and Anaplastic Transformation

Daoud, E. V., Patel, A., Gagan, J., Raisanen, J. M., Snipes, G. J., Mantilla, E., Krothapally, R., Hatanpaa, K. J. & Pan, E., Mar 1 2021, In: Journal of neuropathology and experimental neurology. 80, 3, p. 283-285 3 p.

Research output: Contribution to journal › Letter › peer-review

Open Access

8 Scopus citations

The Myoepithelial Cells of Salivary Intercalated Duct-type Intraductal Carcinoma Are Neoplastic: A Study Using Combined Whole-slide Imaging, Immunofluorescence, and RET Fluorescence in Situ Hybridization

Bishop, J. A., Rooper, L. M., Sangoi, A. R., Gagan, J., Thompson, L. D. R. & Inagaki, H., Apr 2021, In: American Journal of Surgical Pathology. 45, 4, p. 507-515 9 p.

Research output: Contribution to journal › Article › peer-review

17 Scopus citations

2020

Biphasic Hyalinizing Psammomatous Renal Cell Carcinoma (BHP RCC): A Distinctive Neoplasm Associated with Somatic NF2 Mutations

Argani, P., Reuter, V. E., Eble, J. N., Vlatkovic, L., Yaskiv, O., Swanson, D., Dickson, B. C., Antonescu, C. R., Matoso, A., Gagan, J. & Palsgrove, D. N., Jul 1 2020, In: American Journal of Surgical Pathology. 44, 7, p. 901-916 16 p.

Research output: Contribution to journal › Article › peer-review

Open Access

33 Scopus citations

Biphenotypic Branchioma: A Better Name Than Ectopic Hamartomatous Thymoma for a Neoplasm with HRAS Mutation

Thompson, L. D. R., Gagan, J., Washington, A., Miller, R. T. & Bishop, J. A., Dec 2020, In: Head and Neck Pathology. 14, 4, p. 884-888 5 p.

Research output: Contribution to journal › Article › peer-review

Open Access

11 Scopus citations

Lenalidomide-Associated Secondary B-Lymphoblastic Leukemia/Lymphoma—A Unique Entity A Report of Two Cases with Low-Level Bone Marrow Involvement and Review of the Literature

Germans, S. K., Kulak, O., Koduru, P., Oliver, D., Gagan, J., Patel, P., Anderson, L. D., Fuda, F. S., Chen, W. & Jaso, J. M., Dec 1 2020, In: American journal of clinical pathology. 154, 6, p. 816-827 12 p.

Research output: Contribution to journal › Article › peer-review

Open Access

11 Scopus citations

Low-grade Apocrine Intraductal Carcinoma: Expanding the Morphologic and Molecular Spectrum of an Enigmatic Salivary Gland Tumor

Bishop, J. A., Gagan, J., Krane, J. F. & Jo, V. Y., Dec 2020, In: Head and Neck Pathology. 14, 4, p. 869-875 7 p.

Research output: Contribution to journal › Article › peer-review

Open Access

32 Scopus citations

Recurrent DICER1 Hotspot Mutations in Malignant Thyroid Gland Teratomas: Molecular Characterization and Proposal for a Separate Classification

Rooper, L. M., Bynum, J. P., Miller, K. P., Lin, M. T., Gagan, J., Thompson, L. D. R. & Bishop, J. A., Jun 1 2020, In: American Journal of Surgical Pathology. 44, 6, p. 826-833 8 p.

Research output: Contribution to journal › Article › peer-review

36 Scopus citations

Recurrent Loss of SMARCA4 in Sinonasal Teratocarcinosarcoma

Rooper, L. M., Uddin, N., Gagan, J., Brosens, L. A. A., Magliocca, K. R., Edgar, M. A., Thompson, L. D. R., Agaimy, A. & Bishop, J. A., Oct 1 2020, In: American Journal of Surgical Pathology. 44, 10, p. 1331-1339 9 p.

Research output: Contribution to journal › Article › peer-review

60 Scopus citations

Sclerosing Polycystic “Adenosis” of Salivary Glands: A Neoplasm Characterized by PI3K Pathway Alterations More Correctly Named Sclerosing Polycystic Adenoma

Bishop, J. A., Gagan, J., Baumhoer, D., McLean-Holden, A. L., Oliai, B. R., Couce, M. & Thompson, L. D. R., Sep 1 2020, In: Head and Neck Pathology. 14, 3, p. 630-636 7 p.

Research output: Contribution to journal › Article › peer-review

Open Access

54 Scopus citations

2019

A high-grade renal cell carcinoma with Somatic BRCA2 mutation

Kong, Q., Gagan, J. & Zhou, M., 2019, In: Pathology International. 69, 7, p. 432-433 2 p.

Research output: Contribution to journal › Letter › peer-review

PA-NextGen Sequencing

Research output

Search results