Barretts esophagus books 2

Publications

Featured Publications

Angelo De Marzo, M.D., Ph.D.
Angelo De Marzo, M.D., Ph.D.

Spatial Analysis: Framework for Interrogating the Immune Landscape in Prostate Cancer

Recently, our laboratory validated a multiplex immunohistochemistry (IHC) approach. We evaluated two main methods, multiplex immunofluorescence, and multiplex iterative chromogenic IHC and have standardized on the iterative IHC approach. The advantages of this latter system are: (1) the ability to use any primary antibody; (2) the ability to use relatively inexpensive commercial whole slide brightfield scanners; (3) the ability to perform q/c for each round of staining using brightfield whole...

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Convalescent Plasma Reduces Hospitalizations for Outpatients with Recent COVID-19 Infection ❯
Aaron Tobian, M.D., Ph.D.
Aaron Tobian, M.D., Ph.D.

Convalescent Plasma Reduces Hospitalizations for Outpatients with Recent COVID-19 Infection

In the setting of the public health catastrophe brought on by COVID with limited therapeutic interventions initially available, new and old therapies were evaluated to avert further death and disability. COVID-19 convalescent plasma (CCP) became one of the most common therapies early in the pandemic with more than 100,000 units distributed to hospitals every month just in the United States. However, limited data were available on the efficacy. Physician-scientists at Johns Hopkins noted that ...

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AI Gains Traction Enabling Repeat Genomic Analysis for Cancer Treatment Selection ❯
Rena Xian, M.D., M.S.
Rena Xian, M.D., M.S.

AI Gains Traction Enabling Repeat Genomic Analysis for Cancer Treatment Selection

Tumor next-generation sequencing has been widely adopted to guide personalized cancer treatment. As the landscape of biomarkers and targeted agents evolve, streamlined data reinterpretation using artificial intelligence reveal new therapeutic options.

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Pathology Evidence Sheds New Light on Loss of Smell in COVID-19 ❯
Cheng-Ying Ho, M.D., Ph.D.
Cheng-Ying Ho, M.D., Ph.D.

Pathology Evidence Sheds New Light on Loss of Smell in COVID-19

Loss of smell is an early and common presentation of COVID-19 infection. To determine the mechanism of COVID-19-associated smell dysfunction, Dr. Ho and her team collected olfactory bulb tissue from deceased COVID-19 and control patients. Olfactory bulb is a region of the brain that serves as the hub to receive and relay information regarding scents. Dr. Ho and her team observed more damage in axons (nerve processes) and small vessels in olfactory bulb of COVID-19 patients than that of contro...

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Spatial Analysis: Framework for Interrogating the Immune Landscape in Prostate Cancer ❯

Autopsy Pathology

Cardiovascular Pathology

Patil AH, Halushka MK. miRge3.0: a comprehensive microRNA and tRF sequencing analysis pipeline. NAR Genom Bioinform. 2021 Sept;3(3):lqab068.

Verma RX, Kannan S, Fox-Talbot K, McCall MN, Kwon C, Kass DA, Rosenberg AZ, Halushka MK. Single cell RNA-seq analysis of the flexor digitorum brevis mouse myofibers. Skelet Muscle 2021 May;11(1):13.

Looney MM, Lu Y, Karakousis PC, Halushka MK. Mycobacterium tuberculosis Infection Drives Mitochondria-Biased Dysregulation of Host Transfer RNA-Derived Fragments. J Infect Dis. 2021 May;223(10):1796-805

Jenike AE, Halushka MK. Review: miR-21: a non-specific biomarker of all maladies. Biomark Res 2021 Mar;9(1):18.

Clinical Chemistry

Xu Y, Zhang H. Review: Putting the pieces together: mapping the O-glycoproteome. Curr Opin Biotechnol. 2021 Oct;71:130-6

Song J, Sokoll LJ, Chan DW, Zhang Z. Validation of Serum Biomarkers That Complement CA19-9 in Detecting Early Pancreatic Cancer Using Electrochemiluminescent-Based Multiplex Immunoassays. Biomedicines 2021 Dec;9(12):1897

Dong M, Lih TM, Ao M, Hu Y, Chen SY, Eguez RV, Zhang H. Data-Independent Acquisition-Based Mass Spectrometry (DIA-MS) for Quantitative Analysis of Intact N-Linked Glycopeptides. Anal Chem 2021 Oct;93(41):13774-82

Jarrell AS, Crow JR, Strout SE, …, Lees L, Avery RK, Marzinke MA. Valganciclovir dosing for cytomegalovirus prophylaxis in solid organ transplant recipients on continuous veno-venous hemodialysis. Clin Infect Dis 2021 Jul;73(1):101-6.

Hopkins MR, Butcher MR, Martin KM, Small LR, Sokoll LJ. Quality Improvement in Critical Value Delivery at a Tertiary Care Center. J Appl Lab Med. 2021 Jul 7;6(4):985-91.

Gunsolus IL, Matias M, Prostko J, Mohr P, Sokoll LJ. Prevalence of Detectable Biotin in Five US Emergency Department Patient Cohorts. Clin Biochem. 2021 Jul;93:26-32.

Cho KC, Oh S, Wang Y, Rosenthal LS, Na CH, Zhang H. Evaluation of the Sensitivity and Reproducibility of Targeted Proteomic Analysis Using Data-Independent Acquisition for Serum and Cerebrospinal Fluid Proteins. J Proteome Res. 2021 Sep 3;20(9):4284-91.

Chen SY, Clark DJ, Zhang H. High-Throughput Analyses of Glycans, Glycosites, and Intact Glycopeptides Using C4-and C18/MAX-Tips and Liquid Handling System. Curr Protoc. 2021 Jul;1(7):e186.

Song J, Ma S, Sokoll LJ, Eguez RV, Höti N, Zhang H, Chan DW, Zhang Z. A panel of selected serum protein biomarkers for the detection of aggressive prostate cancer. Theranostics 2021 Apr;11(13):6214-24

Jimenez Valencia AM, Kryszak LA, Goheen J, Van Roy W, Woronoff G, Mathieu E, Gudjonsdottir H, Stakenborg T, Clarke WA. Rapid Quantification of Plasma Creatinine Using a Novel Kinetic Enzymatic Assay. J Appl Lab Med 2021 Apr;6(3):688-701

Huang C, Chen L, Savage SR, …, Chan DW, Zhang H, Zhang B; Clin Proteomic Tumor Analysis Consortium. Proteogenomic insights into the biology and treatment of HPV-negative head and neck squamous cell carcinoma. Cancer Cell 2021 Mar;39(3):361-79.e16

Cytopathology

Assarzadegan N, Thompson E, Salimian K, Gaida MM, Brosens LAA, Wood L, Ali SZ, Hruban RH. Review: Pathology of intraductal papillary mucinous neoplasms. Langenbecks Arch Surg. 2021 Dec;406(8):2643-55

Shyu S, Rajgariah A, Saoud C, Rogers N, Ali SZ. Image-guided lymph node fine-needle aspiration: the Johns Hopkins Hospital experience. J Am Soc Cytopathol. 2021 Nov-Dec;10(6):543-57

Maleki Z, Nadella A, Nadella M, Patel G, Patel S, Kholová I. Review: INSM1, a Novel Biomarker for Detection of Neuroendocrine Neoplasms: Cytopathologists' View. Diagnostics (Basel). 2021 Nov 23;11(12):2172

Heaphy CM, VandenBussche CJ. Prognostic biomarkers in pancreatic neuroendocrine tumors. Cancer Cytopathol. 2021 Nov;129(11):841-3

Ribeiro EA, Maleki Z. p16 immunostaining in cytology specimens: its application, expression, interpretation, and challenges. J Am Soc Cytopathol. 2021 Jul-Aug;10(4):414-22.

Wangsiricharoen S, Larman TC, Wakely PE Jr, Siddiqui MT, Ali SZ. Cytopathology of extra-renal perivascular epithelioid cell tumor (PEComa): a series of 7 cases and review of the literature. J Am Soc Cytopathol 2021 Mar-Apr;10(2):175-86

Allison DB, Wiles A, Maleki Z. Reply to Assessing the diagnostic accuracy for pleomorphic adenoma and Warthin tumor by employing the Milan System for Reporting Salivary Gland Cytopathology. Cancer Cytopathol 2021 May;129(5):406-

Wangsiricharoen S, Maleki Z. Risk stratification and clinical outcome in the atypia of undetermined significance category in the Milan System for Reporting Salivary Gland Cytopathology. Cancer Cytopathol. 2021 Feb;129(2):132-9

Miller DL, Ribeiro EA, Roy-Chowdhuri S, Illei PB, Siddiqui MT, Ali SZ. Renal medullary carcinoma involving serous cavity fluids: a cytomorphologic study of 12 cases. J Am Soc Cytopathol 2021 Mar-Apr;10(2):187-96.

Early CA, Wangsiricharoen S, Jones RM, VandenBussche CJ. Review of SMARCA4 (BRG1)-deficient carcinomas following a malignant pleural effusion specimen confounded by reduced claudin-4 expression. J Am Soc Cytopathol 2021:10(2):197-207

GI & Liver Pathology

Hoang G, Zhang C, Attarwala N, Jung JG, Cooper AJL, Le A. Uncovering metabolic reservoir cycles in MYC-transformed lymphoma B cells using stable isotope resolved metabolomics. Anal Biochem 2021 Nov;632:114206

Guo S, Zhang C, Le A. Review: The limitless applications of single-cell metabolomics. Curr Opin Biotechnol. 2021 Oct;71:115-22

Biller LH, Wolpin BM, Goggins M. Review: Inherited Pancreatic Cancer Syndromes and High-Risk Screening. Surg Oncol Clin N Am 2021 Oct;30(4):773-86

Assarzadegan N, Thompson E, Salimian K, Gaida MM, Brosens LAA, Wood L, Ali SZ, Hruban RH. Review: Pathology of intraductal papillary mucinous neoplasms. Langenbecks Arch Surg. 2021 Dec;406(8):2643-55

Zhou C, Porter N, Borges M, …, Nanda N, He J, Laheru D, Hruban RH, Goggins M, Klein AP, Roberts NJ. Examination of ATM, BRCA1, and BRCA2 promoter methylation in patients with pancreatic cancer. Pancreatology 2021 Aug;21(5):938-41

Roberts NJ, …, Familial Pancreatic Cancer Genome Sequencing Project. Germline sequence analysis of RABL3 in a large series of pancreatic ductal adenocarcinoma patients reveals no evidence of deleterious variants. Genes Chrmsmes Cncr 2021 Aug;60(8):559-64

Noë M, Hong SM, Wood LD, Thompson ED, Roberts NJ, Goggins MG, Klein AP, Eshleman JR, Kern SE, Hruban RH. Review: Pancreatic cancer pathology viewed in the light of evolution. Cancer Metastasis Rev. 2021 Sep;40(3):661-74

Fujikura K, Alruwaii ZI, Haffner MC, …, Roberts NJ, …, Macgregor-Das A, Goggins MG, …, Meeker AK, …, Hruban RH, Wood LD. Downregulation of 5-hydroxymethylcytosine is an early event in pancreatic tumorigenesis. J Pathol 2021 Jul;254(3):279-88

Gulla A, Kazlauskas E, Liang H, Strupas K, Petrauskas V, Matulis D, Eshleman JR. Heat Shock Protein 90 Inhibitor Effects on Pancreatic Cancer Cell Cultures. Pancreas. 2021 Apr;50(4):625-32.

Fujikura K, Hosoda W, …, Roberts NJ, Thompson ED, … Wood LD. Multiregion whole-exome sequencing of intraductal papillary mucinous neoplasms reveals frequent somatic KLF4 mutations predominantly in low-grade regions. Gut 2021 May;70(5):928-39.

Chen T, Zeineldin M, Johnson BA, Dong Y, Narkar A, Li T, Zhu J, Li R, Larman TC. Colonic epithelial adaptation to EGFR-independent growth induces chromosomal instability and is accelerated by prior injury. Neoplasia 2021 May;23(5):488-501.

Gynecologic Pathology

Yang JM, Chi WY, Liang J, Takayanagi S, Iglesias PA, Huang CH. Deciphering cell signaling networks with massively multiplexed biosensor barcoding. Cell 2021 Dec;184(25):6193-6206.e14

MacDonald A, Wu TC, Hung CF. Review: Interleukin 2-Based Fusion Proteins for the Treatment of Cancer. J Immunol Res 2021 Nov;2021:7855808

MacDonald A, Lam B, Lin J, Ferrall L, Kung YJ, Tsai YC, Wu TC, Hung CF. Delivery of IL-2 to the T Cell Surface Through Phosphatidylserine Permits Robust Expansion of CD8 T Cells. Front Immunol 2021 Nov;12:755995

Lam B, Kung YJ, …, Bloch EM, Tobian AAR, Milstone AM, Roden RBS, Wu TC, Hung CF. In vivo characterization of emerging SARS-CoV-2 variant infectivity and human antibody escape potential. Cell Rep 2021 Oct;37(3):109838

Chuang YM, He L, Pinn ML, Tsai YC, Cheng MA, Farmer E, Karakousis PC, Hung CF. Albumin fusion with granulocyte-macrophage colony-stimulating factor acts as an immunotherapy against chronic tuberculosis. Cell Mol Immunol 2021 Oct;18(10):2393-401

Tseng SH, Liu L, Peng S, Kim J, Ferrall L, Hung CF, Wu T-C. Control of Spontaneous HPV16 E6/E7 Expressing Oral Cancer in HLA-A2 (AAD) Transgenic Mice with Therapeutic HPV DNA Vaccine. J Biomed Sci 2021 Sep 13;28(1):63.

Mao CP, Wang SC, Su YP, Tseng SH, He L, Wu AA, Roden RBS, Xiao J, Hung CF. Protein detection in blood with single-molecule imaging. Sci Adv 2021 Aug 11;7(33):eabg6522

Henkle TR, Lam B, Kung YJ, Lin J, Tseng SH, Ferrall L, Xing D, Hung CF, Wu TC. Development of a novel mouse model of spontaneous high-risk HPVE6/E7-expressing carcinoma in the cervicovaginal tract. Cancer Res. 2021 Sep;81(17):4560-9.

Anchoori RK, George L, …, Das S, Xing D, Bin Salam A, Karanam B, Hung CF, Roden RBS. Chirality and asymmetry increase the potency of candidate ADRM1/RPN13 inhibitors. PLoS One. 2021 Sep 10;16(9):e0256937.

Xing D, Adams E, Huang J, Ronnett BM. Refined diagnosis of hydatidiform moles with p57 immunohistochemistry and molecular genotyping: updated analysis of a prospective series of 2217 cases. Mod Pathol 2021 May;34(5):961-82

Tseng SH, Lam B, Kung YJ, Lin J, Liu L, Tsai YC, Ferrall L, Roden RBS, Wu TC, Hung CF. A novel pseudovirus-based mouse model of SARS-CoV-2 infection to test COVID-19 interventions. J Biomed Sci 2021 Apr;28(1):34

Peng S, Tan M, …, Roden RBS, Hung CF, Wu TC. PD-1 blockade synergizes with intratumoral vaccination of a therapeutic HPV protein vaccine and elicits regression of tumor in a preclinical model. Cancer Immunol Immunother 2021 Apr;70(4):1049-62

Kang TH, …, Hung CF. Targeted tumor coating with antigenic, CTL-recognizable peptides via Annexin A5 chimeric constructs following chemotherapy redirects adaptive CD8+ T cell immunity for tumor clearance. Cell Mol Immunol 2021 Jun;18(6):1578-80

Liu Y, …, Vang R, Hung CF, Wu TC, Ronnett BM, Xing D. Coexistence of Conventional Leiomyoma, Fumarate Hydratase-deficient Atypical Leiomyoma, and Perivascular Epithelioid Cell Tumor in a Uterus: A Case Study. Int J Gynecol Pathol 2021 Mar;40(2):134-40.

Hematopathology

Immunology

Pani F, Yasuda Y, Di Dalmazi G, Chalan P, Gabrielson K, Adamo L, Sabini E, Mariotti S, Caturegli P. Pre-existing Thyroiditis Ameliorates Papillary Thyroid Cancer: Insights From a New Mouse Model. Endocrinology 2021 Oct;162(10):bqab144

Monaco DR, Kottapalli SV, Breitwieser FP, Anderson DE, Wijaya L, Tan K, Chia WN, Kammers K, Caturegli P, ..., Wang LF, Larman HB. Deconvoluting virome-wide antibody epitope reactivity profiles. EBioMedicine 2021 Dec ;75:103747

Ippolito S, Di Dalmazi G, Pani F, Sabini E, Caturegli P. Distinct cytokine signatures in thyroiditis induced by PD-1 or CTLA-4 blockade: insights from a new mouse model. Thyroid 2021 Dec;31(12):1839-49

Bracamonte-Baran W, Gilotra NA, ..., Anders RA, Zhu Q, Halushka MK, Brandacher G, Čiháková D. Endothelial Stromal PD-L1 (Programmed Death Ligand 1) Modulates CD8+ T-Cell Infiltration After Heart Transplantation. Circ Heart Fail 2021 Oct;14(10):e007982

Silverberg JI, Zyskind I, …, Frank E, Rosenberg AZ. Association of Varying Clinical Manifestations and Positive Anti-SARS-CoV-2 IgG Antibodies: A Cross-Sectional Observational Study. J Allergy Clin Immunol Pract 2021 Sep;9(9):3331-8.e2

Román-Meléndez GD, Monaco DR, Montagne JM, …, Darrah E, Larman HB. Citrullination of a phage-displayed human peptidome library reveals the fine specificities of rheumatoid arthritis-associated autoantibodies. EBioMedicine 2021 Sep;71:103506.

Cooper LT Jr, Čiháková D. Editorial: Do Genes Influence Susceptibility to Myocarditis? JACC Basic Transl Sci. 2021 Jul 26;6(7):593-4.

Čiháková D, Streiff MB, Menez SP, …, Marr KA, Karaba AH, Robinson ML, Blair PW, Dioverti MV, Post WS, Cox AL, R Antar AA. High-value laboratory testing for hospitalized COVID-19 patients: a review. Future Virol 2021 Sep:10.2217/fvl-2020-0316

Sadegh-Nasseri S. Review: Partnering for the major histocompatibility complex class II and antigenic determinant requires flexibility and chaperons. Curr Opin Immunol 2021 Jun;70:112-21

Morgenlander WR, …, Bloch EM, …, Quinn TC, Eshleman SH, …, Laeyendecker O, … Tobian AA, Larman HB. Antibody responses to endemic coronaviruses modulate COVID-19 convalescent plasma functionality. J Clin Invest 2021 Apr;131(7):e146927

Howard BM, Kuh A, Rezavi L, Caturegli P. A Comparison of gel (Hydragel 30) and capillary (Capillarys III Tera) electrophoresis for the characterization of human serum proteins. Pract Lab Med. 2021 Apr 29;25:e00233

Guan J, Peske JD, Taylor JA, Shastri N. Review: The nonclassical immune surveillance for ERAAP function. Curr Opin Immunol 2021 Jun;70:105-11

Chalan P, Thomas N, Caturegli P. Th17 Cells Contribute to the Pathology of Autoimmune Hypophysitis. J Immunol. 2021 Jun 1;206(11):2536-43

Zyskind I, Rosenberg AZ, …, Stok D, Frank E, Silverberg JI. SARS-CoV-2 Seroprevalence and Symptom Onset in Culturally Linked Orthodox Jewish Communities Across Multiple Regions in the United States. JAMA Netw Open. 2021 Mar;4(3):e212816

Monaco DR, Sie BM, Nirschl TR, …, Wood RA, Hamilton RG, Frischmeyer-Guerrerio PA, Larman HB. Profiling serum antibodies with a pan allergen phage library identifies key wheat allergy epitopes. Nat Commun 2021 Jan;12(1):379

Informatics

Medical Microbiology

Yee R, Fisher S, Bergman Y, Chambers KK, Tamma PD, Carroll KC, Simner PJ. Combined selective culture and molecular methods for the detection of carbapenem-resistant organisms from fecal specimens. Eur J Clin Microbiol Infect Dis 2021 Nov;40(11):2315-21

Tamma PD, Beisken S, Bergman Y, Posch AE, Avdic E, Sharara SL, Cosgrove SE, Simner PJ. Modifiable Risk Factors for the Emergence of Ceftolozane-Tazobactam Resistance. Clin Infect Dis 2021 Dec;73(11):e4599-e4606

Mizusawa M, Carroll KC. The future of Clostridioides difficile diagnostics. Curr Opin Infect Dis 2021 Oct;34(5):483-90

Gammel N, Ross TL, ... Carroll KC. Comparison of an Automated Plate Assessment System (APAS Independence) and AI to Manual Plate Reading of Methicillin-Resistant & Methicillin-Susceptible Staphylococcus aureus.... J Clin Microbiol 2021 Oct;59(11):e0097121

Carroll KC, Burnham CD, Westblade LF. From canines to humans: Clinical importance of Staphylococcus pseudintermedius. PLoS Pathog 2021 Dec;17(12):e1009961

Armstrong DT, Tacheny EA, Olinger G, Howard R, Lemmon MM, Dasgupta D, Eisemann E, Parrish N. SARS-CoV-2 Supply Shortages and Tuberculosis Diagnostics: Current Issues Requiring Immediate Solutions. J Clin Microbiol 2021 Nov;59(12):e0077821

Gniazdowski V, Morris CP,…, Carroll KC, Pekosz A, Mostafa HH. Repeated COVID 2019 Molecular Testing: Correlation of Severe Acute Respiratory Syndrome Coronavirus 2 Culture With Molecular Assays and Cycle Thresholds. Clin Infect Dis 2021 Aug;73(4):e860-9

Zhang SX, et all for: Fungal Diagnostics Laboratories Consortium (FDLC). Recognition of Diagnostic Gaps for Laboratory Diagnosis of Fungal Diseases: Expert Opinion from the FDLC. J Clin Microbiol 2021 Jun;59(7):e0178420

Yee R, Dien Bard J, Simner PJ. Review: The Genotype-to-Phenotype Dilemma: How Should Laboratories Approach Discordant Susceptibility Results? J Clin Microbiol 2021 May;59(6):e00138-20.

Tamma PD, Smith TT, Adebayo A, Karaba SM, Jacobs E, Wakefield T, Nguyen K, Whitfield NN, Simner PJ. Prevalence of blaCTX-M Genes in Gram-Negative Bloodstream Isolates across 66 Hospitals in the United States. J Clin Microbiol. 2021 May;59(6):e00127-21.

Munson E, Carroll KC. Review: Summary of Novel Bacterial Isolates Derived from Human Clinical Specimens and Nomenclature Revisions Published in 2018 and 2019. J Clin Microbiol 2021 Jan;59(2):e01309-20

Mizusawa M, Totten M, Zhang SX. A Case of Scedosporium aurantiacum Infection in the United States. Mycopathologia 2021 Mar;186(1):127-30.

Mostafa HH, Carroll KC, …, Weir F, Loeffelholz MJ. Multi-center Evaluation of the Cepheid Xpert® Xpress SARS-CoV-2/Flu/RSV Test. J Clin Microbiol 2021 Mar;59(3):e02955-20

Molecular Pathology

Xian RR, Kinyera T, Otim I, Sampson JN, Nabalende H, Legason ID, Stone J, Ogwang MD, Reynolds SJ, ..., Ambinder RF. Plasma EBV DNA: A Promising Diagnostic Marker for Endemic Burkitt Lymphoma. Front Oncol 2021 Dec;11:804083

Tully E, Bharti S, Woo J, Bhujwalla Z, Gabrielson E. Biguanide drugs enhance cytotoxic effects of cisplatin by depleting aspartate and NAD+ in sensitive cancer cells. Cancer Biol Ther 2021 Dec;22(10-12):579-86

Huang J, Tseng LH, Parini V, Lokhandwala PM, Pallavajjala A, Rodriguez E, Xian R, Chen L, Gocke CD, Eshleman JR, Lin MT. IDH1 and IDH2 Mutations in Colorectal Cancers. Am J Clin Pathol. 2021 Oct 13;156(5):777-86

Halper-Stromberg E, McCall CM, …, Gocke CD, Eshleman JR, …, Xian RR. CloneRetriever: An Automated Algorithm to ID Clonal B &T Cell Gene Rearrangements by Next-Gen Sequencing for the Dx of Lymphoid Malignancies. Clin Chem 2021 Nov;67(11):1524-33

Vogt SL, Patel M, …, Wagner-Johnston N, Gocke CD, …, Ambinder RF, Xian RR. Feasibility of cell-free DNA collection and clonal immunoglobulin sequencing in South African patients with HIV-associated lymphoma. JCO Glob Oncol 2021 Apr;7:611-21

Neuropathology

Helmi HA, Alkatan HM, Al-Essa RS, Aljudi TW, Maktabi AMY, Eberhart CG. Choroidal hemangioma in Sturge Weber syndrome: Case series with confirmed tissue diagnosis. Int J Surg Case Rep 2021 Dec;89:106626

Butcher M, ..., Carroll KC, Salzberg SL, Nauen DW. Rapidly fatal infection w/ Bacillus cereus/thuringiensis: genome assembly of the responsible pathogen & consideration of possibly contributing toxins. Diagn Microbiol Infect Dis 2021 Dec;101(4):115534

Wang S, Latallo MJ, Zhang Z, …, Tjoeng W, Hayes LR, Rothstein JD, Ostrow LW, Wu B, Sun S. Nuclear export and translation of circular repeat-containing intronic RNA in C9ORF72-ALS/FTD. Nat Commun. 2021 Aug 13;12(1):4908

Lee JK, Liu D, …, Martin LJ. Fractional anisotropy from diffusion tensor imaging correlates with acute astrocyte and myelin swelling in neonatal swine models of excitotoxic and hypoxic-ischemic brain injury. J Comp Neurol. 2021 Jul;529(10):2750-70.

Yuan M, White D, Resar L, Bar E, …, Bynum J, Rubens J, Mumm J, Chen L, Jiang L, Raabe E, Rodriguez F, Eberhart CG. Conditional reprograming culture conditions facilitate growth of lower grade glioma models. Neuro Oncol 2021 May;23(5):770-82

Nauen DW, Hooper JE, Stewart CM, Solomon IH. Research letter: Assessing Brain Capillaries in Coronavirus Disease 2019. JAMA Neurol 2021 Jun;78(6):760-2.

Nakata S, Yuan M, Rubens JA, Kahlert UD, Maciaczyk J, Raabe EH, Eberhart CG. BCOR Internal Tandem Duplication Expression in Neural Stem Cells Promotes Growth, Invasion, and Expression of PRC2 Targets. Int J Mol Sci 2021 Apr;22(8):3913.

Chen MW, Santos P, Kulikowicz E, Koehler RC, Lee JK, Martin LJ. Targeting the mitochondrial permeability transition pore for neuroprotection in a piglet model of neonatal hypoxic-ischemic encephalopathy. J Neurosci Res 2021 Jun;99(6):1550-64.

Chavez-Valdez R, Lechner C, Emerson P, Northington FJ, Martin LJ. Accumulation of PSA-NCAM marks nascent neurodegeneration in the dorsal hippocampus after neonatal hypoxic-ischemic brain injury in mice. J Cereb Blood Flow Metab 2021 May;41(5):1039-57

Zaepfel BL, Zhang Z, Maulding K, Coyne AN, Cheng W, Hayes LR, Lloyd TE, Sun S*, Rothstein JD*. UPF1 reduces C9orf72 HRE-induced neurotoxicity in the absence of nonsense-mediated decay dysfunction. Cell Rep. 2021 Mar 30;34(13):108925

Nix JS, Yuan M, Imada EL, Ames H, Marchionni L, Gutmann DH, Rodriguez FJ. Global microRNA profiling identified miR-10b-5p as a regulator of neurofibromatosis 1 (NF1)-glioma migration. Neuropathol Appl Neurobiol 2021 Feb;47(1):96-107

Martin LJ, Niedzwiecki MV, Wong M. Chronic Intermittent Mild Whole-Body Hypothermia Is Therapeutic in a Mouse Model of ALS. Cells 2021 Feb;10(2):320.

Lee JK, …, Koehler RC, Martin LJ. Combining Hypothermia and Oleuropein Subacutely Protects Subcortical White Matter in a Swine Model of Neonatal Hypoxic-Ischemic Encephalopathy. J Neuropathol Exp Neurol 2021 Jan;80(2):182-98.

Ophthalmic Pathology

Peterson C, Moore R, Hicks JL, Morsberger LA, De Marzo AM, Zou Y, Eberhart CG, Campbell AA. NGS Analysis Confirms Common TP53 and RB1 Mutations, and Suggests MYC Amplification in Ocular Adnexal Sebaceous Carcinomas. Int J Mol Sci 2021 Aug;22(16):8454.

Peterson C, Kim YC, Ensign LM, Jun AS, Foster J. Induction of the integrated stress response in the rat cornea. Exp Eye Res. 2021 Sep;210:108722

Moore RF, Zhang XR, Allison DB, Rooper LM, Campbell AA, Eberhart CG. High-risk human papillomavirus and ZEB1 in ocular adnexal sebaceous carcinoma. J Cutan Pathol 2021 Aug;48(8):1027-33.

Zhou L, Xu Z, Guerra J, Rosenberg AZ, Fenaroli P, Eberhart CG*, Duh EJ*. Expression of the SARS-CoV-2 Receptor ACE2 in Human Retina and Diabetes-Implications for Retinopathy. Invest Ophthalmol Vis Sci. 2021 Jun;62(7):6

Suller AL, Parikh RN, Zhao J, Mahoney NR, Campbell AA, Siadati S, Eberhart CG, Fu, R. Chocolate Cysts Associated With Porous Polyethylene Orbital Implants. Ophthalmic Plast Reconstr Surg 2021 Mar-Apr;37(2):e75-e80.

Surgical Pathology

White MJ, Vang R, Argani P, Cimino-Mathews A. Endosalpingiosis Is Negative for GATA3. Arch Pathol Lab Med 2021 Nov;145(11):1448-52

Wangsiricharoen S, ...., Matoso A, Argani P. Review: ALK-rearranged Renal Cell Carcinoma (RCC): A Report of 2 Cases & Review of the Literature Emphasizing the Distinction Between VCL-ALK and Non- VCL-ALK RCC. Int J Surg Pathol 2021 Oct;29(7):808-14

Tower RJ, Li Z, …, James AW, Clemens TL. Spatial transcriptomics reveals a role for sensory nerves in preserving cranial suture patency through modulation of BMP/TGF-β signaling. PNAS USA 2021 Oct;118(42):e2103087118

Rooper LM, …, Bishop JA. Salivary Mucinous Adenocarcinoma - Histologically Diverse Single Entity W/ Recurrent AKT1 E17K Mutations: Clinicopathologic & Molec Characterization w/ Proposal for a Unified Clssifiction. Am J Surg Pathol 2021 Oct;45(10):1337-47

Rooper LM, Agaimy A…, Weinreb I, Bishop JA. DEK-AFF2 Carcinoma of the Sinonasal Region and Skull Base: Detailed Clinicopathologic Characterization of a Distinctive Entity. Am J Surg Pathol 2021 Dec;45(12):1682-93

Hsu GC, Cherief M, Sono T, Wang Y, Negri S, Xu J, Peault B, James AW. Divergent effects of distinct perivascular cell subsets for intra-articular cell therapy in posttraumatic osteoarthritis. J Orthop Res 2021 Nov;39(11):2388-97

Argani P, ..., Anders RA, ..., Kwon R, Voltaggio L,..., Oshima K, Rooper L, Matoso A, ..., Antonescu CR. A Novel NIPBL-NACC1 Gene Fusion is Chrctristc of Cholangioblastic Variant of Intrahepatic Cholangiocarcinoma. Am J Surg Pathol 2021 Nov;45(11):1550-60

White MJ, …, Thompson ED. Continuing Undergraduate Pathology Medical Education in the Coronavirus Disease 2019 (COVID-19) Global Pandemic: The Johns Hopkins Virtual Surgical Pathology Clinical Elective. Arch Pathol Lab Med. 2021 Jul 1;145(7):814-20.

Lee S, Hwang C, …, Cederna PS, Kemp SWP, Clemens TL, James AW, Levi B. NGF-TrkA signaling dictates neural ingrowth and aberrant osteochondral differentiation after soft tissue trauma. Nat Commun Aug 2021;12(1):4939

Rooper LM, …, Bishop JA, Westra WH. The Decline of Salivary Adenocarcinoma Not Otherwise Specified as a Tumor Entity: Reclassification Using Contemporary Immunohistochemical Profiling and Diagnostic Criteria. Am J Surg Pathol 2021 Jun;45(6):753-64.

Rooper LM, Lombardo KA, Oliai BR, Ha PK, Bishop JA. MYB RNA In Situ Hybridization Facilitates Sensitive and Specific Diagnosis of Adenoid Cystic Carcinoma Regardless of Translocation Status. Am J Surg Pathol 2021 Apr;45(4):488-97.

Negri S, Wang Y, Sono T, Qin Q, Hsu GC, ..., Tower RJ, Yu V, Piplani A, Meyers CA, Broderick K, Lee M, James AW. Systemic DKK1 neutralization enhances human adipose-derived stem cell mediated bone repair. Stem Cells Transl Med 2021 Apr;10(4):610-22

Lee CS, Hsu GC, Sono T, Lee M, James AW. Development of a Biomaterial Scaffold Integrated with Osteoinductive Oxysterol Liposomes to Enhance Hedgehog Signaling and Bone Repair. Mol Pharm 2021 Apr;18(4):1677-89.

Banet N, Shahi M, Batista D, Yonescu R, Tanner EJ, Fader AN, Cimino-Mathews A. HER-2 Amplification in Uterine Serous Carcinoma and Serous Endometrial Intraepithelial Carcinoma. Am J Surg Pathol. 2021 May 1;45(5):708-15.

Argani P, Lian DWQ, Agaimy A, Metzler M, Wobker SE, Matoso A, Epstein JI, Sung YS, Zhang L, Antonescu CR. Pediatric Mesothelioma With ALK Fusions: A Molecular and Pathologic Study of 5 Cases. Am J Surg Pathol. 2021 May 1;45(5):653-61.

Rooper LM, Thompson LDR, Gagan J, Oliai BR, Weinreb I, Bishop JA. Salivary Intraductal Carcinoma Arising within Intraparotid Lymph Node: A Report of 4 Cases with Identification of a Novel STRN-ALK Fusion. Head Neck Pathol 2021 Mar;15(1):179-85.

Rooper LM. Emerging Entities in Salivary Pathology: A Practical Review of Sclerosing Microcystic Adenocarcinoma, Microsecretory Adenocarcinoma, and Secretory Myoepithelial Carcinoma. Surg Pathol Clin 2021 Mar;14(1):137-50

Transfusion Medicine

Jackson AM, Amato-Menker C, Bettinotti M. Review: Cell-free DNA diagnostics in transplantation utilizing next generation sequencing. Hum Immunol. 2021 Nov;82(11):850-8

Shah SK, …, McCarthy K, Fowler MG. Review: Ethically designing research to inform multidimensional, rapidly evolving policy decisions: Lessons learned from the PROMISE HIV Perinatal Prevention Trial. Clin Trials 2021 Dec;18(6):681-9

Marzinke MA, …, Fogel JM, Piwowar-Manning E, …, Eshleman SH. Characterization of HIV Infection in Cisgender Men & Transgender Women Who Have Sex With Men Receiving Injectable Cabotegravir for HIV Prevention: HPTN 083. J Infect Dis 2021 Nov;224(9):1581-92

Loevinsohn G, Kigozi G, …, Tobian AAR, Gray RH, Grabowski MK; Rakai Health Sciences Program. Effectiveness of Voluntary Medical Male Circumcision for HIV Prevention in Rakai, Uganda. Clin Infect Dis 2021 Oct;73(7):e1946-e53

Heaney CD, …, Pekosz A, Bloch EM*, Tobian AAR*. Comparative performance of multiplex salivary and commercially available serologic assays to detect SARS-CoV-2 IgG and neutralization titers. J Clin Virol 2021 Dec;145:104997

Grant-McAuley W, …, Piwowar-Manning E, … Clarke W, Breaud A, …, Eshleman SH; HPTN 071 (PopART) Study Team. Evaluation of multi-assay algorithms for identifying individuals w/ recent HIV infection. PLoS One. 2021 Dec;16(12):e0258644.

Goel R, Zhu X, Patel EU, Crowe EP, Ness PM, Katz LM, Bloch EM, Tobian AAR. Blood transfusion trends in the United States: national inpatient sample, 2015 to 2018. Blood Adv 2021 Oct;5(20):4179-84

Brophy JE, Lessler J, …, Kagaayi J, Grabowski MK. Prevalence of untreated HIV and associated risk behaviors among the sexual partners of recent migrants and long-term residents in Rakai, Uganda. J Acquir Immune Defic Syndr 2021 Nov;88(3):243-51

Bloch EM, Tobian AAR, Katz LM. Powassan virus: What is the risk to the blood supply? Transfusion 2021 Dec;61(12):3286-8

Sivay MV, …, Eshleman SH. HIV Drug Resistance, Phylogenetic Analysis, and Superinfection Among Men Who Have Sex with Men and Transgender Women in Sub-Saharan Africa: HIV Prevention Trials Network (HPTN) 075 Study. Clin Infect Dis. 2021 Jul 1;73(1):60-7.

Petersen MR, Patel EU, Grabowski MK, Gaydos CA, Quinn TC, Tobian AAR. Seroprevalence of Chlamydia trachomatis Among Female Adults in the United States: The National Health and Nutrition Examination Surveys. Clin Infect Dis 2021 Aug 2;73(3):e629-e637.

Petersen MR, Cosgrove SE, Klein EY, Zhu X, Quinn TC, Patel EU, Grabowski MK, Tobian AAR. Clostridioides difficile Prevalence in the United States: National Inpatient Sample, 2016 to 2018. Open Forum Infect Dis. 2021 Jul 30;8(9):ofab409.

Goel R, Zhu X, …, Austin R, Crowe EP, Ness PM, Gehrie EA, Frank SM, Bloch EM, Tobian AAR. Blood transfusions in gunshot-wound-related emergency department visits and hospitalizations in the United States. Transfusion 2021 Aug;61(8):2277-89

Bloch EM, Patel EU, …, Gehrie EA, Redd AD, Quinn TC, Casadevall A, Pekosz A, Tobian AAR. ABO blood group and SARS-CoV-2 antibody response in a convalescent donor population. Vox Sang 2021 Aug;116(7):766-73.

Rositch AF, …, Tobian AAR. Importance of Lifetime Sexual History on the Prevalence of Genital Human Papillomavirus (HPV) Among Unvaccinated Adults in the National Health and Nutrition Examination Surveys. Clin Infect Dis. 2021 May;72(9):e272-9

Petersen MR, Patel EU, Abraham AG, Quinn TC, Tobian AAR. Changes in Cytomegalovirus Seroprevalence Among U.S. Children Aged 1-5 Years: The National Health and Nutrition Examination Surveys. Clin Infect Dis. 2021 May;72(9):e408-e11

Durand CM, …, Tobian AAR*, Segev DL*; HOPE in Action Investigators. A prospective multicenter pilot study of HIV-positive deceased donor to HIV-positive recipient kidney transplantation: HOPE in action. Am J Transplant 2021 May;21(5):1754-64

Crowe EP, Goel R, Andrews J, Meyer EK, Wong TE, Sloan SR, Delaney M, Lieberman L, Cushing MM. Survey of newborn direct antiglobulin testing practice in United States and Canadian transfusion services. Transfusion. 2021 Apr;61(4):1080-92.

Bhattacharya D, …, Fowler MG. Hepatotoxicity and Liver-Related Mortality in Women of Child-Bearing Potential Living With HIV and High CD4 Counts Initiating Efavirenz-Containing Regimens. Clin Infect Dis 2021 Apr;72(8):1342-9.

Grabowski MK, Patel EU, Nakigozi G, …, Kagaayi J, Tobian AAR, Reynolds SJ. Prevalence and predictors of persistent HIV viremia and viral rebound following universal test and treat: a population-based study. J Infect Dis. 2021 Apr 8;223(7):1150-60.

Zhang Y, …, Grabowski MK, …, Eshleman SH. Evaluation of Phylogenetic Methods for Inferring the Direction of Human Immunodeficiency Virus (HIV) Transmission: HIV Prevention Trials Network (HPTN) 052. Clin Infect Dis 2021 Jan;72(1):30-7

Redd AD, …, Bloch EM, …., Quinn TC, Tobian AAR. CD8+ T-Cell Responses in COVID-19 Convalescent Individuals Target Conserved Epitopes From Multiple Prominent SARS-CoV-2 Circulating Variants. Open Forum Infect Dis 2021 Mar;8(7):ofab143

Patel EU, Bloch EM,…,Tobian AAR*, Laeyendecker O*. Comparative performance of five commercially available serologic assays to detect antibodies to SARS-CoV-2 and identify individuals with high neutralizing titers. J Clin Microbiol 2021 Jan;59(2):e02257

Palumbo PJ,…, Eshleman SH. Uptake of antiretroviral treatment and viral suppression among men who have sex with men and transgender women in sub-Saharan Africa in an observational cohort study: HPTN 075. Int J Infect Dis 2021 Mar;104:465-70.

Kared H, Redd AD, Bloch EM, …, Bettinotti MP, …, Pekosz A, Nardin A, Fehlings M, Tobian AA, Quinn TC. SARS-CoV-2-specific CD8+ T cell responses in convalescent COVID-19 individuals. J Clin Invest 2021 Mar;131(5):e145476

Casadevall A, Tobian AAR. Commentary: Convalescent plasma for COVID-19 - encouraging signals of efficacy (commentary). Br J Haematol 2021 Feb;192(4):681-2

Bonny TS, …, Bloch EM, Grabowski MK, …, Laeyendecker O, Shoham S, Sullivan D, Quinn TC, Casadevall A, Pekosz A, Redd AD, Tobian AAR. Cytokine and chemokine levels in COVID-19 convalescent plasma. Open Forum Infect Dis. 2021 Feb;8(2):ofaa574

Bloch EM, Goel R, Montemayor C, Cohn C, Tobian AAR. Promoting access to COVID-19 convalescent plasma in low- and middle-income countries. Transfus Apher Sci. 2021 Feb;60(1):102957

Bloch EM, Crowe EP, Tobian AAR. Commentary: Coronavirus Disease 2019 Convalescent Plasma and the Severe Acute Respiratory Syndrome Coronavirus 2 Neutralizing Titer. J Infect Dis. 2021 March;223(1):740-42

Blagg LN, Hruban RH, Gehrie EA. A Department-Sponsored, Hospital-Based Pathology Education Symposium Is a Cost-Effective Method to Provide Laboratory Staff With Highly Rated Continuing Education Experiences. Arch Pathol Lab Med 2021 Feb;145(2):231-9

Urologic/Kidney Pathology

Samarska IV, Dani H, Bivalacqua TJ, Burnett AL, Matoso A. Histopathologic and clinical comparison of recurrent and non-recurrent urethral stricture disease treated by reconstructive surgery. Transl Androl Urol 2021;10(10):3714-22. Open access

Pan CC, Epstein JI. Correspondence: Reexamining the molecular findings in specialized stromal tumors of the prostate. Mod Pathol 2021 Nov;34(11):2080-1

Markowski MC, Sfanos KS. Editorial: The interplay of microbiota and hormone regulation in men with prostate cancer. Prostate Cancer Prostatic Dis 2021 Dec;24(4):935-6

Hoffman-Censits J, Lombardo K, McConkey D, Hahn NM, Bashir B, Kelly WK, Johnson B, Matoso A. New and topics: enfortumab vedotin mechanisms of response and resistance in urothelial cancer - What do we understand so far? Urol Oncol 2021 Oct;39(10):619-22

Asrani K, Torres AF, ..., Yegnasubramanian S, De Marzo AM, Nelson PS, Haffner MC, Lotan TL. Reciprocal YAP1 loss and INSM1 expression in neuroendocrine prostate cancer. J Pathol 2021 Dec;255(4):425-37

Shrestha E, …, Maynard JP, Meeker AK, Heaphy CM, Haffner MC, De Marzo AM, Sfanos KS. Oncogenic gene fusions in nonneoplastic precursors as evidence that bacterial infection can initiate prostate cancer. Proc Natl Acad Sci USA 2021 Aug;118(32):e2018976118

Matoso A, Parimi V, Epstein JI. Noninvasive low-grade papillary urothelial carcinoma with degenerative nuclear atypia: a grading pitfall. Hum Pathol. 2021 Jul;113:1-8.

Hoffman-Censits JH…, Kates M, Matoso A. Expression of Nectin-4 in Bladder Urothelial Carcinoma, in Morphologic Variants, and Nonurothelial Histotypes. Appl Immunohistochem Mol Morphol. 2021 Sep 1;29(8):619-25

Epstein JI. Editorial: Very low-risk versus low-risk prostate cancer: A distinction worth keeping. Prostate 2021 Sep;81(13):923-5.

Vidal I, Zheng Q, …, Sfanos KS, …, Maynard JP, …, Nelson WG, Yegnasubramanian S, De Marzo AM. GSTP1 positive prostatic adenocarcinomas are more common in Black than White men in the United States. PLoS One 2021 Jun;16(6):e0241934

Uner M, Alhasson B, Obhrai J, Bagnasco SM. ANCA-associated pauci-immune necrotizing glomerulonephritis during the treatment with pembrolizumab. 2021 Apr;478(4):801-4.

Lotan TL, Kaur HB, Salles DC, Murali S, …, Richardson AL, …, Timms KM, Antonarakis ES. Homologous recombination deficiency (HRD) score in germline BRCA2- versus ATM-altered prostate cancer. Mod Pathol. 2021 Jun;34(6):1185-93.

Kwon R, Argani P, Epstein JI, Lombardo KA, Wang X, Pierorazio PM, Mehra R, Matoso A. Contemporary Characterization and Recategorization of Adult Unclassified Renal Cell Carcinoma. Am J Surg Pathol 2021 Apr;45(4):450-62.

Hong X*, Rosenberg AZ*, Zhang B, Binns-Roemer E, …, Wang X, Winkler CA. Joint Associations of Maternal-Fetal APOL1 Genotypes and Maternal Country of Origin With Preeclampsia Risk. Am J Kidney Dis 2021 Jun;77(6):879-88.e1

Hoffman-Censits J, Choi W, Bivalacqua TJ, …, Hahn N, Matoso A. Small Cell Bladder Cancer Response to Second-line and Beyond Checkpoint Inhibitor Therapy: Retrospective Experience. Clin Genitourin Cancer. 2021 Apr;19(2):176-81.

Gupta R, Epstein JI. Plasma cell neoplasms of the bladder: a series of 9 cases. Hum Pathol 2021 May;111:52-8.

Fine SW, Trpkov K, Amin MB, …, Epstein JI. Practice patterns related to prostate cancer grading: results of a 2019 Genitourinary Pathology Society clinician survey. Urol Oncol 2021 May;39(5):295.e1-.e8.

Epstein JI, Amin MB, Fine SW, Algaba F, Aron M, Baydar DE, Beltran AL, Brimo F, , et al. The 2019 Genitourinary Pathology Society (GUPS) White Paper on Contemporary Grading of Prostate Cancer. Arch Pathol Lab Med 2021 Apr;145(4):461-93.

Hempel Sullivan H, Maynard JP, Heaphy CM, Lu J, De Marzo AM, Lotan TL, Joshu CE, Sfanos KS. Differential mast cell phenotypes in benign versus cancer tissues and prostate cancer oncologic outcomes. J Pathol. 2021 Apr;253(4):415-26.

Varma M, Epstein JI. Review: Head to head: should the intraductal component of invasive prostate cancer be graded? Histopathology. 2021 Jan;78(2):231-9.

Neuman NM, Haffner MC, Argani P, Kao CS, Epstein JI. Histopathologic characterization of bladder perivascular epithelioid cell neoplasms (PEComa): A series of 11 cases with a subset having TFE3 rearrangements. Am J Surg Pathol 2021 Feb;45:169-77.

McDonald TM, Epstein JI. Aberrant GATA3 Staining in Prostatic Adenocarcinoma: A Potential Diagnostic Pitfall. Am J Surg Pathol 2021 Mar;45(3):341-6.

Lombardo KA, …, Matoso A. Urothelial Carcinoma In Situ of the Bladder: Correlation of CK20 Expression With Adaptive Immune Resistance, Response to BCG Therapy, and Clinical Outcome. Appl Immunohistochem Mol Morphol 2021 Feb;29(2):127-35

Kaur HB, Salles DC, Paulk A, Epstein JI, Eshleman JR, Lotan TL. PIN-like ductal carcinoma of the prostate has frequent activating RAS/RAF mutations. Histopathology 2021 Jan;78(2):327-33.

Grosser D, Matoso A, Epstein JI. Clear Cell Adenocarcinoma in Men: A Series of 15 Cases. Am J Surg Pathol 2021 Feb;45(2):270-6.

Epstein JI, Kryvenko ON. Editorial: A Comparison of Genitourinary Society Pathology and International Society of Urological Pathology Prostate Cancer Guidelines. Eur Urol 2021 Jan;79(1):3-5