Barretts esophagus books 2

Publications

Cardiovascular/Renal Pathology

Clinical Chemistry

Zhang H, Hoang T, Hu Y. Glycoprotein-Notebook: A Pan-Cancer Glycoproteomic Database and Toolkit for Analysis of Protein Glycosylation Changes Associated With Cancer Phenotypes. Mol Cell Proteomics. 2025 Nov;24(11):101089.

Liu H, Ma Z, Lih TM, Chen L, Hu Y, Wang Y, Sun Z, Huang Y, Xu Y, Zhang H. New Method Enhanced Extraction of Protein Signatures of Renal Cell Carcinoma from Proteomics Data. J Proteome Res. 2025 Nov 7;24(11):5710-5726.

Wang Y, Lih TM, Lee JW, et al., Zhang H, Hruban RH. Multi-omic profiling of intraductal papillary neoplasms of the pancreas reveals distinct patterns and markers of progression. Cancer Cell. 2025;43:2156-2170.e6

Sun Z, Lin DC, Hu Y, Zhang H. From identification to quantification: A step-by-step workflow for intact glycopeptide analysis by mass spectrometry. Anal Chim Acta. 2026 Jan 15;1383:344909.

Xu Y, Chen L, Lih TM, Hu Y, Zhang H. MoSAIC: An Integrated and Modular Workflow for Confident Analysis of Protein Post-Translational Modification Landscapes. Mol Cell Proteomics. 2025 Dec 24:101502.

Hoàng T, Hu Y, Zhang H. ProteoformDB: A Built-In Application to Generate Proteoform Database. J Proteome Res. 2026 Jan 2;25(1):145-156.

Rackow AR, Knezevic CE. Progressive Motor Regression in a 3-Year-Old: Dietary Trends Revive an Overlooked Diagnosis. Clin Chem. 2024 Dec 2;70(12):1416-1419.

Lin DC, Lih TM, Liu H, Zhang H. Characterization of Cell Surface Glycoproteins Using Enzymatic Treatment and Mass Spectrometry. Anal Chem. 2024 Dec 3;96(48):19074-19083.

Sun Z, Lih TM, Woo J, et al., Zhang H. Improving glycoproteomic analysis workflow by systematic evaluation of glycopeptide enrichment, quantification, mass spectrometry approach, and data analysis strategies. Anal Chem. 2024;96:20481-20490

Wang Y, et al., Zhang H, Hruban RH. Multi-omic profiling of intraductal papillary neoplasms of the pancreas reveals distinct patterns and potential markers of progression. Cancer Cell. 2025;43:2156-2170.e6

Wang Y, Woo J, Sun Z, Assis D, Kirsch Z, Willetts M, Albano M, Liu H, Pienta KJ, Amend SR, Zhang H. Liquid chromatographic and mass spectrometric methods for quantitative proteomics from single-cell/nanogram samples. Anal Chem. 2025;97:18415-18422

Wang Y, Jin RU, Xu J, Lin DC, Sun Z, Xu Y, Li QK, Zhang H. Harnessing technologies to unravel gastric cancer heterogeneity. Trends Cancer. 2025 Aug;11(8):753-769.

Woo J, Loycan M, Amanullah M, Qian J, Amend S, Pienta K, Zhang H. Single-Cell Proteomic Characterization of Drug-Resistant Prostate Cancer Cells Reveals Molecular Signatures Associated with Morphological Changes. Mol Cell Proteomics. 2025 Apr;24(4):100949

Woo J, Loycano M, ..., Amend SR, Pienta KJ, Zhang H. Single-Cell Proteomic Characterization of Drug-Resistant Prostate Cancer Cells Reveals Molecular Signatures Associated with Morphological Changes. Mol Cell Proteomics. 2025 Mar 14;24(4):100949.

Cytopathology

GI & Liver Pathology

Lin MT, Afghani E, Canto MI, Zhu J, Ali SZ, Wood LD, He J, Lafaro KJ, Hruban RH, Eshleman JR. TP53/KRAS variant allele frequency ratio predicts advanced disease in mucin-producing cystic neoplasms of the pancreas. Am J Clin Pathol. 2025 Dec 5:aqaf133.

Hozaka Y, Macgregor-Das A, Hayashi M, et al., Goggins MG. Personalizing CA125 levels using tumor marker variants for pancreatic cancer diagnosis. Cancer Epidemiol Biomarkers Prev. 2025;34:2277-2284.

Almazan E, Liang TZ, Hohl B, Hoskins BJ, Birkness-Gartman JE, Ng K. EndoFLIP distensibility index correlates with histologic findings in children with eosinophilic esophagitis. J Pediatr Gastroenterol Nutr. 2025 May;80(5):824-831.

Chen T, Larman TC, Voltaggio L, Birkness-Gartman JE. IgG4-related disease of the tubular gastrointestinal tract: A rare cause of lymphoplasmacytosis, eosinophilia, and mass-forming lesions. Hum Pathol. 2025 Sep;163:105873.

Pedro BA, Wood LD. Early neoplastic lesions of the pancreas: initiation, progression, and opportunities for precancer interception. J Clin Invest. 2025 Jul 15;135(14):e191937.

Pflüger MJ, Fujikura K, Braxton AM, et al., Wood LD. Multiregion genomic analysis of human pancreatic mucinous cystic neoplasms. Mod Pathol. 2025;38:100759

Karimi SS, Larman TC, Jain T, Voltaggio L, Birkness-Gartman JE. Chimeric antigen receptor (CAR) T-cell therapy-related gastrointestinal toxicity: Histologic features and morphologic mimics. Hum Pathol. 2025 Apr;158:105791.

Jamouss K, Damanakis A, Cornwell A, Jongepier M, Trujillo M, Pflüger M, Kawamoto S, Thompson E, Wood LD. Tumor immune microenvironment alterations associated with progression in human intraductal papillary mucinous neoplasms. J Pathol. 25 May;266(1):40-50

Navarro-Serer B, Wissler M, Glover B, Lerner M, Oza H, Wang V, Weaver A, Wilentz D, Olayemi O, Bader J, Fertig E, Gilkes D, Wood LD. P4HA1 Mediates Hypoxia-Induced Invasion in Human Pancreatic Cancer Organoids. Cancer Res Commun. 2025 May 1;5(5):881-95.

Pflüger MJ, ..., Pedro BA, Goodman D, Lu J, Jiang L, Wang X, Zhu J, Dal Molin M, Wang H, Brosens LAA, He J, Kawamoto S, Jiao Y, Wood LD. Multiregion Genomic Analysis of Human Pancreatic Mucinous Cystic Neoplasms. Mod Pathol. 2025 Mar 22;38(7):100759.

Almazan E, Liang TZ, Hohl B, Hoskins BJ, Birkness-Gartman JE, Ng K. EndoFLIP distensibility index correlates with histologic findings in children with eosinophilic esophagitis. J Pediatr Gastroenterol Nutr. 2025 Feb 17.

Jamouss KT, ..., Gudmundsson E, Assarzadegan N, Engle L, Scharpf RB, Kawamoto S, Thompson ED, Wood LD. Tumor immune microenvironment alterations associated with progression in human intraductal papillary mucinous neoplasms. J Pathol. 2025 Feb 25.

Gynecologic Pathology

Chen Q, Xu Y, Wu JW, Yang JM, Huang CH. Decoding Molecular Network Dynamics in Cells: Advances in Multiplexed Live Imaging of Fluorescent Biosensors. Biosensors (Basel). 2025 Sep 17;15(9):614.

Wu JW, Yang JM, Chen CC, Au G, Wang S, Xu Y, Chern GW, Huang CH. Robust calibration and quantification of FRET signals using multiplexed biosensor barcoding. iScience. 2025 Oct 11;28(11):113743.

Seidman JD, Stone R, Moragianni VA, Krishnan J, Vang R. Uncloaking the Fimbria Ovarica: Histologic Recognition of an Elusive Anatomic Structure. Am J Surg Pathol. 2025 Oct 1;49(10):1042-1059.

Sun Y, Smith C, Murray J, et al., Zou YS, Xing D. Recurrent molecular alterations in HPV6/11-associated squamous cell carcinoma of cervix and vulva. Mod Pathol. 2025;38:100909.

Zhan H, Pal DS, Borleis J, Deng Y, Long Y, Janetopoulos C, Huang CH, Devreotes PN. Self-organizing glycolytic waves tune cellular metabolic states and fuel cancer progression. Nat Commun. 2025 Jul 1;16(1):5563.

Tao J, Murray J, Tu HF, Fan D, Tsai YC, Hu MH, Wu AA, Xing D, Hung CF, Wu TC. Generation of a spontaneous murine HPV + oral cancer model with site-specific oncogene insertion using CRISPR-SONIC. Cell Biosci. 2025 Jun 18;15(1):84.

Immunology

Medical Microbiology

Clark AE, Marimuthu L, Sick-Samuels A, Mostafa HH. Reactive infectious mucocutaneous eruption: an increasingly encountered complication during periods of increased Mycoplasma pneumoniae transmission-a case report. ASM Case Rep. 2025 Sep 12;1(6):e00107-25.

Murphy SG, Simner PJ. From detection to decision: how laboratory testing and reporting strategies can shape management of carbapenemase-producing Enterobacterales infections. ASM Case Rep. 2025 Sep 17;1(6):e00139-25.

Norton JM, Dashler G, Klein E, Mostafa HH. The utility of syndromic respiratory pathogen panels: the premise of flexible and customizable approaches. J Clin Microbiol. 2025 Jul 9;63(7):e0031325.

Fall A, Norton JM, Abdullah O, Pekosz A, Klein E, Mostafa HH. Enhanced genomic surveillance of enteroviruses reveals a surge in enterovirus D68 cases, the Johns Hopkins health system, Maryland, 2024. J Clin Microbiol. 2025 Jul 9;63(7):e0046925.

Theel ES, Kus JV, Grys TE, Ampel NM, Schwartz IS, Zhang SX. Practical Guidance for Clinical Microbiology Laboratories: Antibody and antigen detection methods for dimorphic fungal infections. Clin Microbiol Rev. 2025 Jun 12;38(2):e0000520.

Molecular Pathology

Neuropathology

Surgical Pathology

Ramesh S, Qin Q, Li Z, Cherief M, et al., James AW. Single-cell sequencing identifies sensory neuron–mediated CGRP signaling driving sarcoma progression. Proc Natl Acad Sci U S A. 2025;122:e2500161122.

Sater S, Bifulco CB, Rodriguez-Canales J, Cottrell TR, et al., Szalay AS, Taube JM. SITC standards for reporting multiplex IHC/IF assays (STORMI). J Immunother Cancer. 2025;13:e012280.

Will EM, Green BF, Carey S, et al., Taube JM, Szalay AS. AstroID resource: a scalable relational database for longitudinal biomarker discovery. J Immunother Cancer. 2025;13:e012235.

Wu Q, Baraban E, Gross JM. Perinephric myxoid pseudotumor of fat: A series of 13 cases and literature review. Hum Pathol. 2024 Dec;154:105681.

Cherief M, Gomez-Salazar M, Kang M, et al., James AW. Reduced somatosensory innervation alters the skeletal transcriptome at single-cell level in a mouse model of type 2 diabetes. Bone Res. 2025;13:67

Chen T, Larman TC, Voltaggio L, Birkness-Gartman JE. IgG4-related disease of the tubular gastrointestinal tract: A rare cause of lymphoplasmacytosis, eosinophilia, and mass-forming lesions. Hum Pathol. 2025 Sep;163:105873.

Li S, Huerter CJ, Gross JM, Siref AB. Unusual Presentation of Solid-Variant Aneurysmal Bone Cysts as Primary Digital Skin Lesions: A Case Series Emphasizing Radiologic and Dermatopathologic Correlation. J Cutan Pathol. 2025 Aug;52(8):517-522.

Gross JM, Zou YS, Michal M, et al., Rosenberg AE. Ossifying Spindled and Epithelioid Tumor: A Novel Soft Tissue Tumor. Mod Pathol. 2025;38:100840

Argani P, et al. Clinically sporadic folliculin-mutated renal epithelial neoplasms: Morphologic and molecular overlap with TSC/MTOR-mutated eosinophilic renal neoplasms. Am J Surg Pathol. 2025;49:859-872.

Wang Z, Qin Q, Thottappillil N, Gomez Salazar M, Cherief M, Archer M, Balaji D, James AW. Pdgfrβ marks distinct mesenchymal and pericyte populations within the periosteum with overlapping cellular features. Stem Cells. 2025 May 15;43(5):sxaf020.

Chen T, Birkness-Gartman JE, Larman TC. Emerging manifestations of IL-17 immunomodulation in the gastrointestinal tract. Hum Pathol. 2025 Apr;158:105782.

Law S, Sanchez, Baraban E, Gross JM. Tenosynovitis with psammomatous calcifications Series of 18 cases and review of the literature emphasizing a common source of expert consultation and updated differential diagnosis. Virchows Arch. 2025May;486(5):961-70

Transfusion Medicine

Zaman F, Zhu X, Hunt JH, Rozek G, Eby Y, et al., Tobian AAR. Inflammation in kidney transplant donors with/without HIV. Clin Immunol. 2025;280:110563.

Yang P, Zhu X, Patel EU, Post WS, Grabowski MK, Quinn TC, Berry SA, Gebo KA, Tobian AAR. Thirty-day readmission risk among adults hospitalized for heart failure or acute MI with/without HIV. Open Forum Infect Dis. 2025;12:ofaf686.

D'Adamo A, Genberg BL, Krawczyk N, Rudolph JE, Mehta SH, Tobian AAR, Patel EU. Trends in Injecting Methamphetamine and Opioids Among People Who Inject Drugs in the US. JAMA. 2026 Jan 6;335(1):88-90.

Feng X, Patel EU, Kigozi G, Gravitt PE, Galiwango RM, Nalugoda F, Redd AD, Reynolds SJ, Quinn TC, Grabowski MK, Tobian AAR. Longitudinal patterns of penile HPV detection among Ugandan men. Int J Cancer. 2025;157:2455-2462.

Yang P, Zhu X, Patel EU, Quinn TC, Grabowski MK, Tobian AAR. Trends in Circumcision Among Newborn Males in the US. JAMA Pediatr. 2025 Nov 1;179(11):1236-1238.

Martin MA, Reynolds SJ, Foley BT, Nalugoda F, Grabowski MK, et al. HIV drug resistance during ART scale-up in Uganda, 2012–19: a population-based longitudinal study. Lancet Microbe. 2025;6:101218.

Moore HP, Fogel JM, Marzinke MA, Halvas EK, et al., Eshleman SH. Sustained HIV suppression with co-formulated TDF/3TC/DTG in a person with transmitted DTG and 3TC resistance: a case report from HPTN 083. Open Forum Infect Dis. 2025;12:ofaf645.

Rozek GM, Yang P, Tobian AAR, et al., Redd AD. HIV superinfection in kidney transplant recipients with HIV who received organs from donors with HIV. J Infect Dis. 2025;232:359-363

Urologic/Kidney Pathology

Li H, Matoso A. Unlocking diagnostic potential: A retrospective analysis of GPNMB immunohistochemistry in nearly 1000 surgical pathology specimens. Hum Pathol. 2025 May;159:105799.

Lin R, Li H, DeMarzo A, Argani P, Baras A, Matoso A. Atypical intraductal proliferation (AIP) of the prostate: Findings in repeat biopsy or radical prostatectomy in patients who met pathologic criteria for active surveillance. Hum Path 2025 Jun;160:105841

Li H, ..., Baraban E, ..., Matoso A. Clinicopathologic and Prognostic Features of Sarcomatoid Urothelial Carcinoma: A Retrospective Study of 136 Patients With Emphasis on Early-Stage (pT1) Disease. Am J Surg Pathol. 2025 Sep 15.

Matoso A, Acosta AM. Translational milestones in urologic pathology: integrating molecular diagnostics across cancer types. J Pathol Clin Res. 2025 Sep;11(5):e70046.

Higgins MI, Gabrielson AT, Su ZT, Feng M, Epstein G, Stewart C, Grutman AJ, Choi W, Patel SH, Kates M, Matoso A, McConkey DJ. Molecular classification of nonurothelial histologic subtypes of bladder cancer. Urol Oncol. 2025 Aug 20;. Epub ahead of print.

Johnson BA 3rd, ..., Choi W, Hoffman-Censits J, Kates M, McConkey DJ, Hahn NM, Matoso A. Sarcomatoid areas of urothelial carcinoma are enriched for CD163-positive antigen-presenting cells. J Pathol Clin Res. 2025 Mar;11(2):e70021. PMID: 39971624.

Beauchamp L, ..., Li H, ....Zou YS, Eshleman JR, Argani P, Epstein JI, Baraban EG. Extragonadal Urinary Tract Neoplasms With Yolk Sac Differentiation: Clinical, Histologic, ... Mod Pathol. 2025 Jun 21;38(11):100829. Epub ahead of print. PMID: 40550467.

Li H, Matoso A. Unlocking diagnostic potential: A retrospective analysis of GPNMB immunohistochemistry in nearly 1000 surgical pathology specimens. Hum Pathol. 2025 May;159:105799. doi: 10.1016/j.humpath.2025.105799. Epub 2025 May 17. PMID: 40389121.

Bhardwaj S, Salimian M, Matoso A, Gross J, Argani P, Baraban E. Establishing the Diagnosis of Germ Cell Tumors in Patients Presenting With Metastatic Disease: A Series of 55 Cases ... Am J Surg Pathol. 2025 Jun 11. Epub ahead of print. PMID: 40495550.

Lin R, Li H, Baraban E, Lotan T, DeMarzo A, Argani P, Baras A, Matoso A. Atypical intraductal proliferation (AIP) of the prostate: Findings in repeat biopsy or radical prostatectomy... Hum Pathol. 2025 Jun 13:105841. Epub ahead of print. PMID: 40516578.

Ding CC, Greenland NY, Sirohi D, Lotan TL. Molecular Landscape of Aggressive Histologic Subtypes of Localized Prostate Cancer. Surg Pathol Clin. 2025 Mar;18(1):1-12. doi: 10.1016/j.path.2024.10.001. Epub 2024 Dec 3. PMID: 39890297.

Baraban E, Fishman EK, Lafaro K, Lin MT, Ged Y, Hruban RH, Argani P. A Confirmed Extrarenal Birt-Hogg-Dubé-Associated Oncocytic Neoplasm. Am J Surg Pathol. 2024 Sep 2. doi: 10.1097/PAS.0000000000002305. Epub ahead of print. PMID: 39221876.

Argani P, Saoud C, Antonescu CR. Molecular Analysis of Renal/Adrenal Angiosarcomas Reveals High Frequency of Recurrent Genetic Alterations. Genes Chromosomes Cancer. 2024 Sep;63(9):e23268. doi: 10.1002/gcc.23268. PMID: 39248552.

Akbari A, ... Aditi A, Pivovarcikova K, Argani P, Mohanty SK, Asrani K, Lotan TL. Genetic validation of a TSC2 immunohistochemistry assay in TSC/mTOR-pathway altered renal tumors. Hum Pathol. 2024 Dec;154:105693. Epub 2024 Nov 19. PMID: 39571694.

Indulkar S, ... Baraban E, Argani P, Matoso A. Clear Cell Adenocarcinoma of the Urinary Tract Primary to the Renal Pelvis: A Multi-institutional Clinicopathologic and Molecular Study of Five Patients. Am J Surg Pathol. 2025 Jan 1;49(1):51-61.

Beauchamp L, ... Salimian M, Matoso A. Tissue-Based Biomarkers Important for Prognostication and Management of Genitourinary Tumors, Including Surrogate Markers of Genomic Alterations. Surg Pathol Clin. 2025 Mar;18(1):175-189. Epub 2024 Nov 16.

Argani P, ... Gross JM, Baraban E, Matoso A, ... Sangoi AR. MEIS1::NCOA1 Primitive Spindle Cell Sarcoma of the Kidney: Report of 7 Cases of a Distinctive Clinicopathologic Entity. Am J Surg Pathol. 2025 Mar 31. Epub ahead of print. PMID: 40160183.

Li H, Dairo O, Lotan T, Argani P, Matoso A. Examination of the Histogenesis of Epithelial Cysts in Angiomyolipoma with Epithelial Cysts (AMLEC) Using GPNMB and TSC2 Immunostains. Hum Pathol. 2025 Apr 1:105764. Epub ahead of print. PMID: 40180055.

Baraban EG, ... Brame A, Han M, De Marzo AM, Matoso A, Hoffman-Censits J. Nectin-4 Expression in Prostatic Adenocarcinoma: An Immunohistochemical Study. Prostate. 2025 Apr;85(5):443-447. doi: 10.1002/pros.24846. Epub 2025 Jan 2. PMID: 39748460.