Screen Them All: High-Throughput Pan-Cancer Genetic and Phenotypic Biomarker Screening from H&E Whole Slide Images

Authors: Wang, Yi Kan, Tydlitatova, Ludmila, Kunz, Jeremy D., Oakley, Gerard, Godrich, Ran A., Lee, Matthew C. H., Vanderbilt, Chad, Yousfi, Razik, Fuchs, Thomas, Klimstra, David S., Liu, Siqi

Subject Terms: Quantitative Biology - Quantitative Methods, Computer Science - Computer Vision and Pattern Recognition, Electrical Engineering and Systems Science - Image and Video Processing

Access URL: http://arxiv.org/abs/2408.09554

SWI/SNF Complex-Deficient Undifferentiated Carcinoma of the Pancreas: Clinicopathologic and Genomic Analysis

Authors: Yavas, Aslihan, Ozcan, Kerem, Adsay, N. Volkan, Balci, Serdar, Tarcan, Zeynep C., Hechtman, Jaclyn F., Luchini, Claudio, Scarpa, Aldo, Lawlor, Rita T., Mafficini, Andrea, Reid, Michelle D., Xue, Yue, Yang, Zhaohai, Haye, Kester, Bellizzi, Andrew M., Vanoli, Alessandro, Benhamida, Jamal, Balachandran, Vinod, Jarnagin, William, Park, Wungki, O’Reilly, Eileen M., Klimstra, David S., Basturk, Olca

Source: In Modern Pathology November 2024 37(11)

Proteogenomic characterization of pancreatic neuroendocrine tumors uncovers hypoxia and immune signatures in clinically aggressive subtypes

Authors: Tanaka, Atsushi, Ogawa, Makiko, Zhou, Yihua, Otani, Yusuke, Hendrickson, Ronald C., Miele, Matthew M., Li, Zhuoning, Klimstra, David S., Wang, Julia Y., Roehrl, Michael H.

Source: In iScience 16 August 2024 27(8)

DNA Methylation Profiling Enables Accurate Classification of Nonductal Primary Pancreatic Neoplasms

Authors: Verschuur, Anna Vera D., Hackeng, Wenzel M., Westerbeke, Florine, Benhamida, Jamal K., Basturk, Olca, Selenica, Pier, Raicu, G. Mihaela, Molenaar, I. Quintus, van Santvoort, Hjalmar C., Daamen, Lois A., Klimstra, David S., Yachida, Shinichi, Luchini, Claudio, Singhi, Aatur D., Geisenberger, Christoph, Brosens, Lodewijk A.A.

Source: In Clinical Gastroenterology and Hepatology June 2024 22(6):1245-1254

Proteogenomic characterization of primary colorectal cancer and metastatic progression identifies proteome-based subtypes and signatures

Authors: Tanaka, Atsushi, Ogawa, Makiko, Zhou, Yihua, Namba, Kei, Hendrickson, Ronald C., Miele, Matthew M., Li, Zhuoning, Klimstra, David S., Buckley, Patrick G., Gulcher, Jeffrey, Wang, Julia Y., Roehrl, Michael H.A.

Source: In Cell Reports 27 February 2024 43(2)

Grading Pancreatic Neuroendocrine Tumors Via Endoscopic Ultrasound-guided Fine Needle Aspiration

Authors: Javed, Ammar A., Pulvirenti, Alessandra, Razi, Samrah, Zheng, Jian, Michelakos, Theodoros, Sekigami, Yurie, Thompson, Elizabeth, Klimstra, David S., Deshpande, Vikram, Singhi, Aatur D., Weiss, Matthew J., Wolfgang, Christopher L., Cameron, John L., Wei, Alice C., Zureikat, Amer H., Ferrone, Cristina R., He, Jin

Source: Annals of surgery. 277(6):e1284-e1290

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100191127023.0x000001&indx=1&recIds=ETOCvdc_100191127023.0x000001

Somatic loss of ATM is a late event in pancreatic tumorigenesis

Authors: Paranal, Raymond M, Jiang, Zhengdong, Hutchings, Danielle, Kryklyva, Valentyna, Gauthier, Christian, Fujikura, Kohei, Nanda, Neha, Huang, Bo, Skaro, Michael, Wolfgang, Christopher L, He, Jin, Klimstra, David S, Brand, Randall E, Singhi, Aatur D, DeMarzo, Angelo, Zheng, Lei, Goggins, Michael, Brosens, Lodewijk AA, Hruban, Ralph H, Klein, Alison P, Lotan, Tamara, Wood, Laura D, Roberts, Nicholas J

Source: Journal of pathology. 260(4):455-464

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100187530395.0x000001&indx=1&recIds=ETOCvdc_100187530395.0x000001

A novel tool to predict nodal metastasis in small pancreatic neuroendocrine tumors: A multicenter study

Authors: Javed, Ammar A., Pulvirenti, Alessandra, Zheng, Jian, Michelakos, Theodoros, Sekigami, Yurie, Razi, Samrah, Burkhart, Richard A., Burns, William R., Makary, Marty A., Fishman, Elliot K., Hruban, Ralph H., Thompson, Elizabeth, Klimstra, David S., Deshpande, Vikram, Singhi, Aatur D., Kingham, T. Peter, D’Angelica, Michael, Balachandran, Vinod P., Drebin, Jeff, Soares, Kevin C., Jarnagin, William R., Fernandez del Castillo, Carlos, Lillemoe, Keith, Qadan, Motaz, Paniccia, Alessandro, Lee, Kenneth K., Weiss, Matthew J., Wolfgang, Christopher L., Cameron, John L., Wei, Alice C., Zureikat, Amer H., Ferrone, Cristina R., He, Jin, McIntyre, Caitlin A.

Source: In Surgery December 2022 172(6):1800-1806

Pancreatobiliary Maljunction-associated Gallbladder Cancer Is as Common in the West, Shows Distinct Clinicopathologic Characteristics and Offers an Invaluable Model for Anatomy-induced Reflux-associated Physio-chemical Carcinogenesis

Authors: Muraki, Takashi, Pehlivanoglu, Burcin, Memis, Bahar, Reid, Michelle D., Uehara, Takeshi, Basturk, Olca, Pernicka, Jennifer Golia, Klimstra, David S., Jarnagin, William R., Ito, Tetsuya, Hasebe, Osamu, Okaniwa, Shinji, Horigome, Naoto, Hisa, Takeshi, Mittal, Pardeep, Sarmiento, Juan M., Maithel, Shishir K., Koshiol, Jill, Tsai, Susan, Evans, Douglas, Erkan, Mert, Adsay, Volkan

Source: Annals of surgery. 276(1):e32-e39

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100183272784.0x000001&indx=1&recIds=ETOCvdc_100183272784.0x000001

Genomic characterization of small cell carcinomas of the uterine cervix

Authors: Schultheis, Anne M., Bruijn, Ino, Selenica, Pier, Macedo, Gabriel S., Silva, Edaise M., Piscuoglio, Salvatore, Jungbluth, Achim A., Park, Kay J., Klimstra, David S., Wardelmann, Eva, Hartmann, Wolfgang, Gerharz, Claus Dieter, Petersdorff, Mareike, Buettner, Reinhard, Reis‐Filho, Jorge S., Weigelt, Britta

Source: Molecular oncology. 16(4):833-845

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100141233988.0x000001&indx=1&recIds=ETOCvdc_100141233988.0x000001

A Review of Mucinous Cystic and Intraductal Neoplasms of the Pancreatobiliary Tract: Recent Advances

Authors: Ozcan, Kerem, Klimstra, David S.

Source: Archives of pathology & laboratory medicine. 146(3):298-311

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCRN631354919&indx=1&recIds=ETOCRN631354919

Efficient Visualization of Whole Slide Images in Web-based Viewers for Digital Pathology

Authors: Schüffler, Peter J., Stamelos, Evangelos, Ahmed, Ishtiaque, Yarlagadda, D. Vijay K., Ardon, Orly, Hanna, Matthew G., Reuter, Victor E., Klimstra, David S., Hameed, Meera

Source: Archives of pathology & laboratory medicine. 146(10):1273-1280

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCRN631356022&indx=1&recIds=ETOCRN631356022

Recurrent Loss of Heterozygosity in Pancreatic Neuroendocrine Tumors

Authors: Parilla, Megan, Chapel, David, Hechtman, Jaclyn F., Wanjari, Pankhuri, El Jabbour, Tony, Sharma, Aarti, Ritterhouse, Lauren, Segal, Jeremy, Vanderbilt, Chad, Klimstra, David S., Setia, Namrata, Tang, Laura

Source: American journal of surgical pathology. 46(6):823-831

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100155475495.0x000001&indx=1&recIds=ETOCvdc_100155475495.0x000001

Pathologic Examination of Pancreatic Specimens Resected for Treated Pancreatic Ductal Adenocarcinoma

Authors: Wang, Huamin, Chetty, Runjan, Hosseini, Mojgan, Allende, Daniela S., Esposito, Irene, Matsuda, Yoko, Deshpande, Vikram, Shi, Jiaqi, Dhall, Deepti, Jang, Kee-Taek, Kim, Grace E., Luchini, Claudio, Graham, Rondell P., Reid, Michelle D., Basturk, Olca, Hruban, Ralph H., Krasinskas, Alyssa, Klimstra, David S., Adsay, Volkan

Source: American journal of surgical pathology. 46(6):754-764

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100150153839.0x000001&indx=1&recIds=ETOCvdc_100150153839.0x000001

Pancreatoblastomas and mixed and pure acinar cell carcinomas share epigenetic signatures distinct from other neoplasms of the pancreas

Authors: Benhamida, Jamal K., Vyas, Monika, Tanaka, Atsushi, Wang, Lu, Bahrami, Armita, Ozcan, Kerem, Basturk, Olca, Villafania, Liliana, Mata, Douglas A., El Jabbour, Tony, Selenica, Pier, Roehrl, M.H.A., Weigelt, Britta, Reis-Filho, Jorge S., Scaltriti, Maurizio, Klimstra, David S.

Source: In Modern Pathology July 2022 35(7):956-961

Integrating digital pathology into clinical practice

Authors: Hanna, Matthew G., Ardon, Orly, Reuter, Victor E., Sirintrapun, Sahussapont Joseph, England, Christine, Klimstra, David S., Hameed, Meera R.

Source: In Modern Pathology February 2022 35(2):152-164

Digital Pathology Operations at an NYC Tertiary Cancer Center During the First 4 Months of COVID-19 Pandemic Response

Authors: Ardon, Orly, Reuter, Victor E., Hameed, Meera, Corsale, Lorraine, Manzo, Allyne, Sirintrapun, Sahussapont J., Ntiamoah, Peter, Stamelos, Evangelos, Schueffler, Peter J., England, Christine, Klimstra, David S., Hanna, Matthew G. ^*

Source: In Academic Pathology January-December 2021 8

Diagnosis of digestive system tumours

Authors: Washington, Mary Kay, Goldberg, Richard M., Chang, George J., Limburg, Paul, Lam, Alfred K., Salto‐Tellez, Manuel, Arends, Mark J., Nagtegaal, Iris D., Klimstra, David S., Rugge, Massimo, Schirmacher, Peter, Lazar, Alexander J., Odze, Robert D., Carneiro, Fatima, Fukayama, Masashi, Cree, Ian A.

Source: International journal of cancer. 148(5):1040-1050

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100112325197.0x000001&indx=1&recIds=ETOCvdc_100112325197.0x000001

Juan Rosai, MD (1940-2020)

Authors: Klimstra, David S., Young, Robert H.

Source: American journal of surgical pathology. 45(12):e24-e34

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Alterations in Ki67 Labeling Following Treatment of Poorly Differentiated Neuroendocrine Carcinomas

Authors: Vyas, Monika, Tang, Laura H., Rekhtman, Natasha, Klimstra, David S.

Source: American journal of surgical pathology. 45(1):25-34

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100185884522.0x000001&indx=1&recIds=ETOCvdc_100185884522.0x000001