{"id":8731,"date":"2023-07-17T10:39:47","date_gmt":"2023-07-17T17:39:47","guid":{"rendered":"https:\/\/csvcc.org\/?page_id=8731"},"modified":"2026-04-09T17:22:12","modified_gmt":"2026-04-10T00:22:12","slug":"scholars-research-cohort-2","status":"publish","type":"page","link":"https:\/\/csvcc.org\/?page_id=8731","title":{"rendered":"Scholars Research – Cohort 2"},"content":{"rendered":"
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\ufeff<\/span>COHORT 2<\/span><\/h3>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n
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Floris Barthel, MD, PhD<\/span><\/h1>\n <\/div>\n <\/div>\n
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Genomic Dissection of Structural Mutations Following Telomere Dysfunction in Glioblastoma Cells and Patients<\/span>\n
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Topic <\/span>Area<\/span><\/h1>\n <\/div>\n <\/div>\n
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Brain Cancer<\/span><\/p>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n

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Highlighted Publications<\/span><\/h1>\n <\/div>\n <\/div>\n
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Chen YA, Mbegbu O, Fukushima NH, Ranallo-Benavidez TR, Zhang T, <\/span>\n Barthel FP<\/strong>. <\/span>\n \n Mapping the Telomeric 3D Interactome with Telomere-C Reveals Repetitive Element Hubs Associated with Telomere Maintenance<\/u>\n <\/a>. bioRxiv [Preprint]. 2025 Oct 10:2025.10.09.681516. doi: 10.1101\/2025.10.09.681516. PMID: 41279283; PMCID: PMC12632567.<\/span><\/p>\n

Kocakavuk E, Anderson K, Varn F, Johnson K, Amin S, Sulman E, Lolkema M, <\/strong>Barthel FP (co-corresponding)<\/strong>\n , Verhaak RGW<\/strong>. <\/span>\n \n Radiotherapy is Associated with a Deletion Signature That Contributes to Poor Outcomes in Patients with Cancer<\/u>\n <\/a>. Nature Genetics. 2021; 53, 1088-1096.<\/span>
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Barthel FP,<\/strong> Johnson K, Varn F, Moskalik A, Tanner G, Kocakavuk E, Anderson K, Abiola O, Aldape K, Alfaro K,…Bruns A, Bulsara K, Chakrabarty A, Chakravarti A, The GLASS Consortium. <\/span>\n \n Longitudinal Molecular Trajectories of Diffuse Glioma in Adults<\/u>\n <\/a>. Nature. 2019;576, 112-120.<\/span><\/p>\n <\/div>\n <\/div>\n

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<\/span>Barthel FP<\/strong>, Wesseling P, Verhaak R. <\/span>\n \n Reconstructing the Molecular Life History of Gliomas<\/u>\n <\/a>. Acta Neuropathol. 2018: 135(5): 649-670.<\/span><\/p>\n

Barthel FP<\/strong>, Wei W, Tang M, Martinez-Ledesma E, Hu X, Amin S, Akdemir K…Zhang J, Zheng S, Verhaak R. <\/span>\n \n Systematic Analysis of Telomere Length and Somatic Alterations in 31 Cancer Types<\/u>\n <\/a>. Nature Genetics. 2017; 49, 349-357.<\/span>ure G
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Priya Dedhia, MD, PhD<\/span><\/h1>\n <\/div>\n <\/div>\n
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Project<\/span><\/h1>\n <\/div>\n <\/div>\n
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Metastatic Progression in Medullary Thyroid Cancer<\/span>\n
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Thyroid Cancer<\/span><\/p>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n

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Highlighted Publications<\/span><\/h1>\n <\/div>\n <\/div>\n
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Dedhia PH, <\/strong> Sivakumar H, Rodriguez MA, Nairon KG, Zent J, Zheng X, Jones K, Popova L, Leight J, Skardal A. <\/span>\n \n A 3D Adrenocortical Carcinoma Tumor Platform for Preclinical Modeling of Drug Response and Matrix Metalloproteinase Activity<\/u>\n <\/a>. <\/span>Sci Rep. 2023 Sep 19;13(1):15508. doi: 10.1038\/s41598-023-42659-0. PMID: 37726363; PMCID: PMC10509170.<\/span>\n \n
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Dedhia PH<\/strong>, Saucke MA, Long KL, Doherty GM, Pitt SC. <\/span>\n \n Physician Perspectives of Overdiagnosis and Overtreatment of Low-Risk Papillary Thyroid Cancer in the US<\/u>\n <\/a>. Jama Network Open. 2022;5(4):e228722.<\/span><\/p>\n <\/div>\n <\/div>\n

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<\/span>Kirsch MJ, Stoeckl EM, Aziz A, McDow AD, Long KL, Schneider DF, Sippel RS, <\/span>\n Dedhia PH<\/strong>. <\/span>\n \n Perioperative Bone Mineral Density Assessment in Patients With Primary Hyperparathyroidism<\/u>\n <\/a>. J Surg Res. 2025 Jan;305:41-46. doi: 10.1016\/j.jss.2024.10.042. Epub 2024 Dec 5. PMID: 39642745.<\/span>\n  <\/span>**CSVCC Supported**<\/strong><\/p>\n

Eren A, Brock PL, <\/span>\n Dedhia PH<\/strong>. <\/span>\n \n Early-Onset Sarcoma With Germline MAX Variant: Expanding the Spectrum in Hereditary Pheochromocytoma and Paraganglioma<\/u>\n <\/a>. JCEM Case Rep. 2025 Jun 9;3(7):luaf119. doi: 10.1210\/jcemcr\/luaf119. PMID: 40492017; PMCID: PMC12146264. <\/span>\n **CSVCC Supported**<\/strong>\n <\/p>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n

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Mayaan Levy, PhD<\/span><\/h1>\n <\/div>\n <\/div>\n
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Project<\/span><\/h2>\n <\/div>\n <\/div>\n
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Deciphering the Mechanisms Underlying Dietary Protection from Colorectal Cancer<\/span>\n
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Colorectal Cancer<\/span><\/p>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n

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Highlighted Publications<\/span><\/h3>\n <\/div>\n <\/div>\n
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Schneider KM, Blank N, Alvarez Y, Thum K, Lundgren P, Litichevskiy L, Sleeman M…Bewtra M, Heuckeroth RO, <\/span>Levy M<\/strong>, Thaiss CA. <\/span>\n \n A Dominant-Negative Effect Drives Selection of TP53 Missense Mutations in Myeloid Malignancies<\/u>\n <\/a>. Science. 2019; 365(6453):599-604.<\/span><\/p>\n

Kindschuh WF*, Baldini F*, Liu MC*, Liao J, Meydan Y, Lee HH, Heinken A, Thiele I, Thaiss CA, <\/span>Levy M*<\/strong>, Korem T*. <\/span>\n \n Preterm birth is associated with xenobiotics and predicted by the vaginal metabolome<\/u>\n <\/a>. Nature Microbiology. 2023.
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Dmitrieva-Posocco O, Wong AC, Lundgren P, Golos AM, Descamps HC, Dohnalova L, Cramer Z, Tian Y, Yueh B…Katona BW, Grivennikov S, Thaiss CA, <\/span>Levy M*<\/strong>\n . <\/span>\n \n Beta-hydroxybutyrate suppresses colorectal cancer. Nature<\/u>\n <\/a>. 2022. <\/span><\/p>\n

Liu S, Domingo-Vidal M, Madhu B, Binyamin D, Thaiss CA, <\/span>\n Levy M<\/strong>. <\/span>\n \n Metabotherapy for intestinal disease: using metabolites to prevent and treat disorders of the gut<\/u>\n <\/a>\n .<\/u> Nat Rev Gastroenterol Hepatol. 2026 Mar 2. doi: 10.1038\/s41575-026-01178-9. Epub ahead of print. PMID: 41772119.<\/span>\n \n
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Peter Miller, MD, PhD<\/span><\/h1>\n <\/div>\n <\/div>\n
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Dissecting the Role of PPM1D in Leukemia Development and Treatment Resistance<\/span>\n
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Topic Area<\/span><\/h1>\n <\/div>\n <\/div>\n
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Blood Cancers<\/span><\/p>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n

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Shaw S, Jiang W, Rush J, Dumont N, Kim J, Singh R, Skepner A, Khodier C, Raffier C, Murphy Z, Yan N, Schluter C, Yu X, Szuchnicki M, Sathappa M, Kahn J, Sperling AS, Wagner F, McKinney DC, Gould AE, Garvie CW,<\/span>\n Miller <\/strong>PG. <\/span>\n \n Identification of small molecule inhibitors of PPM1D using an integrated drug discovery platform<\/u>\n <\/a>. iScience. 2025 Feb 20;28(3):112069. doi: 10.1016\/j.isci.2025.112069. PMID: 40124519; PMCID: PMC11930361.<\/span>\n <\/span>**CSVCC Supported**<\/strong><\/p>\n <\/div>\n <\/div>\n

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Miller PG, <\/strong>Sathappa M, Moroco J, Jiang W, Qian Y, Iqbal S, Guo Q, Giacomelli A, Shaw S, Vernier C, Bajrami B, Yang X, Raffier C, Sperling A, et al. <\/strong>\n \n Allosteric Inhibition of PPM1D Serine\/Threonine Phosphatase via an Altered Conformational State<\/u>\n <\/a>. Nat Commun. 2022 30;13(1):3778.<\/strong>
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Miller PG, <\/strong>Qiao D, Rojas-Quintero J, Honigberg M, Sperling A, Gibson C, Bick A, Niroula A, McConkey M, Sandoval B, Miller B, Shi W, Viswanathan K, et al. <\/span>\n \n Association of Clonal Hematopoiesis with Chronic Obstructive Pulmonary Disease<\/u>\n <\/a>. Blood. 2022 20;139(3):357-368. <\/span>
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Boettcher S,<\/span> Miller PG, <\/strong>Sharma R, McConkey M, Leventhal M, Krivtsov A, Giacomelli A, Wong W, Kim J, Chao S, Kurppa K, Yang X, Milenkowic K, et al. <\/span>\n \n A Dominant-Negative Effect Drives Selection of TP53 Missense Mutations in Myeloid Malignancies<\/u>\n <\/a>. Science. 2019 9; 365(6453):599-604.<\/span><\/p>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n

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Kacper Rogala, PhD<\/span><\/h1>\n <\/div>\n <\/div>\n
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Targeting Unusual Nutrient Acquisition Routes of Nutrient- Deprived Cancers<\/span>\n
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Topic <\/span>Area<\/span><\/h1>\n <\/div>\n <\/div>\n
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Bladder Cancer<\/span><\/p>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n

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Highlighted Publications<\/span><\/h1>\n <\/div>\n <\/div>\n
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Valenstein ML, Wranik M, Lalgudi PV, Linde-Garelli KY, Choi Y, Chivukula RR, Sabatini DM, <\/span>Rogala KB<\/strong>\n . <\/span>\n \n Structural basis for the dynamic regulation of mTORC1 by amino acids<\/u>\n <\/a>. Nature. 2025 Aug 20. doi: 10.1038\/s41586-025-09428-7. Epub ahead of print. PMID: 40836086.<\/span> <\/span>\n **CSVCC Supported**<\/strong>\n <\/p>\n <\/div>\n <\/div>\n

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Valenstein M*,<\/span> Rogala K*, <\/strong>Lalgudi P, Brignole E, Gu X, Saxton R, Chantranupong L, Kolibius J, Quast JP, Sabatini D.<\/span>\n <\/strong>\n \n Structure of the Nutrient-Sensing Hub GATOR2<\/u>\n <\/a>. Nature. 607, 610-616 (2022). *Co-first & Co-corresponding author.
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Shen K*, <\/strong>Rogala K*, <\/strong>Chou HT, Huang R, Yu Z, Sabatini D. <\/strong>\n \n Cryo-EM Structure of the Human FLCN-FNIP2-Rag-Ragulator Complex<\/u>\n <\/a>.<\/span> Cell. 2019 27;179(6): 1319-1329.e8. *Co-first author.<\/strong>\n \n
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Rogala K, <\/strong>Gu X, Kedir J, Abu-Remaileh M, Bianchi L, Bottino A, Dueholm R, Niehaus A, Overwijn D, Fils AC, Zhou S, Leary D, Laqtom N, Brignole E, Sabatini D. <\/span>\n \n Structural Basis for the Docking of mTORC1 on the Lysosomal Surface<\/u>\n <\/a>. Science. 2019 25;366(6464): 468-475.<\/span>
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Andrew Venteicher, MD, PhD<\/span><\/h1>\n <\/div>\n <\/div>\n
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Mapping Elements of DNA Architecture Responsible for Malignant Transformation in Craniospinal Sarcoma<\/span>\n
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Topic<\/span> <\/span>Area<\/span><\/h1>\n <\/div>\n <\/div>\n
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Sarcoma<\/span><\/p>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n

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Li J, Kaneda M, Ma J, Li M, Shepard R, Patel K, Koga T, Sarver A, Furnari F, Xu B, Dhawan S, Ning J, Zhu H, Wu A, You G, Jiang T, <\/strong>\n Venteicher A<\/strong>, Rich J, Glass C, Varner J, Chen C. <\/span>\n \n PI3Ky Inhibition Suppresses Microglia\/TAM Accumulation in Glioblastoma Microenvironment to Promote Exceptional Temozolomide Response<\/u>\n <\/a>. Proceedings of the National Academy of Sciences. 2021;118(16):e2009290118.<\/span>
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Venteicher A<\/strong>, Tirosh I, Hebert C, Yizhak K, Neftel C, Filbin M, Hovestadt V, Escalante L, Shaw M, Rodman C, Gillespie S…Regev A, Suva M. <\/span>\n \n Decoupling Genetics, Lineages, and Microenvironment in IDH-Mutant Gliomas by Single-Cell RNA-Seq<\/u>\n <\/a>. Science. 2017;355(6332):eaai8478.<\/span><\/p>\n <\/div>\n <\/div>\n

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Tirosh I, <\/span>Venteicher A<\/strong>, Hebert C, Escalante L, Patel A, Neftel C, Yizhak K, Fisher J, Rodman C, Mount C, Filbin M, Neftel C…Regev A, Suva M. <\/span>\n \n Single-Cell RNA-Seq Supports a Developmental Hierarchy in Human Oligodendroglioma<\/u>\n <\/a>. Nature. 2016;539(7628):309-313.<\/span><\/p>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n

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Kun-Hsing Yu, MD, PhD<\/span><\/h1>\n <\/div>\n <\/div>\n
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Project<\/span><\/h2>\n <\/div>\n <\/div>\n
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Optimizing Individualized Colorectal Cancer Treatment and Prognostic Prediction via Causal Machine Learning<\/span>\n
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Topic Area<\/span><\/h2>\n <\/div>\n <\/div>\n
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Colorectal Cancer<\/span><\/p>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n

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Highlighted Publications<\/span><\/h3>\n <\/div>\n <\/div>\n
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Wan G, Khattab S, Leung B, Zhang S, Nguyen N, Tran M, Lin C, Chang C, Alexander N, Jairath R, Phillipps J…<\/span>Yu KH<\/strong>, Gusev A, Kwatra S, LeBoeuf N, Reynolds K, Semenov Y.<\/span>\n <\/span>\n \n Cancer Type and Histology Influence Cutaneous Immunotherapy Toxicities: A Multi-Institutional Cohort Study.<\/u>\n <\/a> <\/span>Br J Dermatol. 2024 Jun 20;191(1):117-124. doi: 10.1093\/bjd\/ljae053. PMID: 38366637; PMCID: PMC11188738.<\/span>\n <\/span>**CSVCC Supported**<\/strong><\/p>\n

Pinto de Almeida, Janosi AJ, Hong R, et al. <\/span>\n \n Mitochondrial dysfunction and immune suppression in BRAF V600E-mutated metastatic melanoma<\/u>\n <\/a>\n .<\/u> Clin Transl Med. 2024 Jul;14(7)e1773. PMID: 39032005. PMCID: PMC11259597. <\/span>**CSVCC Supported**<\/strong><\/p>\n

Wang X, Zhao J, Marostica E, Yuan W, Jin J, Zhang J, Li R, Tang H, Wang K, Li Y, Wang F, Peng Y, Zhu J, Zhang J, Jackson C, Zhang J, Dillon D, Lin N, Sholl L, Denize T, Mereditch D, Ligon M, Signoretti S, Ogino S, Golden J, Masrallah M, Han X, Yang S,<\/span>\n Yu KH. <\/strong>\n \n A Pathology Foundation Model for Cancer Diagnosis and Prognosis Prediction. <\/u>\n <\/a>Nature (2024). PMID: 39232164. <\/span>**CSVCC Supported**<\/strong>
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Lin SY, Tsai PC, Su FY, Chen CY, Li F, Zhao J, Ho YY, Lee TM, Healey E, Lin PJ, Kao TW, Vremenko D, Roetzer-Pejrimovsky T, Sholl L, Dillon D, Lin NU, Meredith D, Ligon KL, Lo YC, Chaisuriya N, Cook DJ, Woehrer A, Meyerhardt J, Ogino S, Nasrallah MP, Golden JA, Signoretti S, Chiang JH, <\/span>\n Yu KH<\/strong>. <\/span>\n \n Contrastive learning enhances fairness in pathology artificial intelligence systems<\/u>\n <\/a>. Cell Rep Med. 2025 Dec 16;6(12):102527. doi: 10.1016\/j.xcrm.2025.102527. PMID: 41406939; PMCID: PMC12765949. <\/span>\n **CSVCC Supported**<\/strong>\n <\/p>\n

Hoebel K, Lindsay J, Altreuter J, Alessi J, Weirather J, Dryg I, Giobbie-Hurder A, Li Z, <\/span>Hu KH<\/strong>, Awad M, Rodig S, Lotter W. <\/span>\n \n Graph neural network modeling of spatial tumor-immune interactions identifies prognostic cellular niches in non-small cell lung cancer<\/u>\n <\/a>. npj Precis. Onc. (2026). PMID: 41794974. <\/span>**CSVCC Supported**<\/strong><\/p>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n <\/div>\n<\/div>","protected":false},"excerpt":{"rendered":"

\ufeffCOHORT 2 Floris Barthel, MD, PhD Project Genomic Dissection of Structural Mutations Following Telomere Dysfunction in Glioblastoma Cells and Patients Topic Area Brain Cancer Highlighted Publications Chen YA, Mbegbu O, Fukushima NH, Ranallo-Benavidez TR, Zhang T, Barthel FP. Mapping the Telomeric 3D Interactome with Telomere-C Reveals Repetitive Element Hubs Associated with Telomere Maintenance . bioRxiv […]<\/p>\n","protected":false},"author":1,"featured_media":0,"parent":8068,"menu_order":3,"comment_status":"closed","ping_status":"closed","template":"page-templates\/full-width-page.php","meta":{"content-type":"","_monsterinsights_skip_tracking":false,"_monsterinsights_sitenote_active":false,"_monsterinsights_sitenote_note":"","_monsterinsights_sitenote_category":0,"footnotes":""},"class_list":["post-8731","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/csvcc.org\/index.php?rest_route=\/wp\/v2\/pages\/8731","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/csvcc.org\/index.php?rest_route=\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/csvcc.org\/index.php?rest_route=\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/csvcc.org\/index.php?rest_route=\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"https:\/\/csvcc.org\/index.php?rest_route=%2Fwp%2Fv2%2Fcomments&post=8731"}],"version-history":[{"count":20,"href":"https:\/\/csvcc.org\/index.php?rest_route=\/wp\/v2\/pages\/8731\/revisions"}],"predecessor-version":[{"id":14596,"href":"https:\/\/csvcc.org\/index.php?rest_route=\/wp\/v2\/pages\/8731\/revisions\/14596"}],"up":[{"embeddable":true,"href":"https:\/\/csvcc.org\/index.php?rest_route=\/wp\/v2\/pages\/8068"}],"wp:attachment":[{"href":"https:\/\/csvcc.org\/index.php?rest_route=%2Fwp%2Fv2%2Fmedia&parent=8731"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}