Publications

Zhou Y, Lin R, Lee JJ, Li D, Wang L, Li R, Yuan Y. TITE-BOIN12: A Bayesian phase I/II trial design to find the optimal biological dose with late-onset toxicity and efficacy. Stat Med. 2022. Epub 2022/02/01. doi: 10.1002/sim.9337. PubMed PMID: 35098585.

Saberian C, Davies MA. Re-thinking therapeutic development for CNS metastatic disease. Exp Dermatol. 2022;31(1):74-81. Epub 2021/06/22. doi: 10.1111/exd.14413. PubMed PMID: 34152638.

Fukuda Y, Bustos MA, Cho S-N, Roszik J, Ryu S, Lopez VM, Burks JK, Lee JE, Grimm EA, Hoon DSB, Ekmekcioglu S. Interplay between soluble CD74 and macrophage-migration inhibitory factor drives tumor growth and influences patient survival in melanoma. Cell Death & Disease. 2022;13(2):117. doi: 10.1038/s41419-022-04552-y.

Creasy CA, Meng YJ, Forget MA, Karpinets T, Tomczak K, Stewart C, Torres-Cabala CA, Pilon-Thomas S, Sarnaik AA, Mule JJ, Garraway L, Bustos M, Zhang J, Patel SP, Diab A, Glitza IC, Yee C, Tawbi H, Wong MK, McQuade J, Hoon DSB, Davies MA, Hwu P, Amaria RN, Haymaker C, Beroukhim R, Bernatchez C. Genomic Correlates of Outcome in Tumor-Infiltrating Lymphocyte Therapy for Metastatic Melanoma. Clin Cancer Res. 2022. Epub 2022/02/23. doi: 10.1158/1078-0432.Ccr-21-1060. PubMed PMID: 35190823.

Zhou Y, Lin R, Lee JJ. The use of local and nonlocal priors in Bayesian test-based monitoring for single-arm phase II clinical trials. Pharm Stat. 2021;20(6):1183-99. Epub 2021/05/20. doi: 10.1002/pst.2139. PubMed PMID: 34008317.

Zhou Y, Lin R, Kuo YW, Lee JJ, Yuan Y. BOIN Suite: A Software Platform to Design and Implement Novel Early-Phase Clinical Trials. JCO Clin Cancer Inform. 2021;5:91-101. Epub 2021/01/14. doi: 10.1200/cci.20.00122. PubMed PMID: 33439726; PMCID: PMC8462603.

Yap TA, Parkes EE, Peng W, Moyers JT, Curran MA, Tawbi HA. Development of Immunotherapy Combination Strategies in Cancer. Cancer Discov. 2021;11(6):1368-97. Epub 2021/04/04. doi: 10.1158/2159-8290.Cd-20-1209. PubMed PMID: 33811048; PMCID: PMC8178168.

White MG, Szczepaniak Sloane R, Witt RG, Reuben A, Gaudreau PO, Andrews MC, Feng N, Johnson S, Class CA, Bristow C, Wani K, Hudgens C, Nezi L, Manzo T, De Macedo MP, Hu J, Davis R, Jiang H, Prieto P, Burton E, Hwu P, Tawbi H, Gershenwald J, Lazar AJ, Tetzlaff MT, Overwijk W, Woodman SE, Cooper ZA, Marszalek JR, Davies MA, Heffernan TP, Wargo JA. Short-term treatment with multi-drug regimens combining BRAF/MEK-targeted therapy and immunotherapy results in durable responses in Braf-mutated melanoma. Oncoimmunology. 2021;10(1):1992880. Epub 2021/11/16. doi: 10.1080/2162402x.2021.1992880. PubMed PMID: 34777916; PMCID: PMC8583008.

Spencer CN, McQuade JL, Gopalakrishnan V, McCulloch JA, Vetizou M, Cogdill AP, Khan MAW, Zhang X, White MG, Peterson CB, Wong MC, Morad G, Rodgers T, Badger JH, Helmink BA, Andrews MC, Rodrigues RR, Morgun A, Kim YS, Roszik J, Hoffman KL, Zheng J, Zhou Y, Medik YB, Kahn LM, Johnson S, Hudgens CW, Wani K, Gaudreau PO, Harris AL, Jamal MA, Baruch EN, Perez-Guijarro E, Day CP, Merlino G, Pazdrak B, Lochmann BS, Szczepaniak-Sloane RA, Arora R, Anderson J, Zobniw CM, Posada E, Sirmans E, Simon J, Haydu LE, Burton EM, Wang L, Dang M, Clise-Dwyer K, Schneider S, Chapman T, Anang NAS, Duncan S, Toker J, Malke JC, Glitza IC, Amaria RN, Tawbi HA, Diab A, Wong MK, Patel SP, Woodman SE, Davies MA, Ross MI, Gershenwald JE, Lee JE, Hwu P, Jensen V, Samuels Y, Straussman R, Ajami NJ, Nelson KC, Nezi L, Petrosino JF, Futreal PA, Lazar AJ, Hu J, Jenq RR, Tetzlaff MT, Yan Y, Garrett WS, Huttenhower C, Sharma P, Watowich SS, Allison JP, Cohen L, Trinchieri G, Daniel CR, Wargo JA. Dietary fiber and probiotics influence the gut microbiome and melanoma immunotherapy response. Science. 2021;374(6575):1632-40. Epub 2021/12/24. doi: 10.1126/science.aaz7015. PubMed PMID: 34941392; PMCID: PMC8970537.

Pelster MS, Gruschkus SK, Bassett R, Gombos DS, Shephard M, Posada L, Glover MS, Simien R, Diab A, Hwu P, Carter BW, Patel SP. Nivolumab and Ipilimumab in Metastatic Uveal Melanoma: Results From a Single-Arm Phase II Study. J Clin Oncol. 2021;39(6):599-607. Epub 2020/10/31. doi: 10.1200/jco.20.00605. PubMed PMID: 33125309; PMCID: PMC8257877.

Menzies AM, Amaria RN, Rozeman EA, Huang AC, Tetzlaff MT, van de Wiel BA, Lo S, Tarhini AA, Burton EM, Pennington TE, Saw RPM, Xu X, Karakousis GC, Ascierto PA, Spillane AJ, van Akkooi ACJ, Davies MA, Mitchell TC, Tawbi HA, Scolyer RA, Wargo JA, Blank CU, Long GV. Pathological response and survival with neoadjuvant therapy in melanoma: a pooled analysis from the International Neoadjuvant Melanoma Consortium (INMC). Nat Med. 2021;27(2):301-9. Epub 2021/02/10. doi: 10.1038/s41591-020-01188-3. PubMed PMID: 33558722.

Mejbel HA, Torres-Cabala CA, Milton DR, Ivan D, Nagarajan P, Curry JL, Ciurea AM, Rubin AI, Hwu WJ, Prieto VG, Aung PP. Prognostic Significance of Subungual Anatomic Site in Acral Lentiginous Melanoma. Arch Pathol Lab Med. 2021;145(8):943-52. Epub 2020/12/09. doi: 10.5858/arpa.2020-0308-OA. PubMed PMID: 33290520.

Mei Y, Chen MM, Liang H, Ma L. A four-gene signature predicts survival and anti-CTLA4 immunotherapeutic responses based on immune classification of melanoma. Commun Biol. 2021;4(1):383. Epub 2021/03/24. doi: 10.1038/s42003-021-01911-x. PubMed PMID: 33753855; PMCID: PMC7985195.

Liu N, Zhou Y, Lee JJ. IPDfromKM: reconstruct individual patient data from published Kaplan-Meier survival curves. BMC Med Res Methodol. 2021;21(1):111. Epub 2021/06/03. doi: 10.1186/s12874-021-01308-8. PubMed PMID: 34074267; PMCID: PMC8168323.

Lin R, Yang Z, Yuan Y, Yin G. Sample size re-estimation in adaptive enrichment design. Contemp Clin Trials. 2021;100:106216. Epub 2020/11/28. doi: 10.1016/j.cct.2020.106216. PubMed PMID: 33246098.

Lin R, Thall PF, Yuan Y. A Phase I-II Basket Trial Design to Optimize Dose-Schedule Regimes Based on Delayed Outcomes. Bayesian Anal. 2021;16(1):179-202. Epub 2021/07/17. doi: 10.1214/20-ba1205. PubMed PMID: 34267857; PMCID: PMC8277108.

Lin R, Chan KG, Shi H. A unified Bayesian framework for exact inference of area under the receiver operating characteristic curve. Stat Methods Med Res. 2021;30(10):2269-87. Epub 2021/09/02. doi: 10.1177/09622802211037070. PubMed PMID: 34468238.

Li J, Chen H, Wang Y, Chen MM, Liang H. Next-Generation Analytics for Omics Data. Cancer Cell. 2021;39(1):3-6. Epub 2020/09/26. doi: 10.1016/j.ccell.2020.09.002. PubMed PMID: 32976776; PMCID: PMC8336660.

Hou J, Wang Y, Shi L, Chen Y, Xu C, Saeedi A, Pan K, Bohat R, Egan NA, McKenzie JA, Mbofung RM, Williams LJ, Yang Z, Sun M, Liang X, Rodon Ahnert J, Varadarajan N, Yee C, Chen Y, Hwu P, Peng W. Integrating genome-wide CRISPR immune screen with multi-omic clinical data reveals distinct classes of tumor intrinsic immune regulators. J Immunother Cancer. 2021;9(2). Epub 2021/02/17. doi: 10.1136/jitc-2020-001819. PubMed PMID: 33589527; PMCID: PMC7887353.

Haymaker C, Johnson DH, Murthy R, Bentebibel SE, Uemura MI, Hudgens CW, Safa H, James M, Andtbacka RHI, Johnson DB, Shaheen M, Davies MA, Rahimian S, Chunduru SK, Milton DR, Tetzlaff MT, Overwijk WW, Hwu P, Gabrail N, Agrawal S, Doolittle G, Puzanov I, Markowitz J, Bernatchez C, Diab A. Tilsotolimod with Ipilimumab Drives Tumor Responses in Anti-PD-1 Refractory Melanoma. Cancer Discov. 2021;11(8):1996-2013. Epub 2021/03/13. doi: 10.1158/2159-8290.Cd-20-1546. PubMed PMID: 33707233; PMCID: PMC8544022.

Ding Z, Ogata D, Roszik J, Qin Y, Kim S, Tetzlaff M, Lazar AJ, Davies MA, Ekmekcioglu S, Grimm EA. iNOS Associates With Poor Survival in Melanoma: A Role for Nitric Oxide in the PI3K-AKT Pathway Stimulation and PTEN S-Nitrosylation. Frontiers in Oncology. 2021;11:141.

Cho WC, Wang WL, Milton DR, Ingram DR, Nagarajan P, Curry JL, Ivan D, Lazar AJ, Hwu WJ, Prieto VG, Torres-Cabala CA, Aung PP. Telomerase Reverse Transcriptase Protein Expression Is More Frequent in Acral Lentiginous Melanoma Than in Other Types of Cutaneous Melanoma. Arch Pathol Lab Med. 2021;145(7):842-50. Epub 2020/10/15. doi: 10.5858/arpa.2020-0330-OA. PubMed PMID: 33053175.

Cho WC, Wang WL, Milton DR, Ingram DR, Nagarajan P, Curry JL, Ivan D, Lazar AJ, Hwu WJ, Prieto VG, Torres-Cabala CA, Aung PP. Telomerase Reverse Transcriptase Protein Expression Is More Frequent in Acral Lentiginous Melanoma Than in Other Types of Cutaneous Melanoma. Arch Pathol Lab Med. 2021;145(7):842-50. Epub 2020/10/15. doi: 10.5858/arpa.2020-0330-OA. PubMed PMID: 33053175.

Cheng LY, Haydu LE, Song P, Nie J, Tetzlaff MT, Kwong LN, Gershenwald JE, Davies MA, Zhang DY. High sensitivity sanger sequencing detection of BRAF mutations in metastatic melanoma FFPE tissue specimens. Scientific Reports. 2021;11(1):9043. doi: 10.1038/s41598-021-88391-5.

Atkins MB, Curiel-Lewandrowski C, Fisher DE, Swetter SM, Tsao H, Aguirre-Ghiso JA, Soengas MS, Weeraratna AT, Flaherty KT, Herlyn M, Sosman JA, Tawbi HA, Pavlick AC, Cassidy PB, Chandra S, Chapman PB, Daud A, Eroglu Z, Ferris LK, Fox BA, Gershenwald JE, Gibney GT, Grossman D, Hanks BA, Hanniford D, Hernando E, Jeter JM, Johnson DB, Khleif SN, Kirkwood JM, Leachman SA, Mays D, Nelson KC, Sondak VK, Sullivan RJ, Merlino G. The State of Melanoma: Emergent Challenges and Opportunities. Clin Cancer Res. 2021;27(10):2678-97. Epub 2021/01/09. doi: 10.1158/1078-0432.Ccr-20-4092. PubMed PMID: 33414132; PMCID: PMC8127340.

Andrews MC, Duong CPM, Gopalakrishnan V, Iebba V, Chen WS, Derosa L, Khan MAW, Cogdill AP, White MG, Wong MC, Ferrere G, Fluckiger A, Roberti MP, Opolon P, Alou MT, Yonekura S, Roh W, Spencer CN, Curbelo IF, Vence L, Reuben A, Johnson S, Arora R, Morad G, Lastrapes M, Baruch EN, Little L, Gumbs C, Cooper ZA, Prieto PA, Wani K, Lazar AJ, Tetzlaff MT, Hudgens CW, Callahan MK, Adamow M, Postow MA, Ariyan CE, Gaudreau PO, Nezi L, Raoult D, Mihalcioiu C, Elkrief A, Pezo RC, Haydu LE, Simon JM, Tawbi HA, McQuade J, Hwu P, Hwu WJ, Amaria RN, Burton EM, Woodman SE, Watowich S, Diab A, Patel SP, Glitza IC, Wong MK, Zhao L, Zhang J, Ajami NJ, Petrosino J, Jenq RR, Davies MA, Gershenwald JE, Futreal PA, Sharma P, Allison JP, Routy B, Zitvogel L, Wargo JA. Gut microbiota signatures are associated with toxicity to combined CTLA-4 and PD-1 blockade. Nat Med. 2021;27(8):1432-41. Epub 2021/07/10. doi: 10.1038/s41591-021-01406-6. PubMed PMID: 34239137.

Zhao W, Li J, Chen MM, Luo Y, Ju Z, Nesser NK, Johnson-Camacho K, Boniface CT, Lawrence Y, Pande NT, Davies MA, Herlyn M, Muranen T, Zervantonakis IK, von Euw E, Schultz A, Kumar SV, Korkut A, Spellman PT, Akbani R, Slamon DJ, Gray JW, Brugge JS, Lu Y, Mills GB, Liang H. Large-Scale Characterization of Drug Responses of Clinically Relevant Proteins in Cancer Cell Lines. Cancer Cell. 2020;38(6):829-43.e4. Epub 2020/11/07. doi: 10.1016/j.ccell.2020.10.008. PubMed PMID: 33157050; PMCID: PMC7738392.

Xu G, Zhu H, Lee JJ. Borrowing Strength and Borrowing Index for Bayesian Hierarchical Models. Comput Stat Data Anal. 2020;144. Epub 2020/04/29. doi: 10.1016/j.csda.2019.106901. PubMed PMID: 32341613; PMCID: PMC7185234.

Ogata D, Roszik J, Oba J, Kim SH, Bassett RL, Jr., Haydu LE, Tanese K, Grimm EA, Ekmekcioglu S. The Expression of CD74-Regulated Inflammatory Markers in Stage IV Melanoma: Risk of CNS Metastasis and Patient Survival. Cancers (Basel). 2020;12(12). Epub 2020/12/18. doi: 10.3390/cancers12123754. PubMed PMID: 33327409; PMCID: PMC7764866.

Mitchell KG, Amini B, Wang Y, Carter BW, Godoy MCB, Parra ER, Behrens C, Villalobos P, Reuben A, Lee JJ, Weissferdt A, Moran CA, Fujimoto J, Sepesi B, Walsh GL, Vaporciyan AA, Hofstetter WL, William WN, Jr., Gibbons DL, Wang J, Hwu P, Swisher SG, Piwnica-Worms D, Kadara H, Wistuba, II, Heymach JV, Peng W, Cascone T. (18)F-fluorodeoxyglucose positron emission tomography correlates with tumor immunometabolic phenotypes in resected lung cancer. Cancer Immunol Immunother. 2020;69(8):1519-34. Epub 2020/04/18. doi: 10.1007/s00262-020-02560-5. PubMed PMID: 32300858; PMCID: PMC7997043.

Lo SN, Ma J, Scolyer RA, Haydu LE, Stretch JR, Saw RPM, Nieweg OE, Shannon KF, Spillane AJ, Ch'ng S, Mann GJ, Gershenwald JE, Thompson JF, Varey AHR. Improved Risk Prediction Calculator for Sentinel Node Positivity in Patients With Melanoma: The Melanoma Institute Australia Nomogram. J Clin Oncol. 2020;38(24):2719-27. Epub 2020/06/13. doi: 10.1200/jco.19.02362. PubMed PMID: 32530761; PMCID: PMC7430218.

Jimenez C, Subbiah V, Stephen B, Ma J, Milton D, Xu M, Zarifa A, Akhmedzhanov FO, Tsimberidou A, Habra MA, Rodon Anhert J, Fu S, Naing A. Phase II Clinical Trial of Pembrolizumab in Patients with Progressive Metastatic Pheochromocytomas and Paragangliomas. Cancers (Basel). 2020;12(8). Epub 2020/08/23. doi: 10.3390/cancers12082307. PubMed PMID: 32824391; PMCID: PMC7465458.

Glitza Oliva IC, Tawbi HA. "Liquid Gold" - The unTAPped Potential of Cerebrospinal Fluid Analysis? Clin Cancer Res. 2020;26(9):2083-4. Epub 2020/03/07. doi: 10.1158/1078-0432.Ccr-20-0173. PubMed PMID: 32139404.

Fischer GM, Carapeto FCL, Joon AY, Haydu LE, Chen H, Wang F, Van Arnam JS, McQuade JL, Wani K, Kirkwood JM, Thompson JF, Tetzlaff MT, Lazar AJ, Tawbi HA, Gershenwald JE, Scolyer RA, Long GV, Davies MA. Molecular and immunological associations of elevated serum lactate dehydrogenase in metastatic melanoma patients: A fresh look at an old biomarker. Cancer Med. 2020;9(22):8650-61. Epub 2020/10/06. doi: 10.1002/cam4.3474. PubMed PMID: 33016647; PMCID: PMC7666738.

Davies MA. Is It Safe to Stop Anti-PD-1 Immunotherapy in Patients With Metastatic Melanoma Who Achieve a Complete Response? J Clin Oncol. 2020;38(15):1645-7. Epub 2020/02/26. doi: 10.1200/jco.20.00136. PubMed PMID: 32097093; PMCID: PMC7238487.

Chen H, Liang H. A High-Resolution Map of Human Enhancer RNA Loci Characterizes Super-enhancer Activities in Cancer. Cancer Cell. 2020;38(5):701-15.e5. Epub 2020/10/03. doi: 10.1016/j.ccell.2020.08.020. PubMed PMID: 33007258; PMCID: PMC7658066.

Ferguson SD, Bindal S, Bassett RL, Jr., Haydu LE, McCutcheon IE, Heimberger AB, Li J, O'Brien BJ, Guha-Thakurta N, Tetzlaff MT, Tawbi H, Davies MA, Glitza IC. Predictors of survival in metastatic melanoma patients with leptomeningeal disease (LMD). J Neurooncol. 2019;142(3):499-509. Epub 2019/03/09. doi: 10.1007/s11060-019-03121-2. PubMed PMID: 30847840.

Glitza IC, Rohlfs M, Guha-Thakurta N, Bassett RL, Jr., Bernatchez C, Diab A, Woodman SE, Yee C, Amaria RN, Patel SP, Tawbi H, Wong M, Hwu WJ, Hwu P, Heimberger A, McCutcheon IE, Papadopoulos N, Davies MA. Retrospective review of metastatic melanoma patients with leptomeningeal disease treated with intrathecal interleukin-2. ESMO Open. 2018;3(1):e000283. Epub 2018/02/02. doi: 10.1136/esmoopen-2017-000283. PubMed PMID: 29387478; PMCID: PMC5786950