Journal Articles

*Indicates equal contribution as first authors.

Sun, R.*, Bouchard, M.B.*, Hillman, E.M.C. SPLASSH: open source software for camera-based high-speed, multispectral in-vivo optical image acquisition. Biomedical Optics Express 2010; 1(2): 375-397.

Wang, Z., Claus-Henn, B., Wang, C., Wei, Y., Su, L., Sun, R., Chen, H., Wagner, P.J., Lu, Q., Lin, X., Wright, R., Bellinger, D., Kile, M., Mazumdar, M., Tellez-Rojo, M.M., Schaas, L., Christiani, D.C. Genome-wide gene by Pb exposure interaction analysis identifies UNC5D as a candidate gene for neurodevelopment. Environmental Health 2-17; 16(1): 81.

Sun, R., Carroll, R.J., Christiani, D.C., Lin, X. Testing for gene-environment interaction under exposure misspecification. Biometrics 2018; 74(2): 653-662.

Orkaby, A., Rich, M.W., Sun, R., Lux, E., Wei, L.J., Kim, D.H. Pravastin for primary prevention in older adults: restricted mean survival time analysis. Journal of the American Geriatric Society 2018; 66(10): 1987-1991.

Sun, R., Wang, Z., Claus-Henn, B., Su, L., Lu, Q., Lin, X., Wright, R., Bellinger, D., Kile, M., Mazumdar, M., Tellez-Rojo, M.M., Schnaas, L., Christiani, D.C. Identification of novel loci associated with infant cognitive ability. Molecular Psychiatry 2018; 1-10.

Sun, R., Hui, S., Bader, G., Lin, X., Kraft, P. Powerful gene set analysis in GWAS with the Generalized Berk-Jones statistic. PLOS Genetics 2019; 15(3): e1007530.

Gaynor, S.*; Sun, R.*, Lin, X., Quackenbush, J. Identification of differentially expressed gene sets using the Generalized Berk-Jones statistic. Bioinformatics 2019; 35(22): 4568-4576.

Sun, R., Lin, X. Set-based tests for genetic association using the Generalized Berk-Jones statistic. Journal of the American Statistical Association 2020; 115(53): 1079-1091.

Park, H-R., Panganibana, R.A., Sun, R., Shumyatcher, M., Himes, B.E., Christiani, D.C., Lu, Q. MicroRNA-124 protects neural cells against arsenic-induced endoplasmic reticulum stress and cytotoxicity in vitro and is associated with neurodevelopmental outcomes in children. Scientific Reports 2020; 10(1): 1-11.

Li, X., Li, Z., Zhou, H., Gaynor, S., Liu, Y., Chen, H., Sun, R., …, Lin, X. Dynamic incorporation of multiple in-silico functional annotations empowers rare variant association analysis of large whole genome sequencing studies at scale. Nature Genetics 2020; 52(9): 969-983.

Colina, A., Hwang H., Wang, H., Katz, M., Sun, R., Lee, J., Tzeng, C., Wolff, R., Raghav, K., Overman, M. Natural history and prognostic factors for localized small bowel adenocarcinoma. ESMO Open 2020; 5(6): e000960.

Deng, Q., Han, G., Puebla-Osorio, N., Ma, M.C.J., Strati, P., Chasen, B., Dai, E., Dang, M., Jain, N., Yang, H., Wang, Y., Zhang, S., Wang, R., Chen, R., Showell, H., Ghosh, S., Patchva, S., Zhang, Q., Sun, R., …, Green, M.R. Characteristics of anti-CD19 CAR T-cell infusion products associated with efficacy and toxicity in patients with large B-cell lymphomas. Nature Medicine 2020; 26(12): 18878-1887

Zhu, L., Cai, D., Li, Y., Tong, X., Sun, R., Srivastava, D., Hudson, M. Maximum likelihood estimation for the proportional odds model with mixed interval-censored failure time data. Journal of Applied Statistics 2021; 48(8):1496-1512.

Sun, R., Xu, M., Li, X., Gaynor, S., Zhou, H., Bosse, Y., Lam, S., Tsao, M., Tardon, A., Chen, C., Doherty, J., Goodman, G., Egil Bojesen, S., Teresa, M.T., Johansson, M., Field, J.K., Bickeboller, H., Wichmann, H., Risch, A., Rennert, G., Arnold, S., Wu, X., Melander, O., Brunnstr ̈om, H., Marchand, L.L., Zong, X., Liu, G., Andrew, A., Duell, E., Kiemeney, L.A., Shen, H., Haugen, A., Johansson, M., Grankvist, K., Caporaso, N., Woll, P., Teare, M.D., Scelo, G., Hong, Y., Yuan, J., Lazarus, P., Schabath, M.B., Aldrich, M.C., Albanes, D., Brennan, P., Barbie, D., Mak, R., Hung, R.J., Amos, C.I., Christiani, D.C., Lin, X. Identification of inflammation and immune-related risk variants associated with squamous cell lung cancer. Genetic Epidemiology 2021; 45(1): 99-114.

Kim, D., Li, X., Bian, S., Wei, L.J., Sun, R. Effect of dementia drugs on nursing home placement: what is the meaningful metric? JAMA Network Open 2021; 4(1): e2034745.

Strati, S., Ahmed, S., Furqan, F., …, Sun, R., Claussen, C., Hawkins, M., Johnson, N., Singh, P., Mistry, H., Johncy, S., Adkins, S., Kebriaei, P., Shpall, E., Green, M., Flowers, C., Westin, J., Neelapu, S. Prognostic impact of corticosteroids on efficacy of chimeric antigen receptor t-cell therapy in large b-cell lymphoma. Blood 2021; 137(23): 3272-3276.

Alhalabi, O., Soomro, Z., Sun, R., Hasanov, E., Albittar, A., Tripathy, D., Valero, V., Ibrahim, N. Outcomes of changing systemic therapy in patients with relapsed breast cancer and 1 to 3 brain metastases. NPJ Breast Cancer 2021; 7(1): 1-5.

Yam, C., Rauch, G., Rahman, T., Karuturi, M., Ravenberg, E., White, J., Clayborn, A., McCarthy, P., Abouharb, S., Lim, B., Litton, J., Ramirez, D., Saleem, S., Stec, J., Symmans, W., Huo, L., Damodaran, S., Sun, R., Moulder, S. A phase II study of mirvetuximab soravtansine in triple- negative breast cancer. Investigational New Drugs 2021; 39(2): 509-515.

Han, G., Yang, G., Hao, D., Lu, Y., Thein, K., Chen, J., Sun, R., …, Wang, L. 9p21 loss confers a cold tumor immune microenvironment and primary resistance to immune checkpoint therapy. Nature Communications 2021; 12(1): 1-19.

Xu, M., Tapia, C., Hajjar, J., …, Sun, R., Karp, D., Koay, E., Yang, Y., Wistuba, I., Hwu, P., Meric-Bernstam, F., Naing, A. Implementation of a novel web-based lesion selection tool to improve acquisition of biopsies. Journal of Immunotherapy and Precision Oncology 2021: 4(2): 45-52.

Yam, Y., Yen, E., Chang, T., …, Sun, R., Moulder, S., Mittendorf E. Immune phenotype and response to neoadjuvant therapy in triple-negative breast cancer. Clinical Cancer Research 2021; 27(19): 5356-5375.

Sun, R.*, McCaw, Z.*, Tian, L., Uno, H., Hong, F., Kim, D., Wei, L.J. Moving beyond conventional stratified analysis to assess the treatment effect in a comparative oncology study. Journal for Immunotherapy of Cancer 2021; 9(11): e003323.

Kaseb, A., Hasanov, E., Cao, H., …, Sun, R., Vittorio, C., Beretta, L., Yao, J., Wolff, R., Allison, J., Sharma, P. Perioperative nivolumab monotherapy plus ipilimumab in resectable hepatocellular carcinoma. The Lancet Gastroenterology & Hepatology 2022; 7(3):208-218.

Li, Y., Xiao, X., Li, J., …, Sun, R., …, Willey, J., Gaba, C., Amos, C. Genome-wide interaction analysis identified low-frequency variants with sex disparity in lung cancer risk. Human Molecular Genetics 2022; 31(16):2831-2843.

Grover, P., Veilleux O., Tian, L., Sun, R., Previtera, M., Curran, E., Muffly, L. Chimeric antigen receptor-T cell therapy in adults with B-cell acute lymphoblastic leukemia: a systematic review. Blood Advances 2022 6(5):1608-1618.

McCaw, Z., Gaynor, S., Sun, R., Lin X. Cross-tissue eQTL mapping in the presence of missing data via surrogate outcome analysis. Biometrics 2022+ (in press).

Li, X., Yung G., Zhou H., Sun, R., Li, Z., Liu X., Ionita-Laza, I., Lin X. A multi-dimensional integrative scoring framework for predicting functional variants in the human genome. American Journal of Human Genetics 2022; 109(3):446-456.

Sun, R., Liang, Z., Li, Y., Yutaka, Y., Robison, L. Inference for set-based effects in genetic association studies with interval-censored outcomes. Biometrics 2022+ (in press).

Yam, C.,* Abuhadra, N.,* Sun, R.,* Ding, Q., …, Huo, L., Moulder, S., Chang, J. Molecular characterization and prospective evaluation of pathological response and outcomes with neoadjuvant therapy in metaplastic triple-negative breast cancer. Clinical Cancer Research 2022; 28(13):2878-2889.

Huang, B.,* Sun, R.,* Claggett, B., Tian, L., Ludmir, E.B., Wei, L.J. Handling informative premature treatment or study discontinuation for assessing between-group differences in a comparative oncology trial. JAMA Oncology 2022; 8(10):1502-1503.

Sun, R., Shi, A.,Lin, X. Differences in genetic set-based inference for sparse signals when testing sets of outcomes compared to sets of explanatory factors. Biostatistics 2022; kxac036.

Li, Z., Li, X., Zhou, H., Gaynor, S.M., Selvaraj, M.S., Arapoglou, T., Quick, C., Liu, Y., Chen, H., Sun, R., …, Lin, X. A framework for detecting noncoding rare variant associations of large-scale whole-genome sequencing studies. Nature Genetics 2022; 19(12):1599-1611.

Cherng, H.J., Sun, R., Sugg, B., Yang, H., Irwin, R., Deng, Q., Fayad, L., Fowler, N., Par- mar, S., Steiner, R., Hagemeister, F., Nair, R., Lee, H.J., Rodriguez, M., Samaniego, F., Iyer, S., Flowers, C., Wang, L., Nasoupil, L.J., Neelapu, S.S., Ahmed, S., Strati, P., Green, M.R., Westin, J. Risk assessment with low-pass whole-genome sequencing of cell-free DNA before CD19 CAR T-cell therapy for large B-cell lymphoma. Blood 2022; 140(5):504-515.

Byun, J., Han, Y., Li, Y., Xia, J., Xiao, X., Sun, R., …, Amos, C. Cross-ancestry genome-wide meta-analysis of 61,047 cases and 947,237 controls identifies new susceptibility loci contributing to lung cancer. Nature Genetics 2022; 54(8):1167-1177.

Westin, J., Davis, R., Feng, L., …, Sun, R., Scott, D., Flowers, C., Neelapu, S., Green, M.R. SmartStart: rituximab, lenalidomide, and ibrutinib in large B-cell lymphoma. Journal of Clinical Oncology 2023; 41(4):745-755.

Sohn, A.J., Taherian, M., Katz, M.H.G, …, Sun, R., Maitra, A., Wang, H. Integrated pathologic score effectively stratifies patients with pancreatic ductal adenocarcinoma who received neoadjuant therapy and pancreaticoduodenectomy. American Journal of Surgical Pathology 2023; 47(4):421- 430.

Raghav, K., Ou, F., Venook, A.P., Innocenti, F., Sun, R., Lenz, H., Kopetz, S. Acquired Genomic Alterations on First-Line Chemotherapy With Cetuximab in Advanced Colorectal Cancer: Circulating Tumor DNA Analysis of the CALGB/SWOG-80405 Trial (Alliance). Journal of Clinical Oncology 2023; 41(3):472-478.

Li, X., Quick C., Zhou, H., Gaynor, S.M., Lu, Y., Chen, H., Sun, R., …, Lin, X. Powerful, scalable and resource-efficient meta-analysis of rare variant associations in large whole-genome sequencing studies. Nature Genetics 2023; 55(1):154-164.

Parseghian, C.,* Sun, R.,*, Woods, M.,* Napolitano, S.,* Nunez, S., Sorokin, A., Kanikarla, P., Eluri, M., Morris, V.K., Willis, J., Evilar, E., Rehn, M., Ang, A., Troiani, T., Kopetz, S. Resistance mechanisms to anti–epidermal growth factor receptor therapy in RAS/RAF wild-type colorectal cancer vary by regimen and line of therapy. Journal of Clinical Oncology 2023; 41(3):460-471.

Yam, C., Mittendorf, E.A., Garber, H.R., Sun, R., Damodaran, S., Murthy, R.K., Ramirez, D., Karuturi, M., Layman, R.M., Ibrahim, N., Rauch, G.M. A phase II study of neoadjuvant atezolizumab and nab-paclitaxel in patients with anthracycline-resistant early-stage triple-negative breast cancer. Breast Cancer Research and Treatment 2023; 1-13.

Han, Y., Byun, J., Zhu, C., Sun, R., Roh, J.Y., Cordell, H.J., Lee, H.S., Shaw, V.R., Kang, S.W., Razjouyan, J., …, Amos, C.I. Multitrait genome-wide analyses identify new susceptibility loci and candidate drugs to primary sclerosing cholangitis. Nature Communications 2023; 14(1):1069.

Patni, T., Lee, C.T., Li, Y., Kaste, S., Zhu, L., Sun, R., Hudson, M.M., Ness, K.K., Neumann, A., Robison, L.L. Factors for poor oral health in long-term childhood cancer survivors. BMC Oral Health 2023; 23(1):1-11.

Zeineddine, F.A., Zeineddine, M.A., Yousef, A., Gu, Y., Chowdhury, S., Dasari, A., Huey, R.W., Johnson, B., Kee, B., Lee, M.S., …, Sun, R., Kopetz, S., Shen, J.P. Survival improvement for patients with metastatic colorectal cancer over twenty years. NPJ Precision Oncology 2023; 7(1):16.

Sun, R., Sun, D., Liang, Z., Sun, J. Regression analysis of general mixed recurrent event data. Lifetime Data Analysis 2023+ (in press)

Napolitano, S., Parikh, A.R., Henry, J., Parseghian, C.M., Willis, J., Raghav, K.P., Morris, V.K., Johnson, B., Kee, B.K., Dasari, A.N., Overman, M.J., Luthra, R., Drusbosky, L.M., Corcoran, R.B., Kopetz, S., Sun, R. A novel clinical tool to estimate risk of false negative KRAS mutations in circulating tumor DNA testing. JCO Precision Oncology 2023+ (in press)

Chamseddine, S., Mohamed, Y.I., Lee, S.S., Yao, J.C., Hu, Z.I., Cao, H.S.T., Xiao, L., Sun, R., Morris, J.S., Hatia, R.I., …, Kaseb, A.O. Clinical and Prognostic Biomarker Value of Blood Circulating Inflammatory Cytokines in Hepatocellular Carcinoma. Oncology 2023+ (in press)

Wang, H., Moniruzzaman, R., Li, L., Ji, B., Liu, Y., Zuo, X., Abbasgholizadeh, R., Zhao, J., Liu, G., Wang, R., Tang, H., Sun, R., …, Wang, H.Hematopoietic progenitor kinase 1 inhibits the development and progression of pancreatic intraepithelial neoplasia. The Journal of Clinical Investigation 2023+ (in press)

Strati, P., Jallouk, A., Deng, Q., Li, X., Feng, L., Sun, R., Adkins, S., Johncy, S., Cain, T., Steiner, R.E., Ahmed, S. A phase 1 study of prophylactic anakinra to mitigate ICANS in patients with large b-cell lymphoma. Blood Advances 2023+ (in press)

Antonoff, M.B., Kui, N., Sun, R., Deboever, N., Hofstetter, W., Mehran, R.J., Morris, V.K., Rice, D.C., Swisher, S.G., Vaporciyan, A.A., Walsh, G.L., Rajaram, R. Factors associated with receipt of pulmonary metastasectomy in patients with lung-limited metastatic colorectal cancer: disparities in care and impact on overall survival. The Journal of Thoracic and Cardiovascular Surgery 2023+ (in press)

Sherry, A.D., Msaouel, P., McCaw, Z., Jaoude, J.A., Hsu, E.J., Kouzy, R., Patel, R., Yang, Y., Lin, T.A., Taniguchi, C., Rodel, C., Fokas, E., Tang, C., Fuller, C.D., Minsky, B., Meirson, T., Sun, R., Ludmir, E.B. Prevalence and implications of significance testing for baseline covariate imbalance in randomised cancer clinical trials: the table 1 fallacy. European Journal of Cancer 2023+ (in press)

Papers Receiving Peer Review

Sun, R., McCaw, Z., Lin, X. Large-scale testing of composite null hypothesis in genetic asso- ciation studies. In revision for Journal of the American Statistical Association.

Choi, J., Xu, Z., Sun, R. Set-based inference for multiple interval-censored outcomes in genetic association studies. In revision for Statistics in Medicine.

Published Correspondence

Sun, R., Horiguchi, M., Wei, L.J. Interpreting the benefit of frifluirdine/tipiracil in metastatic colorectal cancer with respect to progression-free survival and overall survival. Journal of Clinical Oncology 2018; 36(13): 1378.

Sun, R., Rich, M.W., Wei, L.J. Pembrolizumab plus chemotherapy in lung cancer. New England Journal of Medicine 2018; 379(11): e18.

Sun, R., Nie, L., Huang, B., Kim, D.H., Wei, L.J. Quantifying immunoscore performance. The Lancet 2018; 392(10158): 1624.

Sun, R., Wei, L.J. Regional Hyperthermia With Neoadjuvant Chemotherapy for Treatment of Soft Tissue Sarcoma. JAMA Oncology 2019; 5(1): 112-113.

Sun, R., Zhu, H., Wei, L.J. Assessing the prognostic value of automated bone scan index in prostate cancer. JAMA Oncology 2019; 5(2): 270.

Sun, R., Orkaby, A.O., Kim, D.H., Zhu, H., Wei, L.J. Interpreting non-inferiority of biodegradable- polymer stents to durable-polymer stents. The Lancet 2019; 393(10184): 1932-1933.

Sun, R., Lee, H., Wei, L.J. Interpreting the long-term prognostic value of total mesorectal excision plane quality in rectal adenocarcinoma. JAMA Surgery 2019; 154(1): 96.

Sun, R., Kim, D.H., and Wei, L.J. Analysis of overall survival benefit of abemaciclib plus fulvestrant in hormone receptor-positive, ERBB-2 negative breast cancer. JAMA Oncology 2020; 6(7): 1121-1122.

Sun, R., Messick, C., and Wei, L.J. Quantifying benefit from two-stage turnbull-cutait pull-through coloanal anastomosis for low rectal cancer. JAMA Surgery 2021; 156(2): 202-203.

Sun, R., Tian, L., and Wei, L.J. Evaluating long-term efficacy of neoadjuvant chemoradiotherapy plus surgery for the treatment of locally advanced esophageal squamous cell carcinoma. JAMA Surgery 2022; 157(5):458-459.

Sun, R. and Wei, L.J. Quantifying clinical utility of enzalutamide for overall survival in metastatic hormone-sensitive prostate cancer. Journal of Clinical Oncology 2022; 40(36):4278-4279.

Sun, R. and Wei, L.J. Quantifying clinical utility of adjuvant abemaciclib in patients with high-risk early breast cancer who received neoadjuvant chemotherapy. JAMA Oncology 2022; 8(11):1701.

Sun, R. and Wei, L.J. Pembrolizumab in triple-negative breast cancer. New England Journal of Medicine 2023; 387(15):1435.

Sun, R., Huang, B., Wei, L.J. Comparing short- and long-term treatment duration of bevacizumab for advanced ovarian cancer. Journal of Clinical Oncology 2023; 41(10):1952-1953.

Sun, R. and Wei, L.J. Efficacy, safety, and analysis issues in a study of intraoperative hyperthermic intraperitoneal chemotherapy for locally advanced colon cancer. JAMA Surgery 2023+