Measuring reproducibility of high-throughput experiments von Li, Qunhua, Brown, James B., Huang, Haiyan, Bickel, Peter J.

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HiCRep: assessing the reproducibility of Hi-C data using a stratum-adjusted correlation coefficient von Yang, Tao, Zhang, Feipeng, Yardımcı, Galip Gürkan, Song, Fan, Hardison, Ross C, Noble, William Stafford, Yue, Feng, Li, Qunhua

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MEASURING REPRODUCIBILITY OF HIGH-THROUGHPUT EXPERIMENTS von Li, Qunhua, Brown, James B., Huang, Haiyan, Bickel, Peter J.

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OnTAD: hierarchical domain structure reveals the divergence of activity among TADs and boundaries von An, Lin, Yang, Tao, Yang, Jiahao, Nuebler, Johannes, Xiang, Guanjue, Hardison, Ross C, Li, Qunhua, Zhang, Yu

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Practical guidelines for the comprehensive analysis of ChIP-seq data von Bailey, Timothy, Krajewski, Pawel, Ladunga, Istvan, Lefebvre, Celine, Li, Qunhua, Liu, Tao, Madrigal, Pedro, Taslim, Cenny, Zhang, Jie

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RCFGL: Rapid Condition adaptive Fused Graphical Lasso and application to modeling brain region co-expression networks von Seal, Souvik, Li, Qunhua, Basner, Elle Butler, Saba, Laura M, Kechris, Katerina

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Measuring the reproducibility and quality of Hi-C data von Yardımcı, Galip Gürkan, Ozadam, Hakan, Sauria, Michael E G, Ursu, Oana, Yan, Koon-Kiu, Yang, Tao, Chakraborty, Abhijit, Kaul, Arya, Lajoie, Bryan R, Song, Fan, Zhan, Ye, Ay, Ferhat, Gerstein, Mark, Kundaje, Anshul, Li, Qunhua, Taylor, James, Yue, Feng, Dekker, Job, Noble, William S

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Condition-adaptive fused graphical lasso (CFGL): An adaptive procedure for inferring condition-specific gene co-expression network von Lyu, Yafei, Xue, Lingzhou, Zhang, Feipeng, Koch, Hillary, Saba, Laura, Kechris, Katerina, Li, Qunhua

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Dissecting heritability, environmental risk, and air pollution causal effects using > 50 million individuals in MarketScan von McGuire, Daniel, Markus, Havell, Yang, Lina, Xu, Jingyu, Montgomery, Austin, Berg, Arthur, Li, Qunhua, Carrel, Laura, Liu, Dajiang J., Jiang, Bibo

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Total Glucosides of Paeony Attenuates Ulcerative Colitis via Inhibiting TLR4/NF-κB Signaling Pathway von Xiang, Junying, Hu, Renwei, Li, Qunhua, Zhang, Youjin, Li, Shujin, Wang, Xue, Song, Yongyan

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CLIMB: High-dimensional association detection in large scale genomic data von Koch, Hillary, Keller, Cheryl A., Xiang, Guanjue, Giardine, Belinda, Zhang, Feipeng, Wang, Yicheng, Hardison, Ross C., Li, Qunhua

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An integrative view of the regulatory and transcriptional landscapes in mouse hematopoiesis von Xiang, Guanjue, Keller, Cheryl A., Heuston, Elisabeth, Giardine, Belinda M., An, Lin, Wixom, Alexander Q., Miller, Amber, Cockburn, April, Sauria, Michael E. G., Weaver, Kathryn, Lichtenberg, Jens, Gottgens, Berthold, Li, Qunhua, Bodine, David, Mahony, Shaun, Taylor, James, Blobel, Gerd A., Weiss, Mitchell J., Cheng, Yong, Yue, Feng, Hughes, Jim, Higgs, Douglas R., Zhang, Yu, Hardison, Ross C.

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Systematic evaluation of factors influencing ChIP-seq fidelity von Chen, Yiwen, Negre, Nicolas, Li, Qunhua, Mieczkowska, Joanna O, Slattery, Matthew, Liu, Tao, Zhang, Yong, Kim, Tae-Kyung, He, Housheng Hansen, Zieba, Jennifer, Ruan, Yijun, Bickel, Peter J, Myers, Richard M, Wold, Barbara J, White, Kevin P, Lieb, Jason D, Liu, X Shirley

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powerTCR: A model-based approach to comparative analysis of the clone size distribution of the T cell receptor repertoire von Koch, Hillary, Starenki, Dmytro, Cooper, Sara J, Myers, Richard M, Li, Qunhua

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Segmented Correspondence Curve Regression for Quantifying Covariate Effects on the Reproducibility of High-Throughput Experiments von Zhang, Feipeng, Li, Qunhua

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A continuous threshold expectile model von Zhang, Feipeng, Li, Qunhua

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A semi-parametric statistical model for integrating gene expression profiles across different platforms von Lyu, Yafei, Li, Qunhua

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A Regression Framework for Assessing Covariate Effects on the Reproducibility of High-Throughput Experiments von Li, Qunhua, Zhang, Feipeng

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Robust bent line regression von Zhang, Feipeng, Li, Qunhua

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Assessing reproducibility of high‐throughput experiments in the case of missing data von Singh, Roopali, Zhang, Feipeng, Li, Qunhua

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