Joint modeling of RNase footprint sequencing profiles for genome-wide inference of RNA structure

por Zou, Chenchen, Ouyang, Zhengqing
Publicado 2015

HSA: integrating multi-track Hi-C data for genome-scale reconstruction of 3D chromatin structure

por Zou, Chenchen, Zhang, Yuping, Ouyang, Zhengqing
Publicado 2016

LISA: Accurate reconstruction of cell trajectory and pseudo-time for massive single cell RNA-seq data

por Chen, Yang, Zhang, Yuping, Ouyang, Zhengqing
Publicado 2019

SeqFold: Genome-scale reconstruction of RNA secondary structure integrating high-throughput sequencing data

por Ouyang, Zhengqing, Snyder, Michael P., Chang, Howard Y.
Publicado 2013

Identification and analysis of RNA structural disruptions induced by single nucleotide variants using Riprap and RiboSNitchDB

por Lin, Jianan, Chen, Yang, Zhang, Yuping, Ouyang, Zhengqing
Publicado 2020

Exon arrays provide accurate assessments of gene expression

por Kapur, Karen, Xing, Yi, Ouyang, Zhengqing, Wong, Wing Hung
Publicado 2007

PRAS: Predicting functional targets of RNA binding proteins based on CLIP-seq peaks

por Lin, Jianan, Zhang, Yuping, Frankel, Wayne N., Ouyang, Zhengqing
Publicado 2019

A New FACS Approach Isolates hESC Derived Endoderm Using Transcription Factors

por Pan, Yuqiong, Ouyang, Zhengqing, Wong, Wing Hung, Baker, Julie C.
Publicado 2011

LISA2: Learning Complex Single-Cell Trajectory and Expression Trends

por Chen, Yang, Zhang, Yuping, Li, James Y. H., Ouyang, Zhengqing
Publicado 2021

Deciphering the role of RNA structure in translation efficiency

por Lin, Jianan, Chen, Yang, Zhang, Yuping, Lin, Haifan, Ouyang, Zhengqing
Publicado 2022

STAT3 Targets Suggest Mechanisms of Aggressive Tumorigenesis in Diffuse Large B-Cell Lymphoma

por Hardee, Jennifer, Ouyang, Zhengqing, Zhang, Yuping, Kundaje, Anshul, Lacroute, Philippe, Snyder, Michael
Publicado 2013

A new graph-based clustering method with application to single-cell RNA-seq data from human pancreatic islets

por Wu, Hao, Mao, Disheng, Zhang, Yuping, Chi, Zhiyi, Stitzel, Michael, Ouyang, Zhengqing
Publicado 2021

Rapamycin-Induced Feedback Activation of eIF4E-EIF4A Dependent mRNA Translation in Pancreatic Cancer

por Nguyen, Trang Uyen, Hector, Harrison, Pederson, Eric Nels, Lin, Jianan, Ouyang, Zhengqing, Wendel, Hans-Guido, Singh, Kamini
Publicado 2023

Correlation of Global MicroRNA Expression With Basal Cell Carcinoma Subtype

por Heffelfinger, Christopher, Ouyang, Zhengqing, Engberg, Anna, Leffell, David J., Hanlon, Allison M., Gordon, Patricia B., Zheng, Wei, Zhao, Hongyu, Snyder, Michael P., Bale, Allen E.
Publicado 2012

Landscape and variation of RNA secondary structure across the human transcriptome

por Wan, Yue, Qu, Kun, Zhang, Qiangfeng Cliff, Flynn, Ryan A., Manor, Ohad, Ouyang, Zhengqing, Zhang, Jiajing, Spitale, Robert C., Snyder, Michael P., Segal, Eran, Chang, Howard Y.
Publicado 2014

Transcriptional and Translational Dynamics of Zika and Dengue Virus Infection

por Singh, Kamini, Martinez, Maria Guadalupe, Lin, Jianan, Gregory, James, Nguyen, Trang Uyen, Abdelaal, Rawan, Kang, Kristy, Brennand, Kristen, Grünweller, Arnold, Ouyang, Zhengqing, Phatnani, Hemali, Kielian, Margaret, Wendel, Hans-Guido
Publicado 2022

Genome-wide DNA methylation profiling reveals cancer-associated changes within early colonic neoplasia

por Hanley, Matthew P., Hahn, Maria A., Li, Arthur X., Wu, Xiwei, Lin, Jianan, Wang, Jinhui, Choi, Audrey, Ouyang, Zhengqing, Fong, Yuman, Pfeifer, Gerd P., Devers, Thomas J., Rosenberg, Daniel W.
Publicado 2017

c-MYC regulates mRNA translation efficiency and start-site selection in lymphoma

por Singh, Kamini, Lin, Jianan, Zhong, Yi, Burčul, Antonija, Mohan, Prathibha, Jiang, Man, Sun, Liping, Yong-Gonzalez, Vladimir, Viale, Agnes, Cross, Justin R., Hendrickson, Ronald C., Rätsch, Gunnar, Ouyang, Zhengqing, Wendel, Hans-Guido
Publicado 2019

Gene selection for optimal prediction of cell position in tissues from single-cell transcriptomics data

por Tanevski, Jovan, Nguyen, Thin, Truong, Buu, Karaiskos, Nikos, Ahsen, Mehmet Eren, Zhang, Xinyu, Shu, Chang, Xu, Ke, Liang, Xiaoyu, Hu, Ying, Pham, Hoang VV, Xiaomei, Li, Le, Thuc D, Tarca, Adi L, Bhatti, Gaurav, Romero, Roberto, Karathanasis, Nestoras, Loher, Phillipe, Chen, Yang, Ouyang, Zhengqing, Mao, Disheng, Zhang, Yuping, Zand, Maryam, Ruan, Jianhua, Hafemeister, Christoph, Qiu, Peng, Tran, Duc, Nguyen, Tin, Gabor, Attila, Yu, Thomas, Guinney, Justin, Glaab, Enrico, Krause, Roland, Banda, Peter, Stolovitzky, Gustavo, Rajewsky, Nikolaus, Saez-Rodriguez, Julio, Meyer, Pablo
Publicado 2020