Author
Fred Hutch Cancer CenterORCID 0000-0002-4942-5232Unclaimed ORCID profile · follow to get notified of new preprints
5 papers
Recent·Most cited
Yiyang Niu, Qunzhi Xu, Chun Yin Mak, Yiling Xu, Aditya Parmar, Alex Zevin, Nadiya Khyzha, Ronald Paranal, Eric Holland, Kami Ahmad, Steven Henikoff, Ye Zheng
FFPE-CUTAC is a new assay for analyzing FFPE tissues that provides regulatory and copy-number profiles, showing robustness over time and compatibility with RNA-seq.
bioRxiv · Sep 22, 2026 · PreprintCancer Biology
Yiling Xu, Steven Henikoff, Kami Ahmad
The paper describes a summer research program where students learned chromatin profiling using FFPE-CUTAC, focusing on practical lab techniques and bioinformatics analysis.
Frontiers in Epigenetics and Epigenomics · Jan 26, 2026Peer-reviewedScientific Communication & Education
Steven Henikoff, Ye Zheng, Ronald M. Paranal, Yiling Xu, Jacob E. Greene, Jorja G. Henikoff, Zachary R. Russell, Frank Szulzewsky, H. Nayanga Thirimanne, Sita Kugel, Eric C. Holland, Kami Ahmad
The paper identifies RNA Polymerase II hypertranscription at histone genes in cancer FFPE samples, linking it to tumor progression and aneuploidy.
Science · Feb 13, 2025Peer-reviewedCancer Biology
Kun Yin, Meijuan Zhao, Yiling Xu, Zhong Zheng, Shanqing Huang, Dianyi Liang, He Dong, Ye Guo, Li Lin, Jia Tao Song, Huimin Zhang, Junhua Zheng, Zhi Zhu, Chaoyong James Yang
The paper introduces WPS2, a high-throughput and high-sensitivity scRNA-seq method, which improves gene and transcript detection in low RNA-content cells and nuclei.
Analytical Chemistry · Apr 10, 2024Peer-reviewedGenetics
Soyeon Showman, Paul B. Talbert, Yiling Xu, Richard O. Adeyemi, Steven Henikoff
The paper shows centromeric arrays can expand and contract in somatic cell divisions, with expansion favored, and identifies RAD52 and PIF1 as required for array changes via break-induced replication.
Cell Reports · Feb 29, 2024Peer-reviewedGenetics