Selected Journal Papers

for full list, See also my Google Scholar.

Cancer Genomics

Liye Zhang *(Co-corresponding author), Chih-Cheng Yang, Xaralabos Varelas, Stefano Monti*. Altered A-to-I RNA editing in 3' UTR perturbs microRNA-mediated regulation of oncogenes and tumor suppressor genes. Scientific Reports 2016 Mar 16; 6:23226 (pdf)

Claudia Voena*, Lydia Varesio*, Liye Zhang* (Co-first author), Matteo Menotti, Teresa Poggio, Elena Panizza, Qi Wang, Valerio Minero, Shamila Fagonee, Mara Compagno, Fiorella Altruda, Stefano Monti, Roberto Chiarle. Oncogenic ALK regulates EMT in Non-Small Cell Lung Carcinoma through repression of the epithelial splicing regulatory protein 1. Oncotarget 2016 May 31;7(22):33316-30. (pdf)

Bjoern Chapuy, Margaretha Roemer, Chip Stewart, Yuxiang Tan, Ryan Abo, Liye Zhang, Andrew Dunford, David Meredith, Aaron Thorner, Ekaterina Jordanova, Gang Liu, Friedrich Feuerhake, Matthew Ducar, Gerald Illerhaus, Daniel Gusenleitner, Erica Linden, Heather Sun, Heather Homer, Miyuki Aono, Geraldine Pinkus, Azra Ligon, Keith Ligon Judith Ferry, Gordon Freeman, Paul Hummelen, Todd Golub, Gad Getz, Scott Rodig, Daphne Jong, Stefano Monti, Margaret Shipp. Targetable genetic features of primary testicular and primary central nervous system lymphomas. Blood 2016 Feb 18; 127 (7):869-881 (pdf)

Bjoern Chapuy, Hongwei Cheng, Akira Watahiki, Matthew Ducar, Daniel Gusenleitner, Linfeng Chen, Margaretha Roemer, Jing Quyang, Amanda Christie, Liye Zhang, Yuxiang Tan, Ryan Abo, Frederike Bonin, Aaron Thorner, Heather Sun, Geraldine Pinkus, Paul van Hummelen, Gerald Wulf, Jon Aster,David Weinstock, Stefano Monti, Scott Rodig, Yuzhuo Wang, Margaret Shipp. Diffuse Large B-cell Lymphoma Patient-derived Xenograft Models Capture the Molecular and Biologic Heterogeneity of the Disease. (E-published in Blood)(pdf)

Samantha Hiemer, Liye Zhang, Vinay Kartha, Munirah Almershed, Stefano Monti, Maria Kukuruzinska, Xaralabos Varelas. A YAP/TAZ-regulated transcriptional signature associated with Oral Squamous Cell Carcinoma. Molecular Cancer Research. 2015 Jun; 13(6): 957-968 (pdf)

Epigenetics/Chromatin Regulation

Liye Zhang, Hong Ma, Frank Pugh. Stable and dynamic nucleosome states during a meiotic developmental process. Genome Research 2011 Jun; 21(6): 875-884. (pdf)

Ho Sung Rhee, Alain R. Bataille, Liye Zhang, Benjamin F Pugh. Subnucleosomal Structures and Nucleosome Asymmetry Across a Genome. Cell 2014 Dec 4; 159(6): 1377-1388 (pdf)

Pathogen Trypanosoma Transcription

Takuma Suematsu*, Liye Zhang*(Co-first author), Inna Aphasizheva, Stefano Monti, Lan Huang, Catherine Costello, Ruslan Aphasizhev. Antisense Transcripts Impede Uridylation-induced Exonucleolytic Degradation to Generate Guide RNAs. Molecular Cell 2016 Feb 4; 61 (3): 364-378 (pdf)

Inna Aphasizheva*, Liye Zhang*(Co-first author), Xiaorong Wang, Robyn Kaake, Lan Huang, Stefano Monti and Ruslan Aphasizhev. RNA binding and core complexes constitute the u-insertion/deletion editosome. Molecular and Cellular Biology 2014 Dec 1; 34(23): 4329-42 (pdf)