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Center for Cancer Systems Biology


Publications

2019

Jimenez L , Yu H , McKenzie AJ , Franklin JL , Patton JG , Liu Q , Weaver AM , Quantitative Proteomic Analysis of Small and Large Extracellular Vesicles (EVs) Reveals Enrichment of Adhesion Proteins in Small EVs Journal of proteome research. 2019 Jan 23; 18 (3). 947-959
Paudel BB , Quaranta V , Metabolic plasticity meets gene regulation Proceedings of the National Academy of Sciences of the United States of America. 2019 Feb 08; 116 (9). 3370-3372

2018

Doxie DB , Greenplate AR , Gandelman JS , Diggins KE , Roe CE , Dahlman KB , Sosman JA , Kelley MC , Irish JM , BRAF and MEK inhibitor therapy eliminates Nestin-expressing melanoma cells in human tumors Pigment cell & melanoma research. 2018 Jun 28; 31 (6). 708-719
Sung BH , Weaver AM , Directed migration: Cells navigate by extracellular vesicles The Journal of cell biology. 2018 Jul 05; 217 (8). 2613-2614
Wang J , Zhao Y , Zhou X , Hiebert SW , Liu Q , Shyr Y , Nascent RNA sequencing analysis provides insights into enhancer-mediated gene regulation BMC genomics. 2018 Aug 23; 19 (1). 633
Lehman JM , Hoeksema MD , Staub J , Qian J , Harris B , Callison JC , Miao J , Shi C , Eisenberg R , Chen H , Chen SC , Massion PP , Somatostatin receptor 2 signaling promotes growth and tumor survival in small-cell lung cancer International journal of cancer. 2018 Oct 09; 144 (5). 1104-1114
Gandelman JS , Byrne MT , Mistry AM , Polikowsky HG , Diggins KE , Chen H , Lee SJ , Arora M , Cutler C , Flowers M , Pidala J , Irish JM , Jagasia MH , Machine learning reveals chronic graft–host disease phenotypes and stratifies survival after stem cell transplant for hematologic malignancies Haematologica. 2018 Sep 20; 104 (1). 189-196
Liu Q , Herring CA , Sheng Q , Ping J , Simmons AJ , Chen B , Banerjee A , Li W , Gu G , Coffey RJ , Shyr Y , Lau KS , Quantitative assessment of cell population diversity in single-cell landscapes PLoS biology. 2018 Oct 22; 16 (10). e2006687
Greenplate AR , McClanahan DD , Oberholtzer BK , Doxie DB , Roe CE , Diggins KE , Leelatian N , Rasmussen ML , Kelley MC , Gama V , Siska PJ , Rathmell JC , Ferrell PB , Johnson DB , Irish JM , Computational Immune Monitoring Reveals Abnormal Double-Negative T Cells Present across Human Tumor Types Cancer immunology research. 2018 Nov 09; 7 (1). 86-99
Iams WT , Beckermann KE , Almodovar K , Hernandez J , Vnencak-Jones C , Lim LP , Raymond CK , Horn L , Lovly CM , Small Cell Lung Cancer Transformation as a Mechanism of Resistance to PD-1 Therapy in KRAS-Mutant Lung Adenocarcinoma: A Report of Two Cases Journal of thoracic oncology : official publication of the International Association for the Study of Lung Cancer. 2018 Dec 10; 14 (3). e45-e48
Mistry AM , Greenplate AR , Ihrie RA , Irish JM , Beyond the message: advantages of snapshot proteomics with single-cell mass cytometry in solid tumors The FEBS journal. 2018 Dec 13;

Wang J , Dai X , Berry LD , Cogan JD , Liu Q , Shyr Y , HACER: an atlas of human active enhancers to interpret regulatory variants Nucleic acids research. ; 47 (D1). D106-D112