Core B - Bioinformatics Research Resource. The objectives of this Research Resource (Core) are as follows: provide bioinformatics capabilities to support the proposed Research Projects, to enable data sharing, and to provide the capacity to link with the BETRNet Coordination Center. This Core will also address timely sharing of data, including data on the availability of biospecimens at the Research Center, and their submission for centralized data collection at the Coordinating Center. The Core B investigators will work closely with the Project 1 investigators to choose a panel of candidate genes that will be studied in larger sets of samples at the protein level using tissue microarrays in Aim 2. A smaller subset of these genes would then be further selected to be part of a screening strategy to guide tissue biopsy collection in patients, and so we seek candidate genes that can be expected to perform well at discriminating high-grade dysplasia in this ultimate task. In addition, the Core B investigators will work closely with the Project 2 investigators to support statistical analyses for the validation of candidate peptides on purified protein targets and cell lines engineered to overexpress these targets, including T-tests or ANOVAs, and to support the study design for the Phase 1 clinical studies of the peptide panel. Moreover, the Core B investigators will work closely with the Core C investigators to validate the panel of peptides on endoscopically resected specimens of esophageal mucosa by comparing the log-transformed intensity measurements between the different histological classifications (squamous, metaplasia, low-grade dysplasia (LGD), high-grade dysplasia (HGD), and adenocarcinoma) using 1-way ANOVAs and painwise comparisons between the two higher-grade categories (HGD, adenocarcinoma).

National Institute of Health (NIH)
Specialized Center--Cooperative Agreements (U54)
Project #
Application #
Study Section
Special Emphasis Panel (ZCA1)
Project Start
Project End
Budget Start
Budget End
Support Year
Fiscal Year
Total Cost
Indirect Cost
University of Michigan Ann Arbor
Ann Arbor
United States
Zip Code
Abrams, Julian A; Appelman, Henry D; Beer, David G et al. (2014) Barrett's Esophagus Translational Research Network (BETRNet): the pivotal role of multi-institutional collaboration in esophageal adenocarcinoma research. Gastroenterology 146:1586-90
Leicht, Deborah T; Kausar, Tasneem; Wang, Zhuwen et al. (2014) TGM2: a cell surface marker in esophageal adenocarcinomas. J Thorac Oncol 9:872-81
Atreya, Raja; Neumann, Helmut; Neufert, Clemens et al. (2014) In vivo imaging using fluorescent antibodies to tumor necrosis factor predicts therapeutic response in Crohn's disease. Nat Med 20:313-8
McVeigh, Patrick Z; Sacho, Raphael; Weersink, Robert A et al. (2014) High-resolution angioscopic imaging during endovascular neurosurgery. Neurosurgery 75:171-80; discussion 179-80
Yang, Chenying; Hou, Vivian W; Girard, Emily J et al. (2014) Target-to-background enhancement in multispectral endoscopy with background autofluorescence mitigation for quantitative molecular imaging. J Biomed Opt 19:76014
Joshi, Bishnu P; Wang, Thomas D (2014) Imaging: Dynamic imaging of gut function--allowing the blind to see. Nat Rev Gastroenterol Hepatol 11:584-6
Sturm, Matthew B; Joshi, Bishnu P; Lu, Shaoying et al. (2013) Targeted imaging of esophageal neoplasia with a fluorescently labeled peptide: first-in-human results. Sci Transl Med 5:184ra61
Sturm, Matthew B; Piraka, Cyrus; Elmunzer, B Joseph et al. (2013) In vivo molecular imaging of Barrett's esophagus with confocal laser endomicroscopy. Gastroenterology 145:56-8
Tomizawa, Yutaka; Iyer, Prasad G; Wong Kee Song, Louis M et al. (2013) Safety of endoscopic mucosal resection for Barrett's esophagus. Am J Gastroenterol 108:1440-7; quiz 1448
Khondee, Supang; Wang, Thomas D (2013) Progress in molecular imaging in endoscopy and endomicroscopy for cancer imaging. J Healthc Eng 4:1-22

Showing the most recent 10 out of 17 publications