Chikina Lab Publish in Nucleic Acids Research

Dr. Maria Chikina and associates contributed to a publication regarding a web-interface that provides access to a variety of tools for testing associations between epigenetic data samples.

Abstract:
Functional genomics assays produce sets of genomic regions as one of their main outputs. To biologically interpret such region-sets, researchers often use colocalization analysis, where the statistical significance of colocalization (overlap, spatial proximity) between two or more region-sets is tested. Existing colocalization analysis tools vary in the statistical methodology and analysis approaches, thus potentially providing different conclusions for the same research question. As the findings of colocalization analysis are often the basis for follow-up experiments, it is helpful to use several tools in parallel and to compare the results. We developed the Coloc-stats web service to facilitate such analyses. Coloc-stats provides a unified interface to perform colocalization analysis across various analytical methods and method-specific options (e.g. colocalization measures, resolution, null models). Coloc-stats helps the user to find a method that supports their experimental requirements and allows for a straightforward comparison across methods. Coloc-stats is implemented as a web server with a graphical user interface that assists users with configuring their colocalization analyses. Coloc-stats is freely available at https://hyperbrowser.uio.no/coloc-stats/.

Click here to view the full publication

CPCB student Jingyu Zhang from the Xing lab published a first-authored paper in NPJ Systems Biology and Applications

The Xing lab publishes a research paper in NPJ Systems Biology and Applications. The article title is Pathway crosstalk enables cells to interpret TGF-β duration, in which the researchers used systems biology approaches to address an intriguing question how a cell reads quantitative information of a signal.

Graduate student Jingyu Zhang and former postdoc researcher Xiaojun Tian (currently assistant professor at Arizona State University) are leading authors. The research was a collaboration between the Xing lab and Dr Simon Watkins at Center for Biological Imaging.

Click here to view the full publication.

2018 CPCB Recruitment Results

The results of our 2018 recruitment process for the CPCB PhD program are in, and we would like to congratulate all of the students who will be joining us this year!

CMU | Pitt

Stefan Andjelkovac
B.S. University of Belgrade
M.S., University of Cambridge

Ali Balci
B.S., Istanbul Technical University
M.S. Koc University

Neha Cheemalavagu
B.S., Case Western Reserve University

Pinar Demetci
B.S., Franklin W. Olin College of Engineering

Mohsen Ferdosi
B.S., Sharif University of Technology

Carly Houghton
B.S., George Washington University
M.A., Johns Hopkins University

Minxue Jia
B.S., Worcester Polytechnic Institute
M.S.E. Johns Hopkins University, Pitt admit

Hyun Woong (Ben) Kim
B.S., Korea Advanced Institute of Science and technology

Yang Ping (Y.P.) Kuo
B.S., University of Washington, Pitt admit

Dongshunyi (Dora) Li
B.S., Hong Kong Univ. of Science and Tech.
M.S. Duke Univ.

Ruogu Lin
B.E., Tsinghua University

Tyler Lovelace
B.S., Texas A&M University, Pitt admit

Sejoon Oh
B.S., Seoul National University

Akash Parvatikar
B.E., M R.V. College of Eng., India
M.S., Univ. of Pittsburgh, Pitt admit

Yutong Qiu
B.S., University of California, San Diego

Elysia Saputra
B.ENG., National University of Singapore, Pitt admit

Yiheng Shen
B.S., Peking University

Haotian Teng
B.S., Peking University

Jun Ho Yoon
B.S., Columbia University

Daniel Yuan
B.S., Johns Hopkins University, Pitt admit

Tianming Zhou
B.E., Tsinghua University