Bioinformatics and Integrative Biology

The Lab

Gene Regulation

As members of the ENCODE and psychENCODE consortia, we study the molecular mechanism of gene regulation by integrating genomic, epigenomic, and transcriptomic data. Furthermore, we study how genetic variations in the human population affect gene regulation and susceptibility for diseases. We build and apply computational algorithms for analyzing a wide variety of genome-wide deep sequencing data such as ChIP-seq, RNA-seq, DNA-seq, DNase-seq, DNAme-seq, DNA replication, ribosomal profiling, etc.

Meet the Lab

Research Focus

Protein Docking

We develop methods to compute binding affinities between protein molecules. Combining this ability with a fast Fourier transform-­based search algorithm, we develop computational methods for predicting protein-­complex structures. We take a multiple-­stage approach, i.e., we have developed an initial-­stage algorithm ZDOCK to perform an exhaustive search in the translational and rotational space, and refinement algorithms for structure refinement and reranking. We design T cell receptors with enhanced binding affinity or altered binding specificity.

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Publications

Kobertz Publications
Tsuji J, Weng Z. (2016) 
DNApi: A De Novo Adapter Prediction Algorithm for Small RNA Sequencing Data. 
Plos One Oct 13;11(10):e0164228.doi: 10.1371/journal.pone.0162228. eCollection. (PMCID: PMC5063419)
 
All Publications

 

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Contact Us

Office:
Albert Sherman Center 5-1069
Campus Map (pdf)

Phone:
508-856-8866 (office)

Email:
Zhiping.Weng@umassmed.edu

Mailing Address:
University of Massachusetts Medical School
Attn: Dr. Zhiping Weng
Program in Bioinformatics and Integrative Biology
368 Plantation St AS5-1069
Worcester, MA 01605

Join Us

We are always interested in applications from qualified candidates at postdoctoral and research associate levels.

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Undergraduates interested in pursuing a PhD at UMass Medical School should apply directly to the Graduate School of Biomedical Sciences Program.