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Summary: The studies of chromatin 3D structure help us to understand its formation and function. Techniques combining chromosome conformation capture and next generation sequencing can capture chromatin structure information and has been applied to several different species and cell lines. We built 3DGD (3D Genome Database), a database that currently collected Hi-C data on four species, for easy accessing and visualization of chromatin 3D structure data. With the integration of other omics data such as genome-wide protein–DNA-binding data, this data source would be useful for researchers interested in chromatin structure and its biological functions. Availability and implementation: The 3DGD v1.1, data browser, downloadable files and documentation are available at: http://3dgd.biosino.org/. Contact: cwang@sibs.ac.cn; gwding@sibs.ac.cn; yxli@sibs.ac.cn Supplementary information: Supplementary data are available at Bioinformatics online.

Summary: PAnnBuilder is an R package to automatically assemble protein annotation information from public resources to provide uniform annotation data for large-scale proteomic studies. Sixteen public databases have been parsed and 54 annotation packages have been constructed based on R environment or SQLite database. These ready-to-use packages cover most frequently needed protein annotation for three model species including human, mouse and rat. Several extended applications such as annotation based on protein sequence similarity are also provided. Sophisticated users can develop their own packages using PAnnBuilder. PAnnBuilder may become an important tool for proteomic research. Availability: PAnnBuilder and example annotation packages are freely available from http://www.biosino.org/PAnnBuilder/ Contact: xielu@scbit.org; yxli@sibs.ac.cn