Abstract
The 2018 update of the biopanning data bank (BDB) stores phage display data sequenced by Sanger sequencing and next generation sequencing technologies. In this work, we upgraded the database with more biopanning data sets and several new features, including (i) incorporation of next generation biopanning data and the unselected population where the target is not determined and the round of screening is zero; (ii) addition of sequencing information; (iii) improvement of browsing and searching systems and 3 D chemical structure viewer; (iv) integration of standalone tools for target-unrelated peptides analysis within conventional phage display and next generation phage display (NGPD) data. In the current version of BDB (released on 19 January 2018), the database houses 3291 sets of biopanning data collected from 1540 published articles, including 95 NGPD data sets and 3196 traditional biopanning data sets. The BDB database serves as an important and comprehensive resource for developing peptide ligands. Database URL: The BDB database is available at http://immunet.cn/bdb
Highlights
Phage display allows the high throughput screening of phage-displayed libraries against multiple target molecules such as miRNAs [1], proteins [2, 3], polysaccharides [4], cells [5] and tissues [6]
We describe a significant upgrade to the biopanning data bank (BDB) database
The BDB database is the largest archive for biopanning data, which provides a valuable resource for ligand development related studies
Summary
Phage display allows the high throughput screening of phage-displayed libraries against multiple target molecules such as miRNAs [1], proteins [2, 3], polysaccharides [4], cells [5] and tissues [6]. Generation phage display (NGPD) possesses the challenge of evaluating which sequences are the most ideal ligands since the biopanning results are still a mixture of target-binding peptides and TUPs. To exclude any potential TUPs and identify peptides binding to KS483 cells, 0tHoen and coworkers filtered all peptides with a frequency of 2 or higher in the naıve library and hits in PepBank and SAROTUP and selected target-related peptides from the remaining list of peptides [24].
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