Li Tingting's research group of Nucleic Acids Research released a new version of the phase isolated protein database PhaSepDB

Phase separation refers to the process
by which biological macromolecules (proteins, DNA, RNAs, etc.

Recently, Li Tingting's research group in the Department of Medical Bioinformatics of Peking University School of Basic Medicine published an article online in the journal Nucleic Acids Research "PhaSepDB in 2022: annotating phase separation-related proteins with droplet states, co-phase separation partners, and other.

In this work, the authors first review the data in the first edition of the database [1] and add new comments
.
Subsequently, the authors searched at PuBMed 1812 phase-isolated protein-related papers published between 2019/07/01 (first edition indexing deadline) and 2022/04/01, from which new phase-isolated proteins were manually collected and annotated
.
At present, PhaSepDB contains a total of 1419 phase isolation experimental entries (a total of 868 proteins).

The authors divide phase separation entries into two categories, PS-self: proteins can occur phase separation alone in vitro; PS-other: Proteins rely on mutual partners for in vitro phase isolation and/or only in vivo phase isolation experimental basis
.

Table 1 ? Overview of datasets in PhaSepDB v1.

The new database provides detailed annotations (Table 1) on phase isolate protein experiment entries, including:

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In addition to experimentally validated phase isolate proteins, the database contains a large number of membraneless organelle-localized proteins
.

Figure 1: PhaSepDB2.
1 database interface introduction

Through the updated phase separation database (Figure 1), users can search for currently known phase isolation proteins as well as membraneless organelle proteins
where phase separation may occur.
Based on these data, researchers can further investigate the properties of phase isolate proteins, such as the properties of phase isolate proteins that can occur alone in vitro[2], the formation of differences in liquid and colloid solid condensate proteins, mutations or post-translational modifications that affect protein phase separation capabilities, and the key segments and domains
that mediate protein phase separation.

Li Tingting, a researcher in the Department of Medical Bioinformatics of Peking University School of Basic Medicine, is the corresponding author of this paper, and Hou Chao, a doctoral student of Peking University School of Basic Medicine, Wang Xinxin, an undergraduate student, and Xie Haotai, a doctoral student of Peking University First Hospital, are the first authors
of this paper.

Original link: https://academic.

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(School of Basic Medicine, Peking University)