Nuclear receptors (NRs) are a class of essential proteins that regulate the expression of specific genes and are associated with multiple diseases. In silico methods for prescreening potential NR binders with predictive binding ability are highly desired for NR-related drug development but are rarely reported. Here, we present the PbsNRs (Predicting binders and scaffolds for Nuclear Receptors), a user-friendly web server designed to predict the potential NR binders and scaffolds through proteochemometric modeling. The utility of PbsNRs was systemically evaluated using both chemical compounds and natural products. Results indicated that PbsNRs achieved a good prediction performance for chemical compounds on internal (ROC-AUC = 0.906, where ROC is Receiver-Operating Characteristic curve and AUC is the Area Under the Curve) and external (ROC-AUC = 0.783) datasets, outperforming both compound-ligand interaction tools and NR-specific predictors. PbsNRs also successfully identified bioactive chemical scaffolds for NRs by screening massive natural products. Moreover, the predicted bioactive and inactive natural products for NR2B1 were experimentally validated using biosensors. PbsNRs not only aids in screening potential therapeutic NR binders but also helps discover the essential molecular scaffold and guide the drug discovery for multiple NR-related diseases. The PbsNRs web server is available at http://pbsnrs.badd-cao.net.

The increasing popularity of social media promotes the proliferation of misinformation, especially in the communities of Chinese-speaking diasporas, which has caused significant negative societal impacts. In addition, most of the existing efforts on misinformation mitigation have focused on English and other western languages, which makes numerous overseas Chinese a very vulnerable population to online disinformation campaigns. In this paper, we present AMICA, an information retrieval system for alleviating misinformation for Chinese Americans. AMICA dynamically collects data from popular social media platforms for Chinese Americans, including WeChat, Twitter, YouTube, and Chinese forums. The data are stored and indexed in Elasticsearch to provide advanced search functionalities. Given a user query, the ranking of social media posts considers both topical relevance and the likelihood of being misinformation.

Professional news media organizations have always touted the importance that they give to multiple perspectives. However, in practice, the traditional approach to all-sides has favored people in the dominant culture. Hence it has come under ethical critique under the new norms of diversity, equity, and inclusion (DEI). When DEI is applied to journalism, it goes beyond conventional notions of impartiality and bias and instead democratizes the journalistic practice of sourcing -- who is quoted or interviewed, who is not, how often, from which demographic group, gender, and so forth. There is currently no real-time or on-demand tool in the hands of reporters to analyze the persons they quote. In this paper, we present DIANES, a DEI Audit Toolkit for News Sources. It consists of a natural language processing pipeline on the backend to extract quotes, speakers, titles, and organizations from news articles in real time. On the frontend, DIANES offers the WordPress plugins, a Web monitor, and a DEI annotation API service, to help news media monitor their own quoting patterns and push themselves towards DEI norms.

MOTIVATION: Genomic imprinting is regulated by lncRNAs and is important for embryogenesis, physiology and behaviour in mammals. Aberrant imprinting causes diseases and disorders. Experimental studies have examined genomic imprinting primarily in humans and mice, thus leaving some fundamental issues poorly addressed. The cost of experimentally examining imprinted genes in many tissues in diverse species makes computational analysis of lncRNAs' DNA binding sites valuable. RESULTS: We performed lncRNA/DNA binding analysis in imprinting clusters from multiple mammalian clades and discovered the following: (i) lncRNAs and imprinting sites show significant losses and gains and distinct lineage-specificity; (ii) binding of lncRNAs to promoters of imprinted genes may occur widely throughout the genome; (iii) a considerable number of imprinting sites occur in only evolutionarily more derived species; and (iv) multiple lncRNAs may bind to the same imprinting sites, and some lncRNAs have multiple DNA binding motifs. These results suggest that the occurrence of abundant lncRNAs in mammalian genomes makes genomic imprinting a mechanism of adaptive evolution at the epigenome level. AVAILABILITY AND IMPLEMENTATION: The data and program are available at the database LongMan at lncRNA.smu.edu.cn. CONTACT: [email protected]. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.