probeBase

probeBase is a manually maintained and curated database of rRNA-targeted oligonucleotide probes and primers. Contextual information and multiple options for evaluating in silico hybridization performance against the most recent rRNA sequence databases are provided for each oligonucleotide entry, which makes probeBase an important and frequently used resource for microbiology research and diagnostics. The major features of probeBase include a classification of probes and primers according to the NCBI taxonomy database, a powerful and customizable search function, which serves to query for target organisms, probe names, primers, target sites, and references. The probeBase match tool can be used to match near-full length rRNA sequences against probeBase and find all published probes targeting the query sequences. The new proxy match tool extends this analysis to partial rRNA sequences, which exploits full-length sequences in the rRNA sequence database SILVA to find published probes potentially targeting partial query sequences. A tool for submitting new or missing probe sequences or references helps to keep probeBase up-to-date.probeBase是一款人工维护并经精选的靶向核糖体RNA（ribosomal RNA, rRNA）的寡核苷酸探针与引物数据库。针对每一条寡核苷酸条目，均提供了背景信息以及多种可用于针对最新核糖体RNA序列数据库开展计算机模拟杂交性能评估的方案，这使得probeBase成为微生物学研究与诊断领域一款重要且被频繁使用的资源。该数据库的核心特性包括：依据NCBI分类学数据库对探针与引物进行分类；配备强大且可自定义的搜索功能，可用于查询目标生物、探针名称、引物、靶位点及参考文献。probeBase匹配工具可将接近全长的核糖体RNA序列与该数据库进行比对，筛选出所有已发表的、靶向该查询序列的探针。新增的代理匹配工具则将此分析拓展至部分核糖体RNA序列，该工具借助核糖体RNA序列数据库SILVA中的全长序列，找出潜在靶向该部分查询序列的已发表探针。此外，数据库还设有用于提交新探针序列、参考文献，或补充缺失的探针序列与参考文献的工具，以维持probeBase的实时更新。

搜集汇总

背景与挑战

背景概述

probeBase是一个手动维护的rRNA靶向寡核苷酸探针和引物数据库，提供评估工具和搜索功能以支持微生物学研究和诊断。它包含分类、序列匹配和代理匹配等核心功能，帮助用户查询和匹配探针与引物。