{"doi":"10.1242/dev.204775","title":"One probe fits all: a highly customizable modular RNA <i>in situ</i> hybridization platform expanding the application of SABER DNA probes","abstract":"RNA in situ hybridization (ISH) is a key method for visualizing gene expression patterns in complex samples. ISH is indispensable for research in development, disease, gene function, and validation of novel cell types identified using single-cell sequencing methods. In non-mammalian models lacking accessibility to a broad spectrum of antibodies, ISH remains a major research tool. Available ISH protocols require different custom hybridization probe types, designs and/or proprietary signal detection chemistry. This makes it difficult for a beginner to navigate and increases research costs when multiple methods need to be applied. Here, we describe OneSABER, a unified open platform connecting commonly used canonical and recently developed single- and multiplex, colorimetric and fluorescent ISH approaches. OneSABER uses a single type of DNA probes adapted from the signal amplification by exchange reaction (SABER) method. We demonstrate the applications, versatility and efficiency of the OneSABER framework in whole-mount samples of the regenerative flatworms Macrostomum lignano and Schmidtea mediterranea and formalin-fixed, paraffin-embedded mouse intestinal sections. Comprehensive comparison of the most suitable ISH signal development techniques is discussed.","journal":"Development","year":2025,"id":533798,"datarank":0.0,"base_score":0.0,"endowment":0.0,"self_citation_contribution":0.0,"citation_network_contribution":0.0,"self_endowment_contribution":0.0,"citer_contribution":0.0,"corpus_percentile":null,"corpus_rank":null,"citation_count":2,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":0.9561,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2025-01-01","fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":1415978,"name":"Mattia Stranges","orcid":"0009-0008-8512-7970","position":1,"is_corresponding":false},{"id":1415979,"name":"Filippo Volpe","orcid":"0000-0002-7748-7617","position":2,"is_corresponding":false},{"id":1415980,"name":"Jan Freark de Boer","orcid":"0000-0001-6759-3291","position":3,"is_corresponding":false},{"id":603383,"name":"Folkert Kuipers","orcid":"0000-0003-2518-737X","position":4,"is_corresponding":false},{"id":833213,"name":"Stijn Mouton","orcid":"0000-0002-1123-6268","position":5,"is_corresponding":false},{"id":45131,"name":"Eugène Berezikov","orcid":"0000-0002-1145-2884","position":6,"is_corresponding":false},{"id":833209,"name":"Kirill Ustyantsev","orcid":"0000-0003-4346-3868","position":0,"is_corresponding":true}],"reference_count":71,"raw_metadata":null,"created_at":"2026-07-19T02:51:43.451278Z","pmid":"40446186","pmcid":null,"fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":null,"fair_a":null,"fair_i":null,"fair_r":null,"fair_zscore":null,"fair_rationale":null,"fair_model":null,"fair_agent_version":null,"fair_fulltext_source":null,"fair_has_llm":null,"fair_computed_at":null,"clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}