{"doi":"10.1101/2022.04.13.488233","title":"Fast, Efficient, and Accurate Neuro-Imaging Denoising via Deep Learning","abstract":"Volumetric functional imaging is widely used for recording neuron activities in vivo , but there exist tradeoffs between the quality of the extracted calcium traces, imaging speed, and laser power. While deep-learning methods have recently been applied to denoise images, their applications to downstream analyses, such as recovering high-SNR calcium traces, have been limited. Further, these methods require temporally-linked pre-registered data with ultrafast rates. Here, we demonstrate supervised deep-denoising methods to circumvent these tradeoffs for several applications, including whole-brain imaging, large field-of-view imaging in freely moving animals, and recovering complex neurite structures in C. elegans . Our framework has 30x smaller memory footprint, and is fast in training and inference (50-70ms); it is highly accurate and generalizable, and further, only small, non-temporally-sequential, independently-acquired training datasets (∼500 images) are needed. We envision that the framework will enable faster and long-term imaging experiments necessary to study neuronal mechanisms of many behaviors.","journal":"bioRxiv (Cold Spring Harbor Laboratory)","year":2022,"id":306865,"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":0,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":0.9451,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2022-01-01","fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":861805,"name":"Sihoon Moon","orcid":"0000-0003-4540-9443","position":1,"is_corresponding":false},{"id":302031,"name":"Hang Lu","orcid":"0000-0002-6881-660X","position":2,"is_corresponding":false},{"id":564368,"name":"Shivesh Chaudhary","orcid":"0000-0002-1928-0933","position":0,"is_corresponding":true}],"reference_count":54,"raw_metadata":null,"created_at":"2026-07-19T00:32:52.703737Z","pmid":null,"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":[]}