{"doi":"10.1016/j.celrep.2021.110294","title":"Single-cell ATAC-seq of fetal human retina and stem-cell-derived retinal organoids shows changing chromatin landscapes during cell fate acquisition","abstract":null,"journal":"Cell Reports","year":2022,"id":625244,"datarank":0.6907755278982138,"base_score":4.605170185988092,"endowment":4.605170185988092,"self_citation_contribution":0.6907755278982138,"citation_network_contribution":0.0,"self_endowment_contribution":0.6907755278982138,"citer_contribution":0.0,"corpus_percentile":null,"corpus_rank":null,"citation_count":99,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":null,"is_data_producer":false,"deposit_databanks":null,"is_oa":false,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":null,"fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":1616708,"name":"Isabel Ortuño-Lizarán","orcid":null,"position":1,"is_corresponding":false},{"id":1029445,"name":"Akshayalakshmi Sridhar","orcid":"0000-0002-6873-0398","position":2,"is_corresponding":false},{"id":263408,"name":"Marcus Hooper","orcid":"0000-0003-1228-5958","position":3,"is_corresponding":false},{"id":1616709,"name":"Sidnee Petter","orcid":null,"position":4,"is_corresponding":false},{"id":90383,"name":"Thomas A. Reh","orcid":"0000-0002-3524-0886","position":5,"is_corresponding":false},{"id":263405,"name":"Connor Finkbeiner","orcid":"0009-0003-5466-1285","position":0,"is_corresponding":false}],"reference_count":0,"raw_metadata":{"has_enrichment":true,"resolved":true,"title":"Single-cell ATAC-seq of fetal human retina and stem-cell-derived retinal organoids shows changing chromatin landscapes during cell fate acquisition","abstract":"We previously used single-cell transcriptomic analysis to characterize human fetal retinal development and assessed the degree to which retinal organoids recapitulate normal development. We now extend the transcriptomic analyses to incorporate single-cell assay for transposase-accessible chromatin sequencing (scATAC-seq), a powerful method used to characterize potential gene regulatory networks through the changes in accessible chromatin that accompany cell-state changes. The combination of scATAC-seq and single-cell RNA sequencing (scRNA-seq) provides a view of developing human retina at an unprecedented resolution. We identify key transcription factors relevant to specific fates and the order of the transcription factor cascades that define each of the major retinal cell types. The changing chromatin landscape is largely recapitulated in retinal organoids; however, there are differences in Notch signaling and amacrine cell gene regulation. The datasets we generated constitute an excellent resource for the continued improvement of retinal organoid technology and have the potential to inform and accelerate regenerative medicine approaches to retinal diseases.","is_dataset_classified":null,"base_score":4.605170185988092,"endowment":4.605170185988092,"datacite_reuse_total":0,"file_count":0,"downloads":0,"views":0,"has_version_chain":false,"is_dataset":false,"is_oa":false,"pmid":"35081356","pmcid":null,"openalex_id":"https://openalex.org/W4207076979","authors":[],"funders":[{"funder_name":"Generalitat Valenciana","grant_id":"APOSTD/2020/245","title":null},{"funder_name":"Foundation Fighting Blindness Inc","grant_id":"FFB TA-RM-0620-0788-UWA","title":null},{"funder_name":"The Paul G Allen Frontiers Group","grant_id":"","title":null},{"funder_name":"Foundation Fighting Blindness","grant_id":"","title":null}],"total_grants":4,"fwci":6.9756,"citation_percentile":0.98225867,"influential_citations":0,"citation_trend":[{"year":2012,"count":1},{"year":2022,"count":13},{"year":2023,"count":37},{"year":2024,"count":22},{"year":2025,"count":12},{"year":2026,"count":14}],"oa_status":"gold","license":"cc-by-nc-nd","oa_locations":[{"url":"http://www.cell.com/article/S221112472101809X/pdf","host_type":"journal"},{"url":"http://www.cell.com/article/S221112472101809X/pdf","host_type":"publisher"},{"url":"https://api.elsevier.com/content/article/PII:S221112472101809X?httpAccept=text/xml","host_type":"publisher"},{"url":"https://api.elsevier.com/content/article/PII:S221112472101809X?httpAccept=text/plain","host_type":"publisher"},{"url":"https://doi.org/10.1016/j.celrep.2021.110294","host_type":"journal"},{"url":"https://pubmed.ncbi.nlm.nih.gov/35081356","host_type":"repository"},{"url":"https://doaj.org/article/c9d49e68a0e5432f963f8e6390518512","host_type":"repository"}],"fields_of_study":["Single-cell and spatial transcriptomics","Retinal Development and Disorders","CRISPR and Genetic Engineering"],"mesh_terms":["Human Embryonic Stem Cells","RNA-Seq","Cell Differentiation","Chromatin","Fetus","Humans","Organoids","Retina","Neurogenesis","Single-Cell Analysis"],"keywords":["Biology","Chromatin","Retina","Organoid","Transcriptome","Cell fate determination","Transcription factor","Cell biology","Retinal","Stem cell","Cell type","Cell","Computational biology","Genetics","Gene","Neuroscience","Gene expression","Development","Gene regulation","Epigenetics"],"sdg_mappings":[],"linked_datasets":[],"clinical_trials":[],"software_tools":[],"database_accessions":[],"source":"live","citation_network_status":"fetched"},"created_at":"2026-08-04T06:14:05.990872Z","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":[]}