{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,5,8]],"date-time":"2026-05-08T07:57:37Z","timestamp":1778227057667,"version":"3.51.4"},"reference-count":70,"publisher":"Oxford University Press (OUP)","issue":"D1","license":[{"start":{"date-parts":[[2022,9,21]],"date-time":"2022-09-21T00:00:00Z","timestamp":1663718400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/"}],"funder":[{"name":"Karolinska Institute Network Medicine Global Alliance Collaborative","award":["C24401073"],"award-info":[{"award-number":["C24401073"]}]},{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["8210100902"],"award-info":[{"award-number":["8210100902"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Nature Science Foundation of Shandong Province","award":["ZR2021MH393"],"award-info":[{"award-number":["ZR2021MH393"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2023,1,6]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:p>Single-cell RNA-sequencing (scRNA-seq) is one of the most used single-cell omics in recent decades. The exponential growth of single-cell data has immense potential for large-scale integration and in-depth explorations that are more representative of the study population. Efforts have been made to consolidate published data, yet extensive characterization is still lacking. Many focused on raw-data database constructions while others concentrate mainly on gene expression queries. Hereby, we present HTCA (www.htcatlas.org), an interactive database constructed based on \u223c2.3 million high-quality cells from \u223c3000 scRNA-seq samples and comprised in-depth phenotype profiles of 19 healthy adult and matching fetal tissues. HTCA provides a one-stop interactive query to gene signatures, transcription factor (TF) activities, TF motifs, receptor\u2013ligand interactions, enriched gene ontology (GO) terms, etc. across cell types in adult and fetal tissues. At the same time, HTCA encompasses single-cell splicing variant profiles of 16 adult and fetal tissues, spatial transcriptomics profiles of 11 adult and fetal tissues, and single-cell ATAC-sequencing (scATAC-seq) profiles of 27 adult and fetal tissues. Besides, HTCA provides online analysis tools to perform major steps in a typical scRNA-seq analysis. Altogether, HTCA allows real-time explorations of multi-omics adult and fetal phenotypic profiles and provides tools for a flexible scRNA-seq analysis.<\/jats:p>","DOI":"10.1093\/nar\/gkac791","type":"journal-article","created":{"date-parts":[[2022,9,21]],"date-time":"2022-09-21T21:13:37Z","timestamp":1663794817000},"page":"D1019-D1028","source":"Crossref","is-referenced-by-count":27,"title":["HTCA: a database with an in-depth characterization of the single-cell human transcriptome"],"prefix":"10.1093","volume":"51","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-7467-6992","authenticated-orcid":false,"given":"Lu","family":"Pan","sequence":"first","affiliation":[{"name":"Institute of Environmental Medicine, Karolinska Institutet , Solna\u00a017165, Sweden"},{"name":"Department of Medical Epidemiology and Biostatistics, Karolinska Institutet , Solna\u00a017165, Sweden"}]},{"given":"Shaobo","family":"Shan","sequence":"additional","affiliation":[{"name":"Department of Neurosurgery, Beijing Tiantan Hospital, Capital Medical University , Beijing\u00a0100050, China"}]},{"given":"Roman","family":"Tremmel","sequence":"additional","affiliation":[{"name":"Dr. Margarete Fischer-Bosch Institute of Clinical Pharmacology , Stuttgart\u00a070376, Germany"},{"name":"University of Tuebingen , Tuebingen\u00a072076, Germany"}]},{"given":"Weiyuan","family":"Li","sequence":"additional","affiliation":[{"name":"School of Medicine, Yunnan University , Kunnan,\u00a0Yunnan\u00a0650091, China"}]},{"given":"Zehuan","family":"Liao","sequence":"additional","affiliation":[{"name":"Department of Microbiology, Tumor, and Cell Biology, Karolinska Institute , Solna\u00a017177, Sweden"},{"name":"School of Biological Sciences, Nanyang Technological University , 637 551, Singapore"}]},{"given":"Hangyu","family":"Shi","sequence":"additional","affiliation":[{"name":"Department of Acupuncture, Guang\u2019anmen Hospital, China Academy of Chinese Medical Sciences , Beijing\u00a0100029, China"}]},{"given":"Qishuang","family":"Chen","sequence":"additional","affiliation":[{"name":"Graduate School, Beijing University of Chinese Medicine , Beijing\u00a0100029, China"}]},{"given":"Xiaolu","family":"Zhang","sequence":"additional","affiliation":[{"name":"Department of Physiology and Pathophysiology, School of Basic Medical Sciences, Cheeloo College of Medicine, Shandong University , Jinan,\u00a0Shandong\u00a0250012, China"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5824-9720","authenticated-orcid":false,"given":"Xuexin","family":"Li","sequence":"additional","affiliation":[{"name":"Department of Medical Biochemistry and Biophysics, Karolinska Institutet , Solna\u00a017165, Sweden"}]}],"member":"286","published-online":{"date-parts":[[2022,9,21]]},"reference":[{"key":"2023010804314439200_B1","doi-asserted-by":"crossref","first-page":"393","DOI":"10.1016\/j.immuni.2022.02.006","article-title":"Single-cell immunology: past, present, and future","volume":"55","author":"Ginhoux","year":"2022","journal-title":"Immunity"},{"key":"2023010804314439200_B2","doi-asserted-by":"crossref","first-page":"484","DOI":"10.1038\/s41577-021-00646-4","article-title":"Immune ageing at single-cell resolution","volume":"22","author":"Mogilenko","year":"2021","journal-title":"Nat. Rev. Immunol."},{"key":"2023010804314439200_B3","doi-asserted-by":"crossref","first-page":"4307","DOI":"10.1038\/s41467-020-18158-5","article-title":"Single cell transcriptomics comes of age","volume":"11","author":"Aldridge","year":"2020","journal-title":"Nat. Commun."},{"key":"2023010804314439200_B4","doi-asserted-by":"crossref","first-page":"7","DOI":"10.1016\/j.molcel.2019.05.003","article-title":"Single-Cell RNA sequencing in cancer: lessons learned and emerging challenges","volume":"75","author":"Suv\u00e0","year":"2019","journal-title":"Mol. Cell"},{"key":"2023010804314439200_B5","doi-asserted-by":"crossref","first-page":"1349","DOI":"10.1038\/s41556-018-0236-7","article-title":"Tumour heterogeneity and metastasis at single-cell resolution","volume":"20","author":"Lawson","year":"2018","journal-title":"Nat. Cell Biol."},{"key":"2023010804314439200_B6","doi-asserted-by":"crossref","first-page":"11","DOI":"10.1016\/j.neuron.2020.12.010","article-title":"Single-Cell sequencing of brain cell transcriptomes and epigenomes","volume":"109","author":"Armand","year":"2021","journal-title":"Neuron"},{"key":"2023010804314439200_B7","doi-asserted-by":"crossref","first-page":"D991","DOI":"10.1093\/nar\/gks1193","article-title":"NCBI GEO: archive for functional genomics data sets\u2013update","volume":"41","author":"Barrett","year":"2013","journal-title":"Nucleic Acids Res."},{"key":"2023010804314439200_B8","doi-asserted-by":"crossref","first-page":"e27041","DOI":"10.7554\/eLife.27041","article-title":"The human cell atlas","volume":"6","author":"Regev","year":"2017","journal-title":"Elife"},{"key":"2023010804314439200_B9","doi-asserted-by":"crossref","first-page":"D82","DOI":"10.1093\/nar\/gkaa1028","article-title":"The european nucleotide archive in 2020","volume":"49","author":"Harrison","year":"2020","journal-title":"Nucleic Acids Res."},{"key":"2023010804314439200_B10","doi-asserted-by":"crossref","first-page":"466","DOI":"10.1038\/s41586-020-2797-4","article-title":"Cells of the adult human heart","volume":"588","author":"Litvi\u0148ukov\u00e1","year":"2020","journal-title":"Nature"},{"key":"2023010804314439200_B11","doi-asserted-by":"crossref","first-page":"1461","DOI":"10.1126\/science.aat5031","article-title":"Spatiotemporal immune zonation of the human kidney","volume":"365","author":"Stewart","year":"2019","journal-title":"Science"},{"key":"2023010804314439200_B12","doi-asserted-by":"crossref","first-page":"107","DOI":"10.1038\/s41586-021-03570-8","article-title":"COVID-19 tissue atlases reveal SARS-CoV-2 pathology and cellular targets","volume":"595","author":"Delorey","year":"2021","journal-title":"Nature"},{"key":"2023010804314439200_B13","doi-asserted-by":"crossref","first-page":"eabl4896","DOI":"10.1126\/science.abl4896","article-title":"The tabula sapiens: a multiple-organ, single-cell transcriptomic atlas of humans","volume":"376","author":"Jones","year":"2022","journal-title":"Science"},{"key":"2023010804314439200_B14","doi-asserted-by":"crossref","first-page":"eaba7721","DOI":"10.1126\/science.aba7721","article-title":"A human cell atlas of fetal gene expression","volume":"370","author":"Cao","year":"2020","journal-title":"Science"},{"key":"2023010804314439200_B15","doi-asserted-by":"crossref","first-page":"D596","DOI":"10.1093\/nar\/gkab1020","article-title":"DISCO: a database of deeply integrated human single-cell omics data","volume":"50","author":"Li","year":"2022","journal-title":"Nucleic Acids Res."},{"key":"2023010804314439200_B16","doi-asserted-by":"crossref","first-page":"D721","DOI":"10.1093\/nar\/gky900","article-title":"CellMarker: a manually curated resource of cell markers in human and mouse","volume":"47","author":"Zhang","year":"2019","journal-title":"Nucleic Acids Res."},{"key":"2023010804314439200_B17","doi-asserted-by":"crossref","first-page":"3375","DOI":"10.4049\/jimmunol.1700272","article-title":"JingleBells: a repository of immune-related single-cell RNA-Sequencing datasets","volume":"198","author":"Ner-Gaon","year":"2017","journal-title":"J. Immunol."},{"key":"2023010804314439200_B18","doi-asserted-by":"crossref","first-page":"baz046","DOI":"10.1093\/database\/baz046","article-title":"PanglaoDB: a web server for exploration of mouse and human single-cell RNA sequencing data","volume":"2019","author":"Franz\u00e9n","year":"2019","journal-title":"Database"},{"key":"2023010804314439200_B19","doi-asserted-by":"crossref","first-page":"303","DOI":"10.1038\/s41586-020-2157-4","article-title":"Construction of a human cell landscape at single-cell level","volume":"581","author":"Han","year":"2020","journal-title":"Nature"},{"key":"2023010804314439200_B20","doi-asserted-by":"crossref","first-page":"eabh2169","DOI":"10.1126\/sciadv.abh2169","article-title":"A single-cell type transcriptomics map of human tissues","volume":"7","author":"Karlsson","year":"2021","journal-title":"Sci. Adv."},{"key":"2023010804314439200_B21","doi-asserted-by":"crossref","first-page":"D900","DOI":"10.1093\/nar\/gky939","article-title":"CancerSEA: a cancer single-cell state atlas","volume":"47","author":"Yuan","year":"2019","journal-title":"Nucleic Acids Res."},{"key":"2023010804314439200_B22","doi-asserted-by":"crossref","first-page":"D1413","DOI":"10.1093\/nar\/gkaa838","article-title":"SC2disease: a manually curated database of single-cell transcriptome for human diseases","volume":"49","author":"Zhao","year":"2020","journal-title":"Nucleic Acids Res."},{"key":"2023010804314439200_B23","doi-asserted-by":"crossref","first-page":"1083","DOI":"10.1038\/nmeth.4463","article-title":"SCENIC: single-cell regulatory network inference and clustering","volume":"14","author":"Aibar","year":"2017","journal-title":"Nat. Methods"},{"key":"2023010804314439200_B24","doi-asserted-by":"crossref","first-page":"25","DOI":"10.1038\/75556","article-title":"Gene ontology: tool for the unification of biology. The gene ontology consortium","volume":"25","author":"Ashburner","year":"2000","journal-title":"Nat. Genet."},{"key":"2023010804314439200_B25","doi-asserted-by":"crossref","first-page":"D325","DOI":"10.1093\/nar\/gkaa1113","article-title":"The gene ontology resource: enriching a GOld mine","volume":"49","author":"Gene Ontology Consortium","year":"2020","journal-title":"Nucleic Acids Res."},{"key":"2023010804314439200_B26","doi-asserted-by":"crossref","first-page":"eabl4290","DOI":"10.1126\/science.abl4290","article-title":"Single-nucleus cross-tissue molecular reference maps toward understanding disease gene function","volume":"376","author":"Eraslan","year":"2022","journal-title":"Science"},{"key":"2023010804314439200_B27","doi-asserted-by":"crossref","first-page":"3512","DOI":"10.1038\/s41467-019-11461-w","article-title":"Quantifying the impact of public omics data","volume":"10","author":"Perez-Riverol","year":"2019","journal-title":"Nat. Commun."},{"key":"2023010804314439200_B28","doi-asserted-by":"crossref","first-page":"111","DOI":"10.1038\/s41586-021-03465-8","article-title":"Comparative cellular analysis of motor cortex in human, marmoset and mouse","volume":"598","author":"Bakken","year":"2021","journal-title":"Nature"},{"key":"2023010804314439200_B29","doi-asserted-by":"crossref","first-page":"61","DOI":"10.1038\/s41586-019-1506-7","article-title":"Conserved cell types with divergent features in human versus mouse cortex","volume":"573","author":"Hodge","year":"2019","journal-title":"Nature"},{"key":"2023010804314439200_B30","doi-asserted-by":"crossref","first-page":"72","DOI":"10.1038\/s41586-018-0654-5","article-title":"Shared and distinct transcriptomic cell types across neocortical areas","volume":"563","author":"Tasic","year":"2018","journal-title":"Nature"},{"key":"2023010804314439200_B31","doi-asserted-by":"crossref","first-page":"eaat7615","DOI":"10.1126\/science.aat7615","article-title":"Integrative functional genomic analysis of human brain development and neuropsychiatric risks","volume":"362","author":"Li","year":"2018","journal-title":"Science"},{"key":"2023010804314439200_B32","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1186\/s13059-019-1906-x","article-title":"scRNA-seq assessment of the human lung, spleen, and esophagus tissue stability after cold preservation","volume":"21","author":"Madissoon","year":"2019","journal-title":"Genome Biol."},{"key":"2023010804314439200_B33","doi-asserted-by":"crossref","first-page":"D29","DOI":"10.1093\/nar\/gki098","article-title":"The EMBL nucleotide sequence database","volume":"33","author":"Kanz","year":"2005","journal-title":"Nucleic Acids Res."},{"key":"2023010804314439200_B34","doi-asserted-by":"crossref","first-page":"594","DOI":"10.1126\/science.aat1699","article-title":"Single-cell transcriptomes from human kidneys reveal the cellular identity of renal tumors","volume":"361","author":"Young","year":"2018","journal-title":"Science"},{"key":"2023010804314439200_B35","doi-asserted-by":"crossref","first-page":"250","DOI":"10.1038\/s41586-021-03852-1","article-title":"Cells of the human intestinal tract mapped across space and time","volume":"597","author":"Elmentaite","year":"2021","journal-title":"Nature"},{"key":"2023010804314439200_B36","doi-asserted-by":"crossref","first-page":"619","DOI":"10.1038\/s41586-020-2922-4","article-title":"A molecular cell atlas of the human lung from single-cell RNA sequencing","volume":"587","author":"Travaglini","year":"2020","journal-title":"Nature"},{"key":"2023010804314439200_B37","doi-asserted-by":"crossref","first-page":"3573","DOI":"10.1016\/j.cell.2021.04.048","article-title":"Integrated analysis of multimodal single-cell data","volume":"184","author":"Hao","year":"2021","journal-title":"Cell"},{"key":"2023010804314439200_B38","doi-asserted-by":"crossref","first-page":"1718","DOI":"10.1016\/j.celrep.2019.09.082","article-title":"DoubletDecon: deconvoluting doublets from single-cell RNA-Sequencing data","volume":"29","author":"DePasquale","year":"2019","journal-title":"Cell Rep."},{"key":"2023010804314439200_B39","doi-asserted-by":"crossref","first-page":"D988","DOI":"10.1093\/nar\/gkab1049","article-title":"Ensembl 2022","volume":"50","author":"Cunningham","year":"2021","journal-title":"Nucleic Acids Res."},{"key":"2023010804314439200_B40","doi-asserted-by":"crossref","first-page":"417","DOI":"10.1038\/nmeth.4197","article-title":"Salmon provides fast and bias-aware quantification of transcript expression","volume":"14","author":"Patro","year":"2017","journal-title":"Nat. Methods"},{"key":"2023010804314439200_B41","doi-asserted-by":"crossref","first-page":"65","DOI":"10.1186\/s13059-019-1670-y","article-title":"Alevin efficiently estimates accurate gene abundances from dscRNA-seq data","volume":"20","author":"Srivastava","year":"2019","journal-title":"Genome Biol."},{"key":"2023010804314439200_B42","doi-asserted-by":"crossref","first-page":"1287","DOI":"10.1093\/bioinformatics\/btab807","article-title":"Isoform-level quantification for single-cell RNA sequencing","volume":"38","author":"Pan","year":"2021","journal-title":"Bioinformatics"},{"key":"2023010804314439200_B43","doi-asserted-by":"crossref","first-page":"540","DOI":"10.1038\/s41586-022-04918-4","article-title":"Single-cell roadmap of human gonadal development","volume":"607","author":"Garcia-Alonso","year":"2022","journal-title":"Nature"},{"key":"2023010804314439200_B44","doi-asserted-by":"crossref","first-page":"1698","DOI":"10.1038\/s41588-021-00972-2","article-title":"Mapping the temporal and spatial dynamics of the human endometrium in vivo and in vitro","volume":"53","author":"Garcia-Alonso","year":"2021","journal-title":"Nat. Genet."},{"key":"2023010804314439200_B45","doi-asserted-by":"crossref","first-page":"111","DOI":"10.1038\/s41586-022-04541-3","article-title":"Human distal lung maps and lineage hierarchies reveal a bipotent progenitor","volume":"604","author":"Kadur\u00a0Lakshminarasimha\u00a0Murthy","year":"2022","journal-title":"Nature"},{"key":"2023010804314439200_B46","doi-asserted-by":"crossref","first-page":"379","DOI":"10.1016\/j.cell.2021.12.018","article-title":"Spatial proteogenomics reveals distinct and evolutionarily conserved hepatic macrophage niches","volume":"185","author":"Guilliams","year":"2022","journal-title":"Cell"},{"key":"2023010804314439200_B47","doi-asserted-by":"crossref","first-page":"eabg3750","DOI":"10.1126\/sciadv.abg3750","article-title":"Comprehensive analysis of spatial architecture in primary liver cancer","volume":"7","author":"Wu","year":"2021","journal-title":"Sci. Adv."},{"key":"2023010804314439200_B48","doi-asserted-by":"crossref","first-page":"1869","DOI":"10.1016\/j.cmet.2021.07.018","article-title":"Spatial mapping reveals human adipocyte subpopulations with distinct sensitivities to insulin","volume":"33","author":"B\u00e4ckdahl","year":"2021","journal-title":"Cell Metab."},{"key":"2023010804314439200_B49","doi-asserted-by":"crossref","first-page":"810","DOI":"10.1016\/j.cell.2020.12.016","article-title":"Spatiotemporal analysis of human intestinal development at single-cell resolution","volume":"184","author":"Fawkner-Corbett","year":"2021","journal-title":"Cell"},{"key":"2023010804314439200_B50","doi-asserted-by":"crossref","first-page":"757","DOI":"10.1101\/gr.214874.116","article-title":"Direct determination of diploid genome sequences","volume":"27","author":"Weisenfeld","year":"2017","journal-title":"Genome Res."},{"key":"2023010804314439200_B51","doi-asserted-by":"crossref","first-page":"eaba7612","DOI":"10.1126\/science.aba7612","article-title":"A human cell atlas of fetal chromatin accessibility","volume":"370","author":"Domcke","year":"2020","journal-title":"Science"},{"key":"2023010804314439200_B52","doi-asserted-by":"crossref","first-page":"5985","DOI":"10.1016\/j.cell.2021.10.024","article-title":"A single-cell atlas of chromatin accessibility in the human genome","volume":"184","author":"Zhang","year":"2021","journal-title":"Cell"},{"key":"2023010804314439200_B53","doi-asserted-by":"crossref","first-page":"12","DOI":"10.1186\/s13059-019-1850-9","article-title":"A benchmark of batch-effect correction methods for single-cell RNA sequencing data","volume":"21","author":"Tran","year":"2020","journal-title":"Genome Biol."},{"key":"2023010804314439200_B54","doi-asserted-by":"crossref","first-page":"1289","DOI":"10.1038\/s41592-019-0619-0","article-title":"Fast, sensitive and accurate integration of single-cell data with harmony","volume":"16","author":"Korsunsky","year":"2019","journal-title":"Nat. Methods"},{"key":"2023010804314439200_B55","doi-asserted-by":"crossref","first-page":"296","DOI":"10.1186\/s13059-019-1874-1","article-title":"Normalization and variance stabilization of single-cell RNA-seq data using regularized negative binomial regression","volume":"20","author":"Hafemeister","year":"2019","journal-title":"Genome Biol."},{"key":"2023010804314439200_B56","doi-asserted-by":"crossref","first-page":"170","DOI":"10.1136\/bmj.310.6973.170","article-title":"Multiple significance tests: the bonferroni method","volume":"310","author":"Bland","year":"1995","journal-title":"BMJ"},{"key":"2023010804314439200_B57","doi-asserted-by":"crossref","first-page":"632","DOI":"10.1186\/1471-2164-14-632","article-title":"An expression atlas of human primary cells: inference of gene function from coexpression networks","volume":"14","author":"Mabbott","year":"2013","journal-title":"BMC Genomics"},{"key":"2023010804314439200_B58","doi-asserted-by":"crossref","first-page":"163","DOI":"10.1038\/s41590-018-0276-y","article-title":"Reference-based analysis of lung single-cell sequencing reveals a transitional profibrotic macrophage","volume":"20","author":"Aran","year":"2019","journal-title":"Nat. Immunol."},{"key":"2023010804314439200_B59","doi-asserted-by":"crossref","first-page":"884","DOI":"10.1038\/s41467-018-03282-0","article-title":"Characterizing the replicability of cell types defined by single cell RNA-sequencing data using metaneighbor","volume":"9","author":"Crow","year":"2018","journal-title":"Nat. Commun."},{"key":"2023010804314439200_B60","doi-asserted-by":"crossref","first-page":"1484","DOI":"10.1038\/s41596-020-0292-x","article-title":"CellPhoneDB: inferring cell\u2013cell communication from combined expression of multi-subunit ligand\u2013receptor complexes","volume":"15","author":"Efremova","year":"2020","journal-title":"Nat. Protoc."},{"key":"2023010804314439200_B61","doi-asserted-by":"crossref","first-page":"e47","DOI":"10.1093\/nar\/gkv007","article-title":"limma powers differential expression analyses for RNA-sequencing and microarray studies","volume":"43","author":"Ritchie","year":"2015","journal-title":"Nucleic Acids Res."},{"key":"2023010804314439200_B62","doi-asserted-by":"crossref","first-page":"289","DOI":"10.1111\/j.2517-6161.1995.tb02031.x","article-title":"Controlling the false discovery rate: a practical and powerful approach to multiple testing","volume":"57","author":"Benjamini","year":"1995","journal-title":"J. R. Stat. Soc. B (Methodological)"},{"key":"2023010804314439200_B63","doi-asserted-by":"crossref","first-page":"192","DOI":"10.1038\/s41467-021-27729-z","article-title":"Zero-preserving imputation of single-cell RNA-seq data","volume":"13","author":"Linderman","year":"2022","journal-title":"Nat. Commun."},{"key":"2023010804314439200_B64","doi-asserted-by":"crossref","first-page":"164","DOI":"10.1109\/TAC.1980.1102314","article-title":"The singular value decomposition: its computation and some applications","volume":"25","author":"Klema","year":"1980","journal-title":"IEEE Trans. Autom. Control"},{"key":"2023010804314439200_B65","doi-asserted-by":"crossref","first-page":"3224","DOI":"10.1038\/s41467-022-30755-0","article-title":"Comparison of methods and resources for cell\u2013cell communication inference from single-cell RNA-Seq data","volume":"13","author":"Dimitrov","year":"2022","journal-title":"Nat. Commun."},{"key":"2023010804314439200_B66","doi-asserted-by":"crossref","first-page":"e9923","DOI":"10.15252\/msb.20209923","article-title":"Integrated intra- and intercellular signaling knowledge for multicellular omics analysis","volume":"17","author":"T\u00fcrei","year":"2021","journal-title":"Mol. Syst. Biol."},{"key":"2023010804314439200_B67","doi-asserted-by":"crossref","first-page":"27","DOI":"10.1007\/978-981-16-5812-9_2","volume-title":"Practical Guide to Life Science Databases","author":"Safran","year":"2021"},{"key":"2023010804314439200_B68","doi-asserted-by":"crossref","first-page":"996","DOI":"10.1101\/gr.229102","article-title":"The human genome browser at UCSC","volume":"12","author":"Kent","year":"2002","journal-title":"Genome Res."},{"key":"2023010804314439200_B69","doi-asserted-by":"crossref","first-page":"849","DOI":"10.1101\/gr.213611.116","article-title":"Evaluation of GRCh38 and de novo haploid genome assemblies demonstrates the enduring quality of the reference assembly","volume":"27","author":"Schneider","year":"2017","journal-title":"Genome Res."},{"key":"2023010804314439200_B70","doi-asserted-by":"crossref","first-page":"14049","DOI":"10.1038\/ncomms14049","article-title":"Massively parallel digital transcriptional profiling of single cells","volume":"8","author":"Zheng","year":"2017","journal-title":"Nat. Commun."}],"container-title":["Nucleic Acids Research"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/nar\/article-pdf\/51\/D1\/D1019\/48441377\/gkac791.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/nar\/article-pdf\/51\/D1\/D1019\/48441377\/gkac791.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,10,3]],"date-time":"2024-10-03T04:17:13Z","timestamp":1727929033000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/nar\/article\/51\/D1\/D1019\/6709243"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2022,9,21]]},"references-count":70,"journal-issue":{"issue":"D1","published-online":{"date-parts":[[2022,9,21]]},"published-print":{"date-parts":[[2023,1,6]]}},"URL":"https:\/\/doi.org\/10.1093\/nar\/gkac791","relation":{},"ISSN":["0305-1048","1362-4962"],"issn-type":[{"value":"0305-1048","type":"print"},{"value":"1362-4962","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2023,1,6]]},"published":{"date-parts":[[2022,9,21]]}}}