{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,10]],"date-time":"2026-04-10T07:54:07Z","timestamp":1775807647743,"version":"3.50.1"},"reference-count":9,"publisher":"Oxford University Press (OUP)","issue":"11","license":[{"start":{"date-parts":[[2024,10,24]],"date-time":"2024-10-24T00:00:00Z","timestamp":1729728000000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100012166","name":"National Key Research and Development Program of China","doi-asserted-by":"publisher","award":["2023YFE0112300"],"award-info":[{"award-number":["2023YFE0112300"]}],"id":[{"id":"10.13039\/501100012166","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100012166","name":"National Key Research and Development Program of China","doi-asserted-by":"publisher","award":["SQ2022YFE012895"],"award-info":[{"award-number":["SQ2022YFE012895"]}],"id":[{"id":"10.13039\/501100012166","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001809","name":"National Natural Sciences Foundation of China","doi-asserted-by":"crossref","award":["32070677"],"award-info":[{"award-number":["32070677"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"crossref"}]},{"DOI":"10.13039\/501100001809","name":"National Natural Sciences Foundation of China","doi-asserted-by":"crossref","award":["32070656"],"award-info":[{"award-number":["32070656"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"crossref"}]},{"DOI":"10.13039\/501100001809","name":"National Natural Sciences Foundation of China","doi-asserted-by":"crossref","award":["32270709"],"award-info":[{"award-number":["32270709"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"crossref"}]},{"DOI":"10.13039\/501100001809","name":"National Natural Sciences Foundation of China","doi-asserted-by":"crossref","award":["32261133526"],"award-info":[{"award-number":["32261133526"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"crossref"}]},{"DOI":"10.13039\/501100001809","name":"National Natural Sciences Foundation of China","doi-asserted-by":"crossref","award":["31771477"],"award-info":[{"award-number":["31771477"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"crossref"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2024,11,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Motivation<\/jats:title>\n                    <jats:p>High-throughput sequencing technologies [next-generation sequencing (NGS)] are increasingly used to address diverse biological questions. Despite the rich information in NGS data, particularly with the growing datasets from repositories like the Genome Sequence Archive (GSA) at NGDC, programmatic access to public sequencing data and metadata remains limited.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Results<\/jats:title>\n                    <jats:p>We developed iSeq to enable quick and straightforward retrieval of metadata and NGS data from multiple databases via the command-line interface. iSeq supports simultaneous retrieval from GSA, SRA, ENA, and DDBJ databases. It handles over 25 different accession formats, supports Aspera downloads, parallel downloads, multi-threaded processes, FASTQ file merging, and integrity verification, simplifying data acquisition and enhancing the capacity for reanalyzing NGS data.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Availability and implementation<\/jats:title>\n                    <jats:p>iSeq is freely available on Bioconda (https:\/\/anaconda.org\/bioconda\/iseq) and GitHub (https:\/\/github.com\/BioOmics\/iSeq).<\/jats:p>\n                  <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btae641","type":"journal-article","created":{"date-parts":[[2024,10,23]],"date-time":"2024-10-23T15:26:34Z","timestamp":1729697194000},"source":"Crossref","is-referenced-by-count":8,"title":["iSeq: an integrated tool to fetch public sequencing 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210023,","place":["China"]}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9677-1699","authenticated-orcid":false,"given":"Ming","family":"Chen","sequence":"additional","affiliation":[{"name":"Department of Bioinformatics, College of Life Sciences, Zhejiang University , Hangzhou 310058,","place":["China"]}]}],"member":"286","published-online":{"date-parts":[[2024,10,24]]},"reference":[{"key":"2024111406105574400_btae641-B1","doi-asserted-by":"crossref","first-page":"D121","DOI":"10.1093\/nar\/gkaa967","article-title":"The international nucleotide sequence database collaboration","volume":"49","author":"Arita","year":"2021","journal-title":"Nucleic Acids Res"},{"key":"2024111406105574400_btae641-B2","doi-asserted-by":"crossref","first-page":"578","DOI":"10.1016\/j.gpb.2021.08.001","article-title":"The genome sequence archive family: toward explosive data growth and diverse data types","volume":"19","author":"Chen","year":"2021","journal-title":"Genomics Proteomics 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