With the development of artificial intelligence(AI)technologies,biomedical imaging data play an important role in scientific research and clinical application,but the available resources are limited.Here we present Op...With the development of artificial intelligence(AI)technologies,biomedical imaging data play an important role in scientific research and clinical application,but the available resources are limited.Here we present Open Biomedical Imaging Archive(OBIA),a repository for archiving biomedical imaging and related clinical data.OBIA adopts five data objects(Collection,Individual,Study,Series,and Image)for data organization,and accepts the submission of biomedical images of multiple modalities,organs,and diseases.In order to protect personal privacy,OBIA has formulated a unified de-identification and quality control process.In addition,OBIA provides friendly and intuitive web interfaces for data submission,browsing,and retrieval,as well as image retrieval.As of September 2023,OBIA has housed data for a total of 937 individuals,4136 studies,24,701 series,and 1,938,309 images covering 9 modalities and 30 anatomical sites.Collectively,OBIA provides a reliable platform for biomedical imaging data management and offers free open access to all publicly available data to support research activities throughout the world.OBIA can be accessed at https://ngdc.cncb.ac.cn/obia.展开更多
The Genome Sequence Archive(GSA)is a data repository for archiving raw sequence data,which provides data storage and sharing services for worldwide scientific communities.Considering explosive data growth with diverse...The Genome Sequence Archive(GSA)is a data repository for archiving raw sequence data,which provides data storage and sharing services for worldwide scientific communities.Considering explosive data growth with diverse data types,here we present the GSA family by expanding into a set of resources for raw data archive with different purposes,namely,GSA(https://ngdc.cncb.ac.cn/gsa/),GSA for Human(GSA-Human,https://ngdc.cncb.ac.cn/gsa-human/),and Open Archive for Miscellaneous Data(OMIX,https://ngdc.cncb.ac.cn/omix/).Compared with the 2017 version,GSA has been significantly updated in data model,online functionalities,and web interfaces.GSA-Human,as a new partner of GSA,is a data repository specialized in human genetics-related data with controlled access and security.OMIX,as a critical complement to the two resources mentioned above,is an open archive for miscellaneous data.Together,all these resources form a family of resources dedicated to archiving explosive data with diverse types,accepting data submissions from all over the world,and providing free open access to all publicly available data in support of worldwide research activities.展开更多
On January 22,2020,China National Center for Bioinformation(CNCB)released the 2019 Novel Coronavirus Resource(2019nCoVR),an open-access information resource for the severe acute respiratory syndrome coronavirus 2(SARS...On January 22,2020,China National Center for Bioinformation(CNCB)released the 2019 Novel Coronavirus Resource(2019nCoVR),an open-access information resource for the severe acute respiratory syndrome coronavirus 2(SARS-CoV-2).2019nCoVR features a comprehensive integration of sequence and clinical information for all publicly available SARS-CoV-2 isolates,which are manually curated with value-added annotations and quality evaluated by an automated in-house pipeline.Of particular note,2019nCoVR offers systematic analyses to generate a dynamic landscape of SARS-CoV-2 genomic variations at a global scale.It provides all identified variants and their detailed statistics for each virus isolate,and congregates the quality score,functional annotation,and population frequency for each variant.Spatiotemporal change for each variant can be visualized and historical viral haplotype network maps for the course of the outbreak are also generated based on all complete and high-quality genomes available.Moreover,2019nCoVR provides a full collection of SARS-CoV-2 relevant literature on the coronavirus disease 2019(COVID-19),including published papers from PubMed as well as preprints from services such as bioRxiv and medRxiv through Europe PMC.Furthermore,by linking with relevant databases in CNCB,2019nCoVR offers data submission services for raw sequence reads and assembled genomes,and data sharing with NCBI.Collectively,SARS-CoV-2 is updated daily to collect the latest information on genome sequences,variants,haplotypes,and literature for a timely reflection,making 2019nCoVR a valuable resource for the global research community.2019nCoVR is accessible at https://bigd.big.ac.cn/ncov/.展开更多
基金supported by grants from the Strategic Priority Research Program of the Chinese Academy of Sciences(Grant No.XDB38050300)the Genomics Data Center Operation and Maintenance of Chinese Academy of Sciences(Grant No.CAS-WX2022SDC-XK05)the Key Technology Talent Program of the Chinese Academy of Sciences,China.
文摘With the development of artificial intelligence(AI)technologies,biomedical imaging data play an important role in scientific research and clinical application,but the available resources are limited.Here we present Open Biomedical Imaging Archive(OBIA),a repository for archiving biomedical imaging and related clinical data.OBIA adopts five data objects(Collection,Individual,Study,Series,and Image)for data organization,and accepts the submission of biomedical images of multiple modalities,organs,and diseases.In order to protect personal privacy,OBIA has formulated a unified de-identification and quality control process.In addition,OBIA provides friendly and intuitive web interfaces for data submission,browsing,and retrieval,as well as image retrieval.As of September 2023,OBIA has housed data for a total of 937 individuals,4136 studies,24,701 series,and 1,938,309 images covering 9 modalities and 30 anatomical sites.Collectively,OBIA provides a reliable platform for biomedical imaging data management and offers free open access to all publicly available data to support research activities throughout the world.OBIA can be accessed at https://ngdc.cncb.ac.cn/obia.
基金supported by grants from National Key R&D Program of China(Grant No.2017YFC0907502 to ZZ)Strategic Priority Research Program of Chinese Academy of Sciences(Grant Nos.XDB38060100 and XDB38030200 to YB+13 种基金XDB38050300 to WZXDB38030400 to JXXDA19050302 to ZZ)National Key R&D Program of China(Grant Nos.2016YFC0901603 to WZ2017YFC1201202 to YW2020YFC0847000 and 2018YFD1000505 to WZ2016YFE0206600 to YB)The 13th Five-year Informatization Plan of Chinese Academy of Sciences(Grant No.XXH13505-05 to YB)Genomics Data Center Construction of Chinese Academy of Sciences(Grant No.XXH-13514-0202 to YB)Open Biodiversity and Health Big Data Programme of the International Union of Biological Sciences to YBThe Professional Association of the Alliance of International Science Organizations(Grant No.ANSO-PA-2020-07 to YB)National Natural Science Foundation of China(Grant Nos.32030021 and 31871328 to ZZ)International Partnership Program of the Chinese Academy of Sciences(Grant No.153F11KYSB20160008 to ZZ)。
文摘The Genome Sequence Archive(GSA)is a data repository for archiving raw sequence data,which provides data storage and sharing services for worldwide scientific communities.Considering explosive data growth with diverse data types,here we present the GSA family by expanding into a set of resources for raw data archive with different purposes,namely,GSA(https://ngdc.cncb.ac.cn/gsa/),GSA for Human(GSA-Human,https://ngdc.cncb.ac.cn/gsa-human/),and Open Archive for Miscellaneous Data(OMIX,https://ngdc.cncb.ac.cn/omix/).Compared with the 2017 version,GSA has been significantly updated in data model,online functionalities,and web interfaces.GSA-Human,as a new partner of GSA,is a data repository specialized in human genetics-related data with controlled access and security.OMIX,as a critical complement to the two resources mentioned above,is an open archive for miscellaneous data.Together,all these resources form a family of resources dedicated to archiving explosive data with diverse types,accepting data submissions from all over the world,and providing free open access to all publicly available data in support of worldwide research activities.
基金This work was supported by grants from the Strategic PriorityResearch Program of Chinese Academy of Sciences(GrantNos.XDA19090116,XDA19050302,and XDB38030400)awarded to SS,ZZ,and MLthe National Key R&D Programof China(Grant Nos.2020YFC0848900,2020YFC0847000,2016YFE0206600,and 2017YFC0907502)+5 种基金the 13th Five-yearInformatization Plan of Chinese Academy of Sciences(GrantNo.XXH13505-05)Genomics Data Center Construction ofChinese Academy of Sciences(Grant No.XXH-13514-0202)the Open Biodiversity and Health Big Data Programme ofInternational Union of Biological Sciences,International Part-nership Program of Chinese Academy of Sciences(Grant No.153F11KYSB20160008)the Professional Association of theAlliance of International Science Organizations(Grant No.ANSO-PA-2020-07)This work was also supported by KCWong Education Foundation to ZZthe YouthInnovation Promotion Association of Chinese Academy ofSciences(Grant Nos.2017141 and 2019104)awarded to SSand ML.
文摘On January 22,2020,China National Center for Bioinformation(CNCB)released the 2019 Novel Coronavirus Resource(2019nCoVR),an open-access information resource for the severe acute respiratory syndrome coronavirus 2(SARS-CoV-2).2019nCoVR features a comprehensive integration of sequence and clinical information for all publicly available SARS-CoV-2 isolates,which are manually curated with value-added annotations and quality evaluated by an automated in-house pipeline.Of particular note,2019nCoVR offers systematic analyses to generate a dynamic landscape of SARS-CoV-2 genomic variations at a global scale.It provides all identified variants and their detailed statistics for each virus isolate,and congregates the quality score,functional annotation,and population frequency for each variant.Spatiotemporal change for each variant can be visualized and historical viral haplotype network maps for the course of the outbreak are also generated based on all complete and high-quality genomes available.Moreover,2019nCoVR provides a full collection of SARS-CoV-2 relevant literature on the coronavirus disease 2019(COVID-19),including published papers from PubMed as well as preprints from services such as bioRxiv and medRxiv through Europe PMC.Furthermore,by linking with relevant databases in CNCB,2019nCoVR offers data submission services for raw sequence reads and assembled genomes,and data sharing with NCBI.Collectively,SARS-CoV-2 is updated daily to collect the latest information on genome sequences,variants,haplotypes,and literature for a timely reflection,making 2019nCoVR a valuable resource for the global research community.2019nCoVR is accessible at https://bigd.big.ac.cn/ncov/.
