乐胖代购免代理版

{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,2,21]],"date-time":"2025-02-21T16:37:37Z","timestamp":1740155857367,"version":"3.37.3"},"reference-count":231,"publisher":"Oxford University Press (OUP)","license":[{"start":{"date-parts":[[2023,12,11]],"date-time":"2023-12-11T00:00:00Z","timestamp":1702252800000},"content-version":"vor","delay-in-days":344,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"National Science Foundation"},{"name":"Research Coordination Network","award":["2126334"]},{"name":"National Science Foundation"},{"name":"Research Coordination Network","award":["2126334"]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2023,12,11]]},"abstract":"Abstract<\/jats:title>\n Large-scale genotype and phenotype data have been increasingly generated to identify genetic markers, understand gene function and evolution and facilitate genomic selection. These datasets hold immense value for both current and future studies, as they are vital for crop breeding, yield improvement and overall agricultural sustainability. However, integrating these datasets from heterogeneous sources presents significant challenges and hinders their effective utilization. We established the Genotype-Phenotype Working Group in November 2021 as a part of the AgBioData Consortium (https:\/\/www.agbiodata.org) to review current data types and resources that support archiving, analysis and visualization of genotype and phenotype data to understand the needs and challenges of the plant genomic research community. For 2021\u201322, we identified different types of datasets and examined metadata annotations related to experimental design\/methods\/sample collection, etc. Furthermore, we thoroughly reviewed publicly funded repositories for raw and processed data as well as secondary databases and knowledgebases that enable the integration of heterogeneous data in the context of the genome browser, pathway networks and tissue-specific gene expression. Based on our survey, we recommend a need for (i) additional infrastructural support for archiving many new data types, (ii) development of community standards for data annotation and formatting, (iii) resources for biocuration and (iv) analysis and visualization tools to connect genotype data with phenotype data to enhance knowledge synthesis and to foster translational research. Although this paper only covers the data and resources relevant to the plant research community, we expect that similar issues and needs are shared by researchers working on animals.<\/jats:p>\n Database URL: https:\/\/www.agbiodata.org.<\/jats:p>","DOI":"10.1093\/database\/baad088","type":"journal-article","created":{"date-parts":[[2023,12,12]],"date-time":"2023-12-12T01:40:29Z","timestamp":1702345229000},"source":"Crossref","is-referenced-by-count":10,"title":["Genotype and\u00a0phenotype data standardization, utilization and\u00a0integration in\u00a0the big data era for\u00a0agricultural sciences"],"prefix":"10.1093","volume":"2023","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-2954-762X","authenticated-orcid":false,"given":"Cecilia H","family":"Deng","sequence":"first","affiliation":[{"name":"Molecular and Digital Breeding, New Cultivar Innovation, The New Zealand Institute for Plant and Food Research Limited , 120 Mt Albert Road, Auckland 1025, New Zealand"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7819-4552","authenticated-orcid":false,"given":"Sushma","family":"Naithani","sequence":"additional","affiliation":[{"name":"Department of Botany and Plant Pathology, Oregon State University , Corvallis, OR 97331, USA"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9166-1450","authenticated-orcid":false,"given":"Sunita","family":"Kumari","sequence":"additional","affiliation":[{"name":"Cold Spring Harbor Laboratory , 1 Bungtown Rd, Cold Spring Harbor, New York, NY 11724, USA"}]},{"given":"Irene","family":"Cobo-Sim\u00f3n","sequence":"additional","affiliation":[{"name":"Department of Ecology and Evolutionary Biology, University of Connecticut , Storrs, CT, USA"},{"name":"Institute of Forest Science (ICIFOR-INIA, CSIC) , Madrid, Spain"}]},{"given":"Elsa H","family":"Quezada-Rodr\u00edguez","sequence":"additional","affiliation":[{"name":"Departamento de Producci\u00f3n Agr\u00edcola y Animal, Universidad Aut\u00f3noma Metropolitana-Xochimilco , Ciudad de M\u00e9xico, M\u00e9xico"},{"name":"Centro de Ciencias de la Complejidad, Universidad Nacional Aut\u00f3noma de M\u00e9xico , Ciudad de M\u00e9xico, M\u00e9xico"}]},{"given":"Maria","family":"Skrabisova","sequence":"additional","affiliation":[{"name":"Department of Biochemistry, Faculty of Science, Palacky University , Olomouc, Czech Republic"}]},{"given":"Nick","family":"Gladman","sequence":"additional","affiliation":[{"name":"Cold Spring Harbor Laboratory , 1 Bungtown Rd, Cold Spring Harbor, New York, NY 11724, USA"},{"name":"U.S. Department of Agriculture-Agricultural Research Service, NEA Robert W. Holley Center for Agriculture and Health, Cornell University , Ithaca, NY 14853, USA"}]},{"given":"Melanie J","family":"Correll","sequence":"additional","affiliation":[{"name":"Agricultural and Biological Engineering Department, University of Florida , 1741 Museum Rd, Gainesville, FL 32611, USA"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4956-7094","authenticated-orcid":false,"given":"Akeem Babatunde","family":"Sikiru","sequence":"additional","affiliation":[{"name":"Federal University of Agriculture Zuru , PMB 28, Zuru, Kebbi 872101, Nigeria"}]},{"given":"Olusola O","family":"Afuwape","sequence":"additional","affiliation":[{"name":"University of Lagos , Nigeria"}]},{"given":"Annarita","family":"Marrano","sequence":"additional","affiliation":[{"name":"Phoenix Bioinformatics , 39899 Balentine Drive, Suite 200, Newark, CA 94560, USA"}]},{"given":"Ines","family":"Rebollo","sequence":"additional","affiliation":[{"name":"Universidad de la Rep\u00fablica , Uruguay"}]},{"given":"Wentao","family":"Zhang","sequence":"additional","affiliation":[{"name":"National Research Council Canada , 110 Gymnasium Pl, Saskatoon, Saskatchewan S7N 0W9, Canada"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3968-2769","authenticated-orcid":false,"given":"Sook","family":"Jung","sequence":"additional","affiliation":[{"name":"Department of Horticulture, Washington State University , 303c Plant Sciences Building, Pullman, WA 99164-6414, USA"}]}],"member":"286","published-online":{"date-parts":[[2023,12,11]]},"reference":[{"key":"2023121118155630700_R1","doi-asserted-by":"crossref","DOI":"10.1016\/j.jplph.2020.153352","article-title":"Integrating multi-omics data for\u00a0crop improvement","volume":"257","author":"Scossa","year":"2021","journal-title":"J. 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