e38e1c74f4bd7988f9a1920ebb47eac9 PlaMet_a2024v20m8p121.pdf 62ef98e93d18fa93812df4cdf9a240c420387906 PlaMet_a2024v20m8p121.pdf 642f8d62590eb379f65e03a0af6e577161d50190193cbab3bc04733c31e2e5ae PlaMet_a2024v20m8p121.pdf Title: Evaluation of deep learning for predicting rice traits using structural and single-nucleotide genomic variants Subject: Plant Methods, https://doi.org/10.1186/s13007-024-01250-y Keywords: Deep learning; Structural variation; Genomic prediction; Rice Author: Ioanna-Theoni Vourlaki Creator: Springer Producer: Acrobat Distiller 10.1.8 (Windows); modified using iText® 5.3.5 ©2000-2012 1T3XT BVBA (SPRINGER SBM; licensed version) CreationDate: Sat Aug 10 03:29:45 2024 CEST ModDate: Sat Aug 10 11:58:35 2024 CEST Custom Metadata: yes Metadata Stream: yes Tagged: no UserProperties: no Suspects: no Form: none JavaScript: no Pages: 16 Encrypted: no Page size: 595.276 x 790.866 pts Page rot: 0 File size: 3546363 bytes Optimized: no PDF version: 1.4 name type encoding emb sub 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PDF-hul, Rel. 1.12.4 (2023-03-16) LastModified: 2025-06-16 18:11:52 CEST Size: 3546363 Format: PDF Version: 1.4 Status: Well-Formed and valid SignatureMatches: PDF-hul MIMEtype: application/pdf PDFMetadata: Objects: 1522 FreeObjects: 1 IncrementalUpdates: 0 DocumentCatalog: ViewerPreferences: HideToolbar: false HideMenubar: false HideWindowUI: false FitWindow: false CenterWindow: false DisplayDocTitle: false NonFullScreenPageMode: UseNone Direction: L2R ViewArea: CropBox ViewClip: CropBox PrintArea: CropBox PageClip: CropBox PageLayout: SinglePage PageMode: UseOutlines Language: EN Outlines: Item: Title: Evaluation of deep learning for predicting rice traits using structural and single-nucleotide genomic variants Children: Item: Title: Abstract Children: Item: Title: Background Item: Title: Results Item: Title: Conclusions Item: Title: Background Item: Title: Methods Children: Item: Title: Rice accessions and traits Item: Title: Markers Item: Title: Genetic variance inference Item: Title: Genomic prediction models Children: Item: Title: Bayesian regression models Item: Title: Multilayer perceptron Item: Title: Convolutional neural networks Item: Title: Cross-validation and independent prediction Item: Title: Marker input strategies Item: Title: Optimization of hyperparameters Item: Title: Results Children: Item: Title: Phenotypic structure and genetic inference Item: Title: Comparison of model performances Item: Title: Impact of marker selection on genomic prediction Item: Title: Discussion Item: Title: Conclusions Item: Title: Acknowledgements Item: Title: References Info: Title: Evaluation of deep learning for predicting rice traits using structural and single-nucleotide genomic variants Author: Ioanna-Theoni Vourlaki Subject: Plant Methods, https://doi.org/10.1186/s13007-024-01250-y Keywords: Deep learning; Structural variation; Genomic prediction; Rice Creator: Springer Producer: Acrobat Distiller 10.1.8 (Windows); modified using iText® 5.3.5 ©2000-2012 1T3XT 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Acrobat Distiller 10.1.8 (Windows); modified using iText® 5.3.5 ©2000-2012 1T3XT BVBA (SPRINGER SBM; licensed version) Deep learning; Structural variation; Genomic prediction; Rice False application/pdf https://doi.org/10.1186/s13007-024-01250-y BioMed Central Plant Methods, https://doi.org/10.1186/s13007-024-01250-y Deep learning Structural variation Genomic prediction Rice Evaluation of deep learning for predicting rice traits using structural and single-nucleotide genomic variants Ioanna-Theoni Vourlaki Sebastián E. Ramos-Onsins Miguel Pérez-Enciso Raúl Castanera 10.1186/s13007-024-01250-y 2010-04-23 true springer.com springerlink.com https://doi.org/10.1186/s13007-024-01250-y 10.1186/s13007-024-01250-y 1746-4811 journal Plant Methods The Author(s) 2010-04-23 true 10.1186/s13007-024-01250-y noindex springer.com springerlink.com VoR uuid:3baf749f-178e-4a7a-adf8-852a4a528daa uuid:98959209-b5c4-4524-a8b3-4b6ad8e40656 default 1 converted uuid:3baf749f-178e-4a7a-adf8-852a4a528daa converted to PDF/A-2b pdfToolbox 2024-08-10T07:00:27+05:30 converted uuid:29bd6f24-2678-4a27-af9f-78df2f0f9cc2 converted to PDF/A-2b pdfToolbox 2024-08-10T07:01:11+05:30 2 B http://ns.adobe.com/pdfx/1.3/ pdfx Adobe Document Info PDF eXtension Schema external Mirrors crossmark:MajorVersionDate CrossmarkMajorVersionDate Text external Mirrors crossmark:CrossmarkDomainExclusive CrossmarkDomainExclusive Text internal Mirrors crossmark:DOI doi Text external Mirrors crossmark:CrosMarkDomains CrossMarkDomains seq Text internal A name object indicating whether the document has been modified to include trapping information robots Text internal ID of PDF/X standard GTS_PDFXVersion Text internal Conformance level of PDF/X standard GTS_PDFXConformance Text internal Company creating the PDF Company Text internal Date when document was last modified SourceModified Text http://crossref.org/crossmark/1.0/ crossmark Crossmark Schema internal Usual same as prism:doi DOI Text external The date when a publication was publishe. MajorVersionDate Text internal CrossmarkDomainExclusive CrossmarkDomainExclusive Text internal CrossMarkDomains CrossMarkDomains seq Text http://prismstandard.org/namespaces/basic/2.0/ prism Prism Schema external This element provides the url for an article or unit of content. The attribute platform is optionally allowed for situations in which multiple URLs must be specified. PRISM recommends that a subset of the PCV platform values, namely “mobile” and “web”, be used in conjunction with this element. NOTE: PRISM recommends against the use of the #other value allowed in the PRISM Platform controlled vocabulary. In lieu of using #other please reach out to the PRISM group at prism-wg@yahoogroups.com to request addition of your term to the Platform Controlled Vocabulary. url URI external The Digital Object Identifier for the article. The DOI may also be used as the dc:identifier. If used as a dc:identifier, the URI form should be captured, and the bare identifier should also be captured using prism:doi. If an alternate unique identifier is used as the required dc:identifier, then the DOI should be specified as a bare identifier within prism:doi only. If the URL associated with a DOI is to be specified, then prism:url may be used in conjunction with prism:doi in order to provide the service endpoint (i.e. the URL). doi Text external ISSN for an electronic version of the issue in which the resource occurs. Permits publishers to include a second ISSN, identifying an electronic version of the issue in which the resource occurs (therefore e(lectronic)Issn. If used, prism:eIssn MUST contain the ISSN of the electronic version. issn Text internal Volume number volume Text internal Issue number number Text internal Starting page startingPage Text internal Ending page endingPage Text external The aggregation type specifies the unit of aggregation for a content collection. Comment PRISM recommends that the PRISM Aggregation Type Controlled Vocabulary be used to provide values for this element. Note: PRISM recommends against the use of the #other value currently allowed in this controlled vocabulary. In lieu of using #other please reach out to the PRISM group at info@prismstandard.org to request addition of your term to the Aggregation Type Controlled Vocabulary. aggregationType Text external Title of the magazine, or other publication, in which a resource was/will be published. Typically this will be used to provide the name of the magazine an article appeared in as metadata for the article, along with information such as the article title, the publisher, volume, number, and cover date. Note: Publication name can be used to differentiate between a print magazine and the online version if the names are different such as “magazine” and “magazine.com.” publicationName Text external Copyright copyright Text http://ns.adobe.com/pdf/1.3/ pdf Adobe PDF Schema internal A name object indicating whether the document has been modified to include trapping information Trapped Text http://ns.adobe.com/xap/1.0/mm/ xmpMM XMP Media Management Schema internal UUID based identifier for specific incarnation of a document InstanceID URI internal The common identifier for all versions and renditions of a document. DocumentID URI internal The common identifier for all versions and renditions of a document. OriginalDocumentID URI internal A reference to the original document from which this one is derived. It is a minimal reference; missing components can be assumed to be unchanged. For example, a new version might only need to specify the instance ID and version number of the previous version, or a rendition might only need to specify the instance ID and rendition class of the original. DerivedFrom ResourceRef Identifies a portion of a document. This can be a position at which the document has been changed since the most recent event history (stEvt:changed). For a resource within an xmpMM:Ingredients list, the ResourceRef uses this type to identify both the portion of the containing document that refers to the resource, and the portion of the referenced resource that is referenced. http://ns.adobe.com/xap/1.0/sType/Part# stPart Part http://www.aiim.org/pdfa/ns/id/ pdfaid PDF/A ID Schema internal Part of PDF/A standard part Integer internal Amendment of PDF/A standard amd Text internal Conformance level of PDF/A standard conformance Text http://ns.adobe.com/xap/1.0/t/pg/ xmpTPg XMP Paged-Text internal XMP08 Spec: An ordered array of plate names that are needed to print the document (including any in contained documents). PlateNames Seq Text internal A structure containing the characteristics of a font used in a document Fonts Bag Font A structure containing the characteristics of a font used in a document. http://ns.adobe.com/xap/1.0/sType/Font# stFnt Font http://www.niso.org/schemas/jav/1.0/ jav NISO external Values for Journal Article Version are one of the following: AO = Author’s Original SMUR = Submitted Manuscript Under Review AM = Accepted Manuscript P = Proof VoR = Version of Record CVoR = Corrected Version of Record EVoR = Enhanced Version of Record journal_article_version Closed Choice of Text Pages: Page: Sequence: 1 Annotations: Annotation: Subtype: Link Rect: 212, 66, 330, 58 Flags: Print AppearanceDictionary: true Annotation: Subtype: Link Rect: 507, 683, 540, 650 Flags: Print AppearanceDictionary: true Thumb: true Page: Sequence: 2 Annotations: Annotation: Subtype: Link Rect: 280, 667, 285, 655 Flags: Print AppearanceDictionary: true Destination: 788 Annotation: Subtype: Link Rect: 116, 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