Oryzabase
Names
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Oryzabase
metasource: Fairsharing.org
version: FAIRsharing.org: Oryzabase; Oryzabase; DOI: https://doi.org/10.25504/FAIRsharing.mbgt2n; Last edited: April 26, 2021, 2:47 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:31:18.924454
oryzabase
metasource: bio.tools
version: extracted_at: 2022-11-04T11:31:18.924454
Names
More detailed information about this field from each metasource.
Oryzabase
metasource: Fairsharing.orgversion: FAIRsharing.org: Oryzabase; Oryzabase; DOI: https://doi.org/10.25504/FAIRsharing.mbgt2n; Last edited: April 26, 2021, 2:47 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:31:18.924454
oryzabase
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:31:18.924454
Names
More detailed information about this field from each metasource.
Oryzabase
metasource: Fairsharing.orgversion: FAIRsharing.org: Oryzabase; Oryzabase; DOI: https://doi.org/10.25504/FAIRsharing.mbgt2n; Last edited: April 26, 2021, 2:47 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:31:18.924454
oryzabase
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:31:18.924454
The Oryzabase is a comprehensive rice science database established in 2000 by rice researcher's committee in Japan. The Oryzabase consists of five parts, (1) genetic resource stock information, (2) gene dictionary, (3) chromosome maps, (4) mutant images, and (5) fundamental knowledge of rice science.
Description
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The Oryzabase is a comprehensive rice science database established in 2000 by rice researcher's committee in Japan. The Oryzabase consists of five parts, (1) genetic resource stock information, (2) gene dictionary, (3) chromosome maps, (4) mutant images, and (5) fundamental knowledge of rice science.
metasource: Fairsharing.orgversion: FAIRsharing.org: Oryzabase; Oryzabase; DOI: https://doi.org/10.25504/FAIRsharing.mbgt2n; Last edited: April 26, 2021, 2:47 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
Integrated rice genetic map and mutant database at the National Institute of Genetics in Japan.
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:31:18.924454
Webpage:
http://www.shigen.nig.ac.jp/rice/oryzabase/Webpage
More detailed information about this field from each metasource.
http://www.shigen.nig.ac.jp/rice/oryzabase/
metasource: Fairsharing.orgversion: FAIRsharing.org: Oryzabase; Oryzabase; DOI: https://doi.org/10.25504/FAIRsharing.mbgt2n; Last edited: April 26, 2021, 2:47 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
https://shigen.nig.ac.jp/rice/oryzabase/
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:31:18.924454
Licence:
Name: Not licensedLicence name
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Publications:
Publications
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Oryzabase. An integrated biological and genome information database for rice
PMID: 16403737
metasource: Fairsharing.org
version: FAIRsharing.org: Oryzabase; Oryzabase; DOI: https://doi.org/10.25504/FAIRsharing.mbgt2n; Last edited: April 26, 2021, 2:47 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:31:18.924454
Publications
More detailed information about this field from each metasource.
Oryzabase. An integrated biological and genome information database for rice
PMID: 16403737
metasource: Fairsharing.org
version: FAIRsharing.org: Oryzabase; Oryzabase; DOI: https://doi.org/10.25504/FAIRsharing.mbgt2n; Last edited: April 26, 2021, 2:47 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:31:18.924454
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Oryzabase. An integrated biological and genome information database for rice
PubMed citations: 66.
66 articles citing: Oryzabase. An integrated biological and genome information database for rice
Phenotypic Variation and the Impact of Admixture in the Oryza rufipogon Species Complex (ORSC). PMID:35769295
Identification of major candidate genes for multiple abiotic stress tolerance at seedling stage by network analysis and their validation by expression profiling in rice (Oryza sativa L.). PMID:35573803
XSim version 2: simulation of modern breeding programs. PMID:35244161
Identification of Potential Cytokinin Responsive Key Genes in Rice Treated With Trans-Zeatin Through Systems Biology Approach. PMID:35198001
Plant Reactome and PubChem: The Plant Pathway and (Bio)Chemical Entity Knowledgebases. PMID:35037224
Identification of QTLs for stagnant flooding tolerance in rice employing genotyping by sequencing of a RIL population derived from Swarna × Rashpanjor. PMID:35035143
The ties of brotherhood between japonica and indica rice for regional adaptation. PMID:34902099
Collection, preservation and distribution of Oryza genetic resources by the National Bioresource Project RICE (NBRP-RICE). PMID:34776736
OryzaGP 2021 update: a rice gene and protein dataset for named-entity recognition. PMID:34638174
Comparative genome-wide analysis of WRKY, MADS-box and MYB transcription factor families in Arabidopsis and rice. PMID:34608238
MedProDB: A database of Mediator proteins. PMID:34527190
Reading between the Lines: RNA-seq Data Mining Reveals the Alternative Message of the Rice Leaf Transcriptome in Response to Heat Stress. PMID:34451692
Two NLR immune receptors acquired high-affinity binding to a fungal effector through convergent evolution of their integrated domain. PMID:34288868
Using Network-Based Machine Learning to Predict Transcription Factors Involved in Drought Resistance. PMID:34249082
OryzaGenome2.1: Database of Diverse Genotypes in Wild Oryza Species. PMID:33661371
A Coordinated Suite of Wild-Introgression Lines in Indica and Japonica Elite Backgrounds. PMID:33281840
Deployment of Genetic and Genomic Tools Toward Gaining a Better Understanding of Rice-Xanthomonas oryzae pv. oryzae Interactions for Development of Durable Bacterial Blight Resistant Rice. PMID:32849710
Current status of genomic resources on wild relatives of rice. PMID:32523396
Heavy Metal Stress-Associated Proteins in Rice and Arabidopsis: Genome-Wide Identification, Phylogenetics, Duplication, and Expression Profiles Analysis. PMID:32457808
Light-induced chloroplast movements in Oryza species. PMID:32303870
Genome-wide identification and expression analysis of WRKY transcription factors in pearl millet (Pennisetum glaucum) under dehydration and salinity stress. PMID:32171257
Development of a visible marker trait based on leaf sheath-specific anthocyanin pigmentation applicable to various genotypes in rice. PMID:31481833
Detection of stable QTLs for grain protein content in rice (Oryza sativa L.) employing high throughput phenotyping and genotyping platforms. PMID:30824776
Genome-Wide Characterization and Identification of Trihelix Transcription Factor and Expression Profiling in Response to Abiotic Stresses in Rice (Oryza sativa L.). PMID:30634597
Bacterial leaf blight resistance in rice: a review of conventional breeding to molecular approach. PMID:30628024
Potential of Oryza officinalis to augment the cold tolerance genetic mechanisms of Oryza sativa by network complementation. PMID:30397229
Translational genomics and multi-omics integrated approaches as a useful strategy for crop breeding. PMID:30353370
Whole Genome Characterization of a Few EMS-Induced Mutants of Upland Rice Variety Nagina 22 Reveals a Staggeringly High Frequency of SNPs Which Show High Phenotypic Plasticity Towards the Wild-Type. PMID:30233603
RicyerDB: A Database For Collecting Rice Yield-related Genes with Biological Analysis. PMID:29989091
RiceMetaSys for salt and drought stress responsive genes in rice: a web interface for crop improvement. PMID:28964253
Ectopic Expression of OsSta2 Enhances Salt Stress Tolerance in Rice. PMID:28344585
Rice SNP-seek database update: new SNPs, indels, and queries. PMID:27899667
Ricebase: a breeding and genetics platform for rice, integrating individual molecular markers, pedigrees and whole-genome-based data. PMID:27515824
The Nipponbare genome and the next-generation of rice genomics research in Japan. PMID:27447712
Ascribing Functions to Genes: Journey Towards Genetic Improvement of Rice Via Functional Genomics. PMID:27252584
OGRO: The Overview of functionally characterized Genes in Rice online database. PMID:27234245
OryzaGenome: Genome Diversity Database of Wild Oryza Species. PMID:26578696
Information Commons for Rice (IC4R). PMID:26519466
Characteristics of Plant Essential Genes Allow for within- and between-Species Prediction of Lethal Mutant Phenotypes. PMID:26286535
Coexpression Network Analysis of Macronutrient Deficiency Response Genes in Rice. PMID:26206757
Defining the RNA-binding glycine-rich (RBG) gene superfamily: new insights into nomenclature, phylogeny, and evolutionary trends obtained by genome-wide comparative analysis of Arabidopsis, Chinese cabbage, rice and maize genomes. PMID:26123085
Unleashing the potential of the root hair cell as a single plant cell type model in root systems biology. PMID:24324480
Manually curated database of rice proteins. PMID:24214963
Rice DB: an Oryza Information Portal linking annotation, subcellular location, function, expression, regulation, and evolutionary information for rice and Arabidopsis. PMID:24147765
A transcriptional repressor of the ERF family confers drought tolerance to rice and regulates genes preferentially located on chromosome 11. PMID:23605194
Loss of function of the IAA-glucose hydrolase gene TGW6 enhances rice grain weight and increases yield. PMID:23583977
Rice Annotation Project Database (RAP-DB): an integrative and interactive database for rice genomics. PMID:23299411
RiceFREND: a platform for retrieving coexpressed gene networks in rice. PMID:23180784
PMRD: a curated database for genes and mutants involved in plant male reproduction. PMID:23153247
Soybean Knowledge Base (SoyKB): a web resource for soybean translational genomics. PMID:22369646
Computable visually observed phenotype ontological framework for plants. PMID:21702966
BioPortal: enhanced functionality via new Web services from the National Center for Biomedical Ontology to access and use ontologies in software applications. PMID:21672956
Multi-source and ontology-based retrieval engine for maize mutant phenotypes. PMID:21558151
Comprehensive sequence analysis of 24,783 barley full-length cDNAs derived from 12 clone libraries. PMID:21415278
Rice TOGO Browser: A platform to retrieve integrated information on rice functional and applied genomics. PMID:21216747
Choosing a genome browser for a Model Organism Database: surveying the maize community. PMID:20627860
Protocol: a simple gel-free method for SNP genotyping using allele-specific primers in rice and other plant species. PMID:20409329
NBRP databases: databases of biological resources in Japan. PMID:19934255
Genomic and genetic database resources for the grasses. PMID:19126704
Multiple models for Rosaceae genomics. PMID:18487361
The Plant Ontology Database: a community resource for plant structure and developmental stages controlled vocabulary and annotations. PMID:18194960
Oryza Tag Line, a phenotypic mutant database for the Genoplante rice insertion line library. PMID:17947330
The plant organelles database (PODB): a collection of visualized plant organelles and protocols for plant organelle research. PMID:17932059
A genome-wide gain-of function analysis of rice genes using the FOX-hunting system. PMID:17929174
EGENES: transcriptome-based plant database of genes with metabolic pathway information and expressed sequence tag indices in KEGG. PMID:17468225
A large-scale collection of phenotypic data describing an insertional mutant population to facilitate functional analysis of rice genes. PMID:17180734
Tags:
Tags
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classification
metasource: Fairsharing.org
version: FAIRsharing.org: Oryzabase; Oryzabase; DOI: https://doi.org/10.25504/FAIRsharing.mbgt2n; Last edited: April 26, 2021, 2:47 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
gene
metasource: Fairsharing.org
version: FAIRsharing.org: Oryzabase; Oryzabase; DOI: https://doi.org/10.25504/FAIRsharing.mbgt2n; Last edited: April 26, 2021, 2:47 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
genome
metasource: Fairsharing.org
version: FAIRsharing.org: Oryzabase; Oryzabase; DOI: https://doi.org/10.25504/FAIRsharing.mbgt2n; Last edited: April 26, 2021, 2:47 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
molecular structure
metasource: Fairsharing.org
version: FAIRsharing.org: Oryzabase; Oryzabase; DOI: https://doi.org/10.25504/FAIRsharing.mbgt2n; Last edited: April 26, 2021, 2:47 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
structure
metasource: Fairsharing.org
version: FAIRsharing.org: Oryzabase; Oryzabase; DOI: https://doi.org/10.25504/FAIRsharing.mbgt2n; Last edited: April 26, 2021, 2:47 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
genomics
metasource: bio.tools
version: extracted_at: 2022-11-04T11:31:18.924454
plant biology
metasource: bio.tools
version: extracted_at: 2022-11-04T11:31:18.924454
genotype and phenotype
metasource: bio.tools
version: extracted_at: 2022-11-04T11:31:18.924454
Tags
More detailed information about this field from each metasource.
classification
metasource: Fairsharing.orgversion: FAIRsharing.org: Oryzabase; Oryzabase; DOI: https://doi.org/10.25504/FAIRsharing.mbgt2n; Last edited: April 26, 2021, 2:47 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
gene
metasource: Fairsharing.orgversion: FAIRsharing.org: Oryzabase; Oryzabase; DOI: https://doi.org/10.25504/FAIRsharing.mbgt2n; Last edited: April 26, 2021, 2:47 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
genome
metasource: Fairsharing.orgversion: FAIRsharing.org: Oryzabase; Oryzabase; DOI: https://doi.org/10.25504/FAIRsharing.mbgt2n; Last edited: April 26, 2021, 2:47 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
molecular structure
metasource: Fairsharing.orgversion: FAIRsharing.org: Oryzabase; Oryzabase; DOI: https://doi.org/10.25504/FAIRsharing.mbgt2n; Last edited: April 26, 2021, 2:47 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
structure
metasource: Fairsharing.orgversion: FAIRsharing.org: Oryzabase; Oryzabase; DOI: https://doi.org/10.25504/FAIRsharing.mbgt2n; Last edited: April 26, 2021, 2:47 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
genomics
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:31:18.924454
plant biology
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:31:18.924454
genotype and phenotype
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:31:18.924454
classification gene genome molecular structure structure genomics plant biology genotype and phenotype
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