Information Commons for Rice
Names
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Information Commons for Rice
metasource: Fairsharing.org
version: None
IC4R
metasource: Fairsharing.org
version: None
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
Names
More detailed information about this field from each metasource.
Information Commons for Rice
metasource: Fairsharing.orgversion: None
IC4R
metasource: Fairsharing.orgversion: None
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
Names
More detailed information about this field from each metasource.
Information Commons for Rice
metasource: Fairsharing.orgversion: None
IC4R
metasource: Fairsharing.orgversion: None
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
Information Commons for Rice (IC4R) is a rice knowledgebase that incorporates rice data through multiple modules such as genome-wide expression profiles derived entirely from RNA-Seq data, resequencing-based genomic variations obtained from re-sequencing data of thousands of rice varieties, plant homologous genes covering multiple diverse plant species, post-translational modifications, rice-related literatures and gene annotations contributed by the rice research community.
Description
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Information Commons for Rice (IC4R) is a rice knowledgebase that incorporates rice data through multiple modules such as genome-wide expression profiles derived entirely from RNA-Seq data, resequencing-based genomic variations obtained from re-sequencing data of thousands of rice varieties, plant homologous genes covering multiple diverse plant species, post-translational modifications, rice-related literatures and gene annotations contributed by the rice research community.
metasource: Fairsharing.orgversion: None
Information Commons for Rice
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
Webpage:
http://ic4r.orgWebpage
More detailed information about this field from each metasource.
http://ic4r.org
metasource: Fairsharing.orgversion: None
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
Licence:
Name: Creative Commons Attribution 3.0 China Mainland (CC BY 3.0 CN)Licence name
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Creative Commons Attribution 3.0 China Mainland (CC BY 3.0 CN)
metasource: Fairsharing.orgversion: None
Licence URL
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Publications:
Publications
More detailed information about this field from each metasource.
Database Resources of the BIG Data Center in 2018
PMID: 29036542
metasource: Fairsharing.org
version: None
Information Commons for Rice (IC4R)
PMID: 26519466
metasource: Fairsharing.org
version: None
RiceWiki: a wiki-based database for community curation of rice genes
PMID: 24136999
metasource: Fairsharing.org
version: None
http://dx.doi.org/10.1093/nar/gkv1141
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
Publications
More detailed information about this field from each metasource.
Database Resources of the BIG Data Center in 2018
PMID: 29036542
metasource: Fairsharing.org
version: None
Information Commons for Rice (IC4R)
PMID: 26519466
metasource: Fairsharing.org
version: None
RiceWiki: a wiki-based database for community curation of rice genes
PMID: 24136999
metasource: Fairsharing.org
version: None
http://dx.doi.org/10.1093/nar/gkv1141
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
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Database Resources of the BIG Data Center in 2018
PubMed citations: 65.
65 articles citing: Database Resources of the BIG Data Center in 2018
Integrated Full-Length Transcriptome and MicroRNA Sequencing Approaches Provide Insights Into Salt Tolerance in Mangrove (Sonneratia apetala Buch.-Ham.). PMID:35899202
Transcriptome-Wide Characterization of Seed Aging in Rice: Identification of Specific Long-Lived mRNAs for Seed Longevity. PMID:35651763
Recovery of the Structure and Function of the Pig Manure Bacterial Community after Enrofloxacin Exposure. PMID:35604139
Differential regulation of intramuscular fat and abdominal fat deposition in chickens. PMID:35428174
Identification of Heterotic Groups and Patterns Based on Genotypic and Phenotypic Characteristics Among Rice Accessions of Diverse Origins. PMID:35154278
Plant immunity suppression via PHR1-RALF-FERONIA shapes the root microbiome to alleviate phosphate starvation. PMID:35146778
Aridity Threshold Induces Abrupt Change of Soil Abundant and Rare Bacterial Biogeography in Dryland Ecosystems. PMID:35133186
Clock Gene Nr1d1 Alleviates Retinal Inflammation Through Repression of Hmga2 in Microglia. PMID:34795498
LncRNAWiki 2.0: a knowledgebase of human long non-coding RNAs with enhanced curation model and database system. PMID:34751395
Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 2022. PMID:34718731
Dietary Intervention With α-Amylase Inhibitor in White Kidney Beans Added Yogurt Modulated Gut Microbiota to Adjust Blood Glucose in Mice. PMID:34712684
Evolutionary transition between invertebrates and vertebrates via methylation reprogramming in embryogenesis. PMID:34691960
Time Course Transcriptomic Study Reveals the Gene Regulation During Liver Development and the Correlation With Abdominal Fat Weight in Chicken. PMID:34567076
Copy Number Signatures and Clinical Outcomes in Upper Tract Urothelial Carcinoma. PMID:34513842
Genetic Continuity of Bronze Age Ancestry with Increased Steppe-Related Ancestry in Late Iron Age Uzbekistan. PMID:34320653
Bioinformatics-Based Identification of Tumor Microenvironment-Related Prognostic Genes in Pancreatic Cancer. PMID:34276760
Linking Bacterial-Fungal Relationships to Microbial Diversity and Soil Nutrient Cycling. PMID:33758030
Host-Associated Quantitative Abundance Profiling Reveals the Microbial Load Variation of Root Microbiome. PMID:33404537
Functional identification of PsMYB57 involved in anthocyanin regulation of tree peony. PMID:33198624
Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 2021. PMID:33175170
From asymmetrical to balanced genomic diversification during rediploidization: Subgenomic evolution in allotetraploid fish. PMID:32766441
SGCE Promotes Breast Cancer Stem Cells by Stabilizing EGFR. PMID:32714745
CNSA: a data repository for archiving omics data. PMID:32705130
IC4R-2.0: Rice Genome Reannotation Using Massive RNA-seq Data. PMID:32683045
The integrated genomic and epigenomic landscape of brainstem glioma. PMID:32555164
Structural and Functional Annotation of Transposable Elements Revealed a Potential Regulation of Genes Involved in Rubber Biosynthesis by TE-Derived siRNA Interference in Hevea brasiliensis. PMID:32545790
Tree peony variegated flowers show a small insertion in the F3'H gene of the acyanic flower parts. PMID:32398153
Post-transcriptional regulation of several biological processes involved in latex production in Hevea brasiliensis. PMID:32391199
Comparative transcriptomics characterized the distinct biosynthetic abilities of terpenoid and paeoniflorin biosynthesis in herbaceous peony strains. PMID:32341893
Aristolochic acid mutational signature defines the low-risk subtype in upper tract urothelial carcinoma. PMID:32292497
Chromatin architecture reorganization in murine somatic cell nuclear transfer embryos. PMID:32286279
Genomic and Transcriptomic Landscape of Tumor Clonal Evolution in Cholangiocarcinoma. PMID:32231683
Ancient mitogenomes show plateau populations from last 5200 years partially contributed to present-day Tibetans. PMID:32183622
Genome sequencing of Aspergillus glaucus 'CCHA' provides insights into salt-stress adaptation. PMID:32140304
Comparative Transcriptome Profiling Reveals Compatible and Incompatible Patterns of Potato Toward Phytophthora infestans. PMID:31818876
Database Resources of the National Genomics Data Center in 2020. PMID:31702008
Genome-wide transcriptional adaptation to salt stress in Populus. PMID:31429697
Subgingival microbiome of experimental gingivitis: shifts associated with the use of chlorhexidine and N-acetyl cysteine mouthwashes. PMID:31275528
Trichome regulator SlMIXTA-like directly manipulates primary metabolism in tomato fruit. PMID:31254436
The Complete Chloroplast Genomes of Punica granatum and a Comparison with Other Species in Lythraceae. PMID:31200508
A Systems Analysis of the Relationships Between Anemia and Ischemic Stroke Rehabilitation Based on RNA-Seq Data. PMID:31178893
A new chicken 55K SNP genotyping array. PMID:31117951
Phenotypic Plasticity of Staphylococcus aureus in Liquid Medium Containing Vancomycin. PMID:31057516
EDAR, LYPLAL1, PRDM16, PAX3, DKK1, TNFSF12, CACNA2D3, and SUPT3H gene variants influence facial morphology in a Eurasian population. PMID:31025105
Predicting adult height from DNA variants in a European-Asian admixed population. PMID:30976986
Prognostic implications of a molecular classifier derived from whole-exome sequencing in nasopharyngeal carcinoma. PMID:30950204
Core Microbiota in Agricultural Soils and Their Potential Associations with Nutrient Cycling. PMID:30944882
Systematics for types and effects of DNA variations. PMID:30591019
Improved Macaca fascicularis gene annotation reveals evolution of gene expression profiles in multiple tissues. PMID:30382841
iDog: an integrated resource for domestic dogs and wild canids. PMID:30371881
LNCipedia 5: towards a reference set of human long non-coding RNAs. PMID:30371849
Database Resources of the BIG Data Center in 2019. PMID:30365034
EWAS Atlas: a curated knowledgebase of epigenome-wide association studies. PMID:30364969
Plant editosome database: a curated database of RNA editosome in plants. PMID:30364952
Editome Disease Knowledgebase (EDK): a curated knowledgebase of editome-disease associations in human. PMID:30357418
NucMap: a database of genome-wide nucleosome positioning map across species. PMID:30335176
LncBook: a curated knowledgebase of human long non-coding RNAs. PMID:30329098
Comparative metagenomics of the gut microbiota in wild greylag geese (Anser anser) and ruddy shelducks (Tadorna ferruginea). PMID:30296008
Bioinformatics Commons: The Cornerstone of Life and Health Sciences. PMID:30268933
Transcriptome analysis of Valsa mali reveals its response mechanism to the biocontrol actinomycete Saccharothrix yanglingensis Hhs.015. PMID:30134836
Genome sequence and genetic transformation of a widely distributed and cultivated poplar. PMID:30044051
An intercross population study reveals genes associated with body size and plumage color in ducks. PMID:30018292
Tachyplesin Causes Membrane Instability That Kills Multidrug-Resistant Bacteria by Inhibiting the 3-Ketoacyl Carrier Protein Reductase FabG. PMID:29765362
FSPP: A Tool for Genome-Wide Prediction of smORF-Encoded Peptides and Their Functions. PMID:29675032
The 2018 Nucleic Acids Research database issue and the online molecular biology database collection. PMID:29316735 -
Information Commons for Rice (IC4R)
PubMed citations: 23.
23 articles citing: Information Commons for Rice (IC4R)
Physiological and Multi-Omics Approaches for Explaining Drought Stress Tolerance and Supporting Sustainable Production of Rice. PMID:35154193
The Genome-Wide EMS Mutagenesis Bias Correlates With Sequence Context and Chromatin Structure in Rice. PMID:33841451
ThRSDB: a database of Thai rice starch composition, molecular structure and functionality. PMID:33258964
Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 2021. PMID:33175170
IC4R-2.0: Rice Genome Reannotation Using Massive RNA-seq Data. PMID:32683045
SR4R: An Integrative SNP Resource for Genomic Breeding and Population Research in Rice. PMID:32619768
SnpHub: an easy-to-set-up web server framework for exploring large-scale genomic variation data in the post-genomic era with applications in wheat. PMID:32501478
Rice Stress-Resistant SNP Database. PMID:31872320
Database Resources of the National Genomics Data Center in 2020. PMID:31702008
RiceRelativesGD: a genomic database of rice relatives for rice research. PMID:31560050
Infrastructures of systems biology that facilitate functional genomic study in rice. PMID:30874968
Rice Genomics: over the Past Two Decades and into the Future. PMID:30771506
Agronomic Linked Data (AgroLD): A knowledge-based system to enable integrative biology in agronomy. PMID:30500839
Database Resources of the BIG Data Center in 2019. PMID:30365034
A comprehensive review of web-based resources of non-coding RNAs for plant science research. PMID:29989090
Genomic variation in 3,010 diverse accessions of Asian cultivated rice. PMID:29695866
eGenPub, a text mining system for extending computationally mapped bibliography for UniProt Knowledgebase by capturing centrality. PMID:29220476
Database Resources of the BIG Data Center in 2018. PMID:29036542
CottonFGD: an integrated functional genomics database for cotton. PMID:28595571
Protein kinase A-mediated phosphorylation of the Broad-Complex transcription factor in silkworm suppresses its transcriptional activity. PMID:28584058
Rice SNP-seek database update: new SNPs, indels, and queries. PMID:27899667
The BIG Data Center: from deposition to integration to translation. PMID:27899658
The 2016 database issue of Nucleic Acids Research and an updated molecular biology database collection. PMID:26740669 -
RiceWiki: a wiki-based database for community curation of rice genes
PubMed citations: 12.
12 articles citing: RiceWiki: a wiki-based database for community curation of rice genes
IC4R-2.0: Rice Genome Reannotation Using Massive RNA-seq Data. PMID:32683045
Infrastructures of systems biology that facilitate functional genomic study in rice. PMID:30874968
BioCreative VI Precision Medicine Track system performance is constrained by entity recognition and variations in corpus characteristics. PMID:30576491
Database Resources of the BIG Data Center in 2019. PMID:30365034
A comprehensive review of web-based resources of non-coding RNAs for plant science research. PMID:29989090
Database Resources of the BIG Data Center in 2018. PMID:29036542
LiverWiki: a wiki-based database for human liver. PMID:29029599
The BIG Data Center: from deposition to integration to translation. PMID:27899658
Information Commons for Rice (IC4R). PMID:26519466
Biological databases for human research. PMID:25712261
LncRNAWiki: harnessing community knowledge in collaborative curation of human long non-coding RNAs. PMID:25399417
Bringing biocuration to China. PMID:25042682 - http://dx.doi.org/10.1093/nar/gkv1141
Tags:
Tags
More detailed information about this field from each metasource.
dna sequence data
metasource: Fairsharing.org
version: None
gene expression
metasource: Fairsharing.org
version: None
gene expression data
metasource: Fairsharing.org
version: None
genome annotation
metasource: Fairsharing.org
version: None
homologous
metasource: Fairsharing.org
version: None
rna sequencing
metasource: Fairsharing.org
version: None
plant databases
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
rice
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
Tags
More detailed information about this field from each metasource.
dna sequence data
metasource: Fairsharing.orgversion: None
gene expression
metasource: Fairsharing.orgversion: None
gene expression data
metasource: Fairsharing.orgversion: None
genome annotation
metasource: Fairsharing.orgversion: None
homologous
metasource: Fairsharing.orgversion: None
rna sequencing
metasource: Fairsharing.orgversion: None
plant databases
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
rice
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
dna sequences gene expression gene expression genome annotation homologous rna sequence plant rice
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