Related references
Note: Only part of the references are listed.Cyberinfrastructure to Improve Forest Health and Productivity: The Role of Tree Databases in Connecting Genomes, Phenomes, and the Environment
Jill L. Wegrzyn et al.
FRONTIERS IN PLANT SCIENCE (2019)
MapMan4: A Refined Protein Classification and Annotation Framework Applicable to Multi-Omics Data Analysis
Rainer Schwacke et al.
MOLECULAR PLANT (2019)
eggNOG 5.0: a hierarchical, functionally and phylogenetically annotated orthology resource based on 5090 organisms and 2502 viruses
Jaime Huerta-Cepas et al.
NUCLEIC ACIDS RESEARCH (2019)
The Gene Ontology Resource: 20 years and still GOing strong
S. Carbon et al.
NUCLEIC ACIDS RESEARCH (2019)
The Pfam protein families database in 2019
Sara El-Gebali et al.
NUCLEIC ACIDS RESEARCH (2019)
PLAZA 4.0: an integrative resource for functional, evolutionary and comparative plant genomics
Michiel Van Bel et al.
NUCLEIC ACIDS RESEARCH (2018)
Rfam 13.0: shifting to a genome-centric resource for non-coding RNA families
Ioanna Kalvari et al.
NUCLEIC ACIDS RESEARCH (2018)
NGScloud: RNA-seq analysis of non-model species using cloud computing
Fernando Mora-Marquez et al.
BIOINFORMATICS (2018)
Growing and cultivating the forest genomics database, TreeGenes
Taylor Falk et al.
DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION (2018)
Plant genome and transcriptome annotations: from misconceptions to simple solutions
Marie E. Bolger et al.
BRIEFINGS IN BIOINFORMATICS (2018)
UniProt: the universal protein knowledgebase
Alex Bateman et al.
NUCLEIC ACIDS RESEARCH (2017)
agriGO v2.0: a GO analysis toolkit for the agricultural community, 2017 update
Tian Tian et al.
NUCLEIC ACIDS RESEARCH (2017)
A Tissue-Mapped Axolotl De Novo Transcriptome Enables Identification of Limb Regeneration Factors
Donald M. Bryant et al.
CELL REPORTS (2017)
De novo transcriptome assembly and analysis of differential gene expression in response to drought in European beech
Markus Mueller et al.
PLOS ONE (2017)
KEGG as a reference resource for gene and protein annotation
Minoru Kanehisa et al.
NUCLEIC ACIDS RESEARCH (2016)
Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation
Nuala A. O'Leary et al.
NUCLEIC ACIDS RESEARCH (2016)
Complex heatmaps reveal patterns and correlations in multidimensional genomic data
Zuguang Gu et al.
BIOINFORMATICS (2016)
Fast and sensitive taxonomic classification for metagenomics with Kaiju
Peter Menzel et al.
NATURE COMMUNICATIONS (2016)
The role of ontologies in biological and biomedical research: a functional perspective
Robert Hoehndorf et al.
BRIEFINGS IN BIOINFORMATICS (2015)
Identification of protein coding regions in RNA transcripts
Shiyuyun Tang et al.
NUCLEIC ACIDS RESEARCH (2015)
Fast and sensitive protein alignment using DIAMOND
Benjamin Buchfink et al.
NATURE METHODS (2015)
InterProScan 5: genome-scale protein function classification
Philip Jones et al.
BIOINFORMATICS (2014)
GoMapMan: integration, consolidation and visualization of plant gene annotations within the MapMan ontology
Ziva Ramsak et al.
NUCLEIC ACIDS RESEARCH (2014)
Mercator: a fast and simple web server for genome scale functional annotation of plant sequence data
Marc Lohse et al.
PLANT CELL AND ENVIRONMENT (2014)
Genomic Signatures of Specialized Metabolism in Plants
Lee Chae et al.
SCIENCE (2014)
De Novo Transcriptome Sequence Assembly from Coconut Leaves and Seeds with a Focus on Factors Involved in RNA-Directed DNA Methylation
Ya-Yi Huang et al.
G3-GENES GENOMES GENETICS (2014)
Annotated genes and nonannotated genomes: cross-species use of Gene Ontology in ecology and evolution research
C. R. Primmer et al.
MOLECULAR ECOLOGY (2013)
De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis
Brian J. Haas et al.
NATURE PROTOCOLS (2013)
Challenges in homology search: HMMER3 and convergent evolution of coiled-coil regions
Jaina Mistry et al.
NUCLEIC ACIDS RESEARCH (2013)
Phytozome: a comparative platform for green plant genomics
David M. Goodstein et al.
NUCLEIC ACIDS RESEARCH (2012)
Dissecting Plant Genomes with the PLAZA Comparative Genomics Platform
Michiel Van Bel et al.
PLANT PHYSIOLOGY (2012)
REVIGO Summarizes and Visualizes Long Lists of Gene Ontology Terms
Fran Supek et al.
PLOS ONE (2011)
GOSemSim: an R package for measuring semantic similarity among GO terms and gene products
Guangchuang Yu et al.
BIOINFORMATICS (2010)
agriGO: a GO analysis toolkit for the agricultural community
Zhou Du et al.
NUCLEIC ACIDS RESEARCH (2010)
AmiGO: online access to ontology and annotation data
Seth Carbon et al.
BIOINFORMATICS (2009)
InterPro: the integrative protein signature database
Sarah Hunter et al.
NUCLEIC ACIDS RESEARCH (2009)
PLAZA: A Comparative Genomics Resource to Study Gene and Genome Evolution in Plants
Sebastian Proost et al.
PLANT CELL (2009)
Taxonomy-based partitioning of the Gene Ontology
Waclaw Kusnierczyk
JOURNAL OF BIOMEDICAL INFORMATICS (2008)
High-throughput functional annotation and data mining with the Blast2GO suite
Stefan Gotz et al.
NUCLEIC ACIDS RESEARCH (2008)
A new method to measure the semantic similarity of GO terms
James Z. Wang et al.
BIOINFORMATICS (2007)
Genome-wide characterization of the lignification toolbox in Arabidopsis
J Raes et al.
PLANT PHYSIOLOGY (2003)
The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003
B Boeckmann et al.
NUCLEIC ACIDS RESEARCH (2003)