Bioinformatic tools support decision-making in plant disease management

RRGPredictor, a set-theory-based tool for predicting pathogen-associated molecular pattern receptors (PRRs) and resistance (R) proteins from plants

(2020) Raner José Santana Silva et al.   GENOMICS

PlantPepDB: A manually curated plant peptide database

(2020) Durdam Das et al.   Scientific Reports

The NLR-Annotator tool enables annotation of the intracellular immune receptor repertoire

(2020) Burkhard Steuernagel et al.   PLANT PHYSIOLOGY

NLGenomeSweeper: A Tool for Genome-Wide NBS-LRR Resistance Gene Identification

(2020) Nicholas Toda et al.   Genes

NLR-Annotator: A Tool for De Novo Annotation of Intracellular Immune Receptor Repertoire

(2020) Wei Zhang   PLANT PHYSIOLOGY

Review of the State of the Art of Deep Learning for Plant Diseases: A Broad Analysis and Discussion

(2020) Reem Ibrahim Hasan et al.   Plants-Basel

MapMan4: a refined protein classification and annotation framework applicable to multi-omics data analysis

(2019) Rainer Schwacke et al.   Molecular Plant

FungiPAD: A Free Web Tool for Compound Property Evaluation and Fungicide-Likeness Analysis

(2019) Meng-yao Wang et al.   JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY

Solving Current Limitations of Deep Learning Based Approaches for Plant Disease Detection

(2019) Marko Arsenovic et al.   Symmetry-Basel

DRAMP 2.0, an updated data repository of antimicrobial peptides

(2019) Xinyue Kang et al.   Scientific Data

Deep learning models for plant disease detection and diagnosis

(2018) Konstantinos P. Ferentinos   COMPUTERS AND ELECTRONICS IN AGRICULTURE

Bioinformatic prediction of plant–pathogenicity effector proteins of fungi

(2018) Darcy AB Jones et al.   CURRENT OPINION IN MICROBIOLOGY

Improved prediction of fungal effector proteins from secretomes with EffectorP 2.0

(2018) Jana Sperschneider et al.   MOLECULAR PLANT PATHOLOGY

Defended to the Nines: 25 Years of Resistance Gene Cloning Identifies Nine Mechanisms for R Protein Function

(2018) Jiorgos Kourelis et al.   PLANT CELL

Estimate, a New iPad Application for Assessment of Plant Disease Severity Using Photographic Standard Area Diagrams

(2018) Sarah J. Pethybridge et al.   PLANT DISEASE

Annotated Plant Pathology Databases for Image-Based Detection and Recognition of Diseases

(2018) Jayme Garcia Arnal Barbedo et al.   IEEE Latin America Transactions

Deep Learning for Plant Stress Phenotyping: Trends and Future Perspectives

(2018) Asheesh Kumar Singh et al.   TRENDS IN PLANT SCIENCE

MBGD update 2018: microbial genome database based on hierarchical orthology relations covering closely related and distantly related comparisons

(2018) Ikuo Uchiyama et al.   NUCLEIC ACIDS RESEARCH

Ensembl 2019

(2018) Fiona Cunningham et al.   NUCLEIC ACIDS RESEARCH

Evaluation of App-Embedded Disease Scales for Aiding Visual Severity Estimation of Cercospora Leaf Spot of Table Beet

(2018) Emerson Medeiros Del Ponte et al.   PLANT DISEASE

ApoplastP : prediction of effectors and plant proteins in the apoplast using machine learning

(2017) Jana Sperschneider et al.   NEW PHYTOLOGIST

PRGdb 3.0: a comprehensive platform for prediction and analysis of plant disease resistance genes

(2017) Cristina M Osuna-Cruz et al.   NUCLEIC ACIDS RESEARCH

Map-based cloning of the pear gene MYB114 identifies an interaction with other transcription factors to coordinately regulate fruit anthocyanin biosynthesis

(2017) Gaifang Yao et al.   PLANT JOURNAL

Sensing Danger: Key to Activating Plant Immunity

(2017) Andrea A. Gust et al.   TRENDS IN PLANT SCIENCE

PCPPI: a comprehensive database for the prediction of Penicillium–crop protein–protein interactions

(2017) Junyang Yue et al.   Database-The Journal of Biological Databases and Curation

LOCALIZER: subcellular localization prediction of both plant and effector proteins in the plant cell

(2017) Jana Sperschneider et al.   Scientific Reports

Epigenome overlap measure (EPOM) for comparing tissue/cell types based on chromatin states

(2016) Wei Vivian Li et al.   BMC GENOMICS

DRPPP: A machine learning based tool for prediction of disease resistance proteins in plants

(2016) Tarun Pal et al.   COMPUTERS IN BIOLOGY AND MEDICINE

Plant Disease Detection by Imaging Sensors – Parallels and Specific Demands for Precision Agriculture and Plant Phenotyping

(2016) Anne-Katrin Mahlein   PLANT DISEASE

Machine Learning for High-Throughput Stress Phenotyping in Plants

(2016) Arti Singh et al.   TRENDS IN PLANT SCIENCE

HPIDB 2.0: a curated database for host–pathogen interactions

(2016) Mais G. Ammari et al.   Database-The Journal of Biological Databases and Curation

Computational Prediction of Effector Proteins in Fungi: Opportunities and Challenges

(2016) Humira Sonah et al.   Frontiers in Plant Science

Using Deep Learning for Image-Based Plant Disease Detection

(2016) Sharada P. Mohanty et al.   Frontiers in Plant Science

NLR-parser: rapid annotation of plant NLR complements

(2015) Burkhard Steuernagel et al.   BIOINFORMATICS

NBSPred: a support vector machine-based high-throughput pipeline for plant resistance protein NBSLRR prediction

(2015) Sandeep K. Kushwaha et al.   BIOINFORMATICS

Rust fungal effectors mimic host transit peptides to translocate into chloroplasts

(2015) Benjamin Petre et al.   CELLULAR MICROBIOLOGY

Effector P: predicting fungal effector proteins from secretomes using machine learning

(2015) Jana Sperschneider et al.   NEW PHYTOLOGIST

PhytoPath: an integrative resource for plant pathogen genomics

(2015) Helder Pedro et al.   NUCLEIC ACIDS RESEARCH

CAMPR3: a database on sequences, structures and signatures of antimicrobial peptides: Table 1.

(2015) Faiza Hanif Waghu et al.   NUCLEIC ACIDS RESEARCH

APD3: the antimicrobial peptide database as a tool for research and education

(2015) Guangshun Wang et al.   NUCLEIC ACIDS RESEARCH

Leaf Doctor: A New Portable Application for Quantifying Plant Disease Severity

(2015) Sarah J. Pethybridge et al.   PLANT DISEASE

Plant Innate Immunity Multicomponent Model

(2015) Giuseppe Andolfo et al.   Frontiers in Plant Science

InterProScan 5: genome-scale protein function classification

(2014) P. Jones et al.   BIOINFORMATICS

VirusMentha: a new resource for virus-host protein interactions

(2014) Alberto Calderone et al.   NUCLEIC ACIDS RESEARCH

'In silico expression analysis', a novel PathoPlant web tool to identify abiotic and biotic stress conditions associated with specific cis-regulatory sequences

(2014) J. C. Bolivar et al.   Database-The Journal of Biological Databases and Curation

Current Challenges and Trends in the Discovery of Agrochemicals

(2013) C. Lamberth et al.   SCIENCE

Metabolo-proteomics to discover plant biotic stress resistance genes

(2013) Ajjamada C. Kushalappa et al.   TRENDS IN PLANT SCIENCE

Emerging fungal threats to animal, plant and ecosystem health

(2012) Matthew C. Fisher et al.   NATURE

Protein interaction data curation: the International Molecular Exchange (IMEx) consortium

(2012) Sandra Orchard et al.   NATURE METHODS

PRGdb 2.0: towards a community-based database model for the analysis of R-genes in plants

(2012) Walter Sanseverino et al.   NUCLEIC ACIDS RESEARCH

Plant disease resistance genes: Current status and future directions

(2012) Mayank Anand Gururani et al.   PHYSIOLOGICAL AND MOLECULAR PLANT PATHOLOGY

Plant–pathogen interactions: disease resistance in modern agriculture

(2012) Lesley A. Boyd et al.   TRENDS IN GENETICS

Crop losses due to diseases and their implications for global food production losses and food security

(2012) Serge Savary et al.   Food Security

The Arabidopsis Information Resource (TAIR): improved gene annotation and new tools

(2011) Philippe Lamesch et al.   NUCLEIC ACIDS RESEARCH

HPIDB - a unified resource for host-pathogen interactions

(2010) Ranjit Kumar et al.   BMC BIOINFORMATICS

NIASGBdb: NIAS Genebank databases for genetic resources and plant disease information

(2010) M. Takeya et al.   NUCLEIC ACIDS RESEARCH