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ePlant specifications


Unique identifier OMICS_22411
Name ePlant
Restrictions to use None
Input data A gene name.
Programming languages Javascript
Computer skills Basic
Stability Stable
Maintained Yes


  • person_outline Nicholas J. Provart

Publications for ePlant

ePlant citations


Genome wide identification of wheat and Brachypodium type one protein phosphatases and functional characterization of durum wheat TdPP1a

PLoS One
PMCID: 5770040
PMID: 29338035
DOI: 10.1371/journal.pone.0191272

[…] fic role of TdPP1a during salt stress in the aerial parts of the plants which might not exist in the roots. TOPP1’s expression is also slightly induced in leaves after 3h of salt treatment (data from ePlant/BAR) but the nine Arabidopsis TOPPs have similar expression patterns independently of plant growth conditions, hormonal treatments and plant tissue (data from ePlant/BAR). In the case of Vicia […]


The Integration of Electrical Signals Originating in the Root of Vascular Plants

Front Plant Sci
PMCID: 5767606
PMID: 29375591
DOI: 10.3389/fpls.2017.02173

[…] signaling in Arabidopsis thalina (Barbier-Brygoo et al., ; Hedrich, ) (Table ). We performed a hierarchical clustering analysis to group these genes according to the expression profiles obtained from EPlant (Waese et al., ). When comparing all relevant tissues at different stages of development, we observed that the different ion channels present a characteristic pattern of expression (Figure ).It […]


Identification of regulatory modules in genome scale transcription regulatory networks

BMC Syst Biol
PMCID: 5732458
PMID: 29246163
DOI: 10.1186/s12918-017-0493-2

[…] twork method used TF binding sites to infer interactions whereas CoReg used direct interactions. However, CoReg can be applied to any network such as a network predicted by the TF2Network method. For ePlant, we submitted three co-regulators in module 61 to search for their targets. ePlant identified 9620 targets in total, while there are 17 targets for module 61 in our network. There are 11 target […]


Whole genome re sequencing of two Italian tomato landraces reveals sequence variations in genes associated with stress tolerance, fruit quality and long shelf life traits

PMCID: 5909465
PMID: 29149280
DOI: 10.1093/dnares/dsx045

[…] genomes does not allow attributing significance to the identified SNPs relating to these loci. However, the evidence that Solyc04g074490 is preferentially expressed in fruit (https://bar.utoronto.ca/eplant/ (October 2017, date last accessed)) could be suggestive of a ripening function. Among common genes we also identified a SU(VAR)3-9-related histone methyltransferase (HMTs) (Solyc10g074370) sho […]


Implementation of Novel Design Features for qPCR Based eDNA Assessment

PLoS One
PMCID: 5089736
PMID: 27802293
DOI: 10.1371/journal.pone.0164907

[…] d species-specific qPCR reactions for 50 cycles. In the present example of eDNA assessment of field-derived samples, we have allowed continued evaluation of any samples identified as non-assayable by ePlant5 to highlight the potential for inclusion of false negative observations in an eDNA field survey. […]


Progress in genome sequencing will accelerate molecular breeding in cotton (Gossypium spp.)

3 Biotech
PMCID: 5055485
PMID: 28330289
DOI: 10.1007/s13205-016-0534-3

[…] of genes are facing enormous challenges. Recently, several scientific research groups have been in the process of developing a multi-scale crop system (Long et al. ; Chu ; Chew et al. ), such as the ePlant model (Zhu et al. ), which can be used for high-throughput and systematic association studies of multiple loci and complex traits. Finally, the development of an efficient system for molecular […]


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ePlant institution(s)
Department of Cell and Systems Biology/Centre for the Analysis of Genome Evolution and Function, University of Toronto, Toronto, ON, Canada; Department of Computer Science, University of Waterloo, ON, Canada; SIB Swiss Institute of Bioinformatics, sciCORE Computing Center, University of Basel, Basel, Switzerland; Imperial College London, London, UK; Araport.org/J. Craig Venter Institute, Rockville, MD, USA; School of Interactive Arts and Technology, Simon Fraser University, BC, Canada
ePlant funding source(s)
Supported by the Government of Canada through Genome Canada/Ontario Genomics (OGI-071) and by UK BBSRC Grant BB/M011526/1.

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