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X Demographics
Mendeley readers
Attention Score in Context
| Title |
Integration of a constraint-based metabolic model of Brassica napus developing seeds with 13C-metabolic flux analysis
|
|---|---|
| Published in |
Frontiers in Plant Science, December 2014
|
| DOI | 10.3389/fpls.2014.00724 |
| Pubmed ID | |
| Authors |
Jordan O. Hay, Hai Shi, Nicolas Heinzel, Inga Hebbelmann, Hardy Rolletschek, Jorg Schwender |
| Abstract |
The use of large-scale or genome-scale metabolic reconstructions for modeling and simulation of plant metabolism and integration of those models with large-scale omics and experimental flux data is becoming increasingly important in plant metabolic research. Here we report an updated version of bna572, a bottom-up reconstruction of oilseed rape (Brassica napus L.; Brassicaceae) developing seeds with emphasis on representation of biomass-component biosynthesis. New features include additional seed-relevant pathways for isoprenoid, sterol, phenylpropanoid, flavonoid, and choline biosynthesis. Being now based on standardized data formats and procedures for model reconstruction, bna572+ is available as a COBRA-compliant Systems Biology Markup Language (SBML) model and conforms to the Minimum Information Requested in the Annotation of Biochemical Models (MIRIAM) standards for annotation of external data resources. Bna572+ contains 966 genes, 671 reactions, and 666 metabolites distributed among 11 subcellular compartments. It is referenced to the Arabidopsis thaliana genome, with gene-protein-reaction (GPR) associations resolving subcellular localization. Detailed mass and charge balancing and confidence scoring were applied to all reactions. Using B. napus seed specific transcriptome data, expression was verified for 78% of bna572+ genes and 97% of reactions. Alongside bna572+ we also present a revised carbon centric model for (13)C-Metabolic Flux Analysis ((13)C-MFA) with all its reactions being referenced to bna572+ based on linear projections. By integration of flux ratio constraints obtained from (13)C-MFA and by elimination of infinite flux bounds around thermodynamically infeasible loops based on COBRA loopless methods, we demonstrate improvements in predictive power of Flux Variability Analysis (FVA). Using this combined approach we characterize the difference in metabolic flux of developing seeds of two B. napus genotypes contrasting in starch and oil content. |
X Demographics
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| United States | 1 | 50% |
| Switzerland | 1 | 50% |
Demographic breakdown
| Type | Count | As % |
|---|---|---|
| Members of the public | 2 | 100% |
Mendeley readers
The data shown below were compiled from readership statistics for 88 Mendeley readers of this research output. Click here to see the associated Mendeley record.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| Singapore | 1 | 1% |
| Argentina | 1 | 1% |
| Belgium | 1 | 1% |
| Unknown | 85 | 97% |
Demographic breakdown
| Readers by professional status | Count | As % |
|---|---|---|
| Student > Ph. D. Student | 23 | 26% |
| Researcher | 23 | 26% |
| Student > Bachelor | 9 | 10% |
| Student > Master | 7 | 8% |
| Student > Doctoral Student | 5 | 6% |
| Other | 8 | 9% |
| Unknown | 13 | 15% |
| Readers by discipline | Count | As % |
|---|---|---|
| Agricultural and Biological Sciences | 39 | 44% |
| Biochemistry, Genetics and Molecular Biology | 11 | 13% |
| Engineering | 9 | 10% |
| Computer Science | 4 | 5% |
| Nursing and Health Professions | 2 | 2% |
| Other | 8 | 9% |
| Unknown | 15 | 17% |
Attention Score in Context
This research output has an Altmetric Attention Score of 1. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 19 December 2014.
All research outputs
#19,013,042
of 24,226,848 outputs
Outputs from Frontiers in Plant Science
#13,415
of 22,669 outputs
Outputs of similar age
#251,219
of 361,739 outputs
Outputs of similar age from Frontiers in Plant Science
#124
of 203 outputs
Altmetric has tracked 24,226,848 research outputs across all sources so far. This one is in the 18th percentile – i.e., 18% of other outputs scored the same or lower than it.
So far Altmetric has tracked 22,669 research outputs from this source. They receive a mean Attention Score of 3.9. This one is in the 31st percentile – i.e., 31% of its peers scored the same or lower than it.
Older research outputs will score higher simply because they've had more time to accumulate mentions. To account for age we can compare this Altmetric Attention Score to the 361,739 tracked outputs that were published within six weeks on either side of this one in any source. This one is in the 26th percentile – i.e., 26% of its contemporaries scored the same or lower than it.
We're also able to compare this research output to 203 others from the same source and published within six weeks on either side of this one. This one is in the 28th percentile – i.e., 28% of its contemporaries scored the same or lower than it.