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Update datanodes.Rmd
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fix image issues. 

Image path should be ".png" not ".PNG"
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Finterly authored Jan 15, 2024
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26 changes: 13 additions & 13 deletions datanodes.Rmd
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Expand Up @@ -14,19 +14,19 @@ knitr::include_graphics("images/screenshots/datanodes.png")

## Molecular DataNodes

### GeneProduct ![](images/figures/datanodes/geneproduct.PNG){width=300}
### GeneProduct ![](images/figures/datanodes/geneproduct.png){width=300}
An entity representing any product of a given gene, including DNA, RNA and Protein. This is the most generic representation of a gene-based biomolecule and is useful when more than one representation might be useful in the given context

### Metabolite ![](images/figures/datanodes/metabolite.PNG){width=300}
### Metabolite ![](images/figures/datanodes/metabolite.png){width=300}
An entity representing a metabolite, including chemical compounds that participate in or are produced by metabolic reactions, but also other chemical compounds that participate in a pathway otherwise.

### Protein ![](images/figures/datanodes/protein.PNG){width=300}
### Protein ![](images/figures/datanodes/protein.png){width=300}
A biomolecular polymer of amino acids, translated from mRNA.

### DNA ![](images/figures/datanodes/dna.PNG){width=300}
### DNA ![](images/figures/datanodes/dna.png){width=300}
An entity representing a DNA polymer.

### RNA ![](images/figures/datanodes/rna.PNG){width=300}
### RNA ![](images/figures/datanodes/rna.png){width=300}
An entity representing a RNA peptide, including mRNA, miRNA, etc. This is commonly used to explicitly represent mRNA transcripts (excluding DNA or protein forms) or other RNA species, like miRNA, exRNA, lncRNA, etc

### Complex (deprecated)
Expand All @@ -36,22 +36,22 @@ The Complex Data Node Type is deprecated. Its use was similar to that of [Alias]

## Concept DataNodes

### Pathway ![](images/figures/datanodes/pathway.PNG){width=300}
### Pathway ![](images/figures/datanodes/pathway.png){width=300}
A biological process representing a set of interactions and relationships among genes, proteins, metabolites, and other factors in the context of cellular compartments, tissues and organisms.

### Disease ![](images/figures/datanodes/disease.PNG){width=300}
### Disease ![](images/figures/datanodes/disease.png){width=300}

### Phenotype ![](images/figures/datanodes/phenotype.PNG){width=300}
### Phenotype ![](images/figures/datanodes/phenotype.png){width=300}

### Alias ![](images/figures/datanodes/alias.PNG){width=300}
### Alias ![](images/figures/datanodes/alias.png){width=300}
An Alias is a special type of Data Node which can represent a Group pathway element (or other entity). Please see [Aliases](#aliases) for more information!

### Event ![](images/figures/datanodes/event.PNG){width=300}
### Event ![](images/figures/datanodes/event.png){width=300}

### CellNode ![](images/figures/datanodes/cellnode.PNG){width=300}
### CellNode ![](images/figures/datanodes/cellnode.png){width=300}

### Organ ![](images/figures/datanodes/organ.PNG){width=300}
### Organ ![](images/figures/datanodes/organ.png){width=300}

### Undefined ![](images/figures/datanodes/undefined.PNG){width=300}
### Undefined ![](images/figures/datanodes/undefined.png){width=300}
An unspecified biological entity or factor. Should only be used if the type is truly unknown or is different from the ones covered by other data node types.

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@Finterly
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commit 3dd1a3c fixes issue #6

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