Code from: Aspergillus flavus expression database (AFED), a comprehensive resource for Aspergillus flavus gene expression profiling
Public RNA-Seq data was used to quantify gene expression abundance for 604 Aspergillus flavus samples from 52 experiments (bioprojects). Using abundance data, we created an Aspergillus flavus expression database (AFED) accessible through a web-based interface that allows for the expression profiles of genes to be conveniently examined across different growth conditions and life cycle stages. Expression profiles can be visualized through either an interactive bar plot for single gene queries or a heatmap for multiple gene queries. A gene co-expression network based on samples containing at least 10 million mapped reads is also available, which allows users to identify genes that are co-expressed with an individual gene or set of genes and displays the functional enrichment among the co-expressed genes.
Resources
2 resources available
-
a_flavus_expression_db.zip
ZIP -
shiny_data.tar.gz
GZ
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Complete Metadata
| @type | dcat:Dataset |
|---|---|
| accessLevel | public |
| bureauCode |
[
"005:18"
]
|
| contactPoint |
{
"fn": "Mack, Brian M",
"hasEmail": "mailto:brian.mack@usda.gov"
}
|
| description | <p dir="ltr">Public RNA-Seq data was used to quantify gene expression abundance for 604 Aspergillus flavus samples from 52 experiments (bioprojects). Using abundance data, we created an Aspergillus flavus expression database (AFED) accessible through a web-based interface that allows for the expression profiles of genes to be conveniently examined across different growth conditions and life cycle stages. Expression profiles can be visualized through either an interactive bar plot for single gene queries or a heatmap for multiple gene queries. A gene co-expression network based on samples containing at least 10 million mapped reads is also available, which allows users to identify genes that are co-expressed with an individual gene or set of genes and displays the functional enrichment among the co-expressed genes.</p> |
| distribution |
[
{
"@type": "dcat:Distribution",
"title": "a_flavus_expression_db.zip",
"format": "zip",
"mediaType": "application/zip",
"downloadURL": "https://ndownloader.figshare.com/files/48026776"
},
{
"@type": "dcat:Distribution",
"title": "shiny_data.tar.gz",
"format": "gz",
"mediaType": "application/x-gzip",
"downloadURL": "https://ndownloader.figshare.com/files/48026779"
}
]
|
| identifier | 10.15482/USDA.ADC/26408044.v1 |
| keyword |
[
"Aspergillus flavus",
"expression atlas",
"expression database",
"web app"
]
|
| license | https://creativecommons.org/licenses/by/4.0/ |
| modified | 2026-03-25 |
| programCode |
[
"005:040"
]
|
| publisher |
{
"name": "Agricultural Research Service",
"@type": "org:Organization"
}
|
| temporal | 2022-09-29/2024-07-30 |
| title | Code from: Aspergillus flavus expression database (AFED), a comprehensive resource for Aspergillus flavus gene expression profiling |
