https://github.com/mahshaaban/curatedadipoarray

A Curated Microarrays Dataset of MDI-induced Differentiated Adipocytes (3T3-L1) Under Genetic and Pharmacological Perturbations
https://github.com/mahshaaban/curatedadipoarray

adipocyte-differentiation curated-data microarrays perturbations

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A Curated Microarrays Dataset of MDI-induced Differentiated Adipocytes (3T3-L1) Under Genetic and Pharmacological Perturbations

• Host: GitHub
• URL: https://github.com/mahshaaban/curatedadipoarray
• Owner: MahShaaban
• License: gpl-3.0
• Created: 2019-09-11T12:15:57.000Z (about 5 years ago)
• Default Branch: master
• Last Pushed: 2020-02-12T02:50:53.000Z (almost 5 years ago)
• Last Synced: 2023-08-03T15:25:10.778Z (over 1 year ago)
• Topics: adipocyte-differentiation, curated-data, microarrays, perturbations
• Language: R
• Homepage: https://bioconductor.org/packages/curatedAdipoArray/
• Size: 52.7 KB
• Stars: 0
• Watchers: 2
• Forks: 0
• Open Issues: 0
• Metadata Files:
  • Readme: README.md
  • License: LICENSE

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# curatedAdipoArray

A Curated Microarrays Dataset of MDI-induced Differentiated Adipocytes (3T3-L1)

Under Genetic and Pharmacological Perturbations

# Overview

A curated dataset of Microarrays samples. The samples are MDI-induced pre-

adipocytes (3T3-L1) at different time points/stage of differentiation under 

different types of genetic (knockdown/overexpression) and pharmacological 

(drug treatment). The package documents the data collection and processing.

In addition to the documentation, the package contains the scripts that was

used to generated the data.

# Introduction

## What is `curatedAdipoArray`?

This package is for documenting and distributing a curated dataset of gene 

expression from MDI-induced 3T3-L1 adipocyte cell model under genetic and

pharmacological modification.

## What is contained in `curatedAdipoArray`?

The package contains two things:

1. Scripts for documenting and reproducing the dataset in `inst/scripts`.

2. Access to the clean and the processed data `SummarizedExperiment` objects

through `ExperimentHub`.

## What is `curatedAdipoArray` for?

The data contained in the package can be used in any number of downstream

analysis such as differential expression and gene set enrichment.

# Installation

The `curatedAdipoArray` package can be installed from Bioconductor using 

`BiocManager`.

```{r install_biocmanager,eval=FALSE}

if (!requireNamespace("BiocManager", quietly = TRUE))

    install.packages("BiocManager")

BiocManager::install("curatedAdipoArray")

```

# Docker image

The pre-processing and processing of the data setup environment is available as

a `docker` image. This image is also suitable for reproducing this document. 

The `docker` image can be obtained using the `docker` CLI client.

```

$ docker pull bcmslab/adiporeg_array:latest

```

# Citing `curatedAdipoArray`

To cite the package use:

```{r citation, eval=FALSE}

# citing the package

citation("curatedAdipoArray")

```