---
title: "scRNA-seq Differential Expression"
canonical: "https://help.biobam.com/space/OED0324/3525084499/scRNA-seq%20Differential%20Expression"
format: markdown
---
> Macro (toc)

## Introduction

This dataset consists of gene expression data of human pancreatic islet cells of both healthy and diabetic donors. The aim of the study is to discover differences in gene expression between healthy and diabetic cells. 

#### Dataset description

- Organism: *Homo sapiens*
- Instrument: Illumina HiSeq 2500
- Library construction: SMARTer v1
- Layout: Single-end 75 pb
- Number of cells: 1,068


#### Publication

Lawlor N, George J, Bolisetty M, et al. Single-cell transcriptomes identify human islet cell signatures and reveal cell-type-specific expression changes in type 2 diabetes. Genome Research. 2017 Feb;27(2):208-222. DOI: [10.1101/gr.212720.116](https://europepmc.org/article/MED/27864352#s3). PMID: 27864352; PMCID: PMC5287227.

## Bioinformatic Analysis

### 1.- scRNA-Seq Clustering


#### Application

[Single-cell RNAseq Clustering](http://manual.omicsbox.biobam.com/user-manual/omicsbox-modules/module-transcriptomics/single-cell-rnaseq-clustering/)

#### Input

- [Count Table](https://drive.google.com/file/d/10E_tc0Ar3k30sg9AoW8FR__UdrcisXG-/view?usp=sharing)
- [Experimental Design](https://drive.google.com/file/d/1Y_kXCyX75l7lnA6Uz3JpXfJUvKsKnJux/view?usp=sharing)

#### Parameters

#### Execution Time

~ 10 min

#### Output

- [Clustering project](https://drive.google.com/file/d/1wAwwoHVbthu2QEtqPWZvj0WGBtou5xC_/view?usp=sharing)


### 2.- scRNA-Seq Differential Expression

#### Application


#### Input

- [Clustering project](https://drive.google.com/file/d/1wAwwoHVbthu2QEtqPWZvj0WGBtou5xC_/view?usp=sharing)


#### Parameters

#### Execution Time

~ 10 min

#### Output

- [Scde project](https://drive.google.com/file/d/1T7O1sNISClYGomhbJmDyr-kk6YNtnlSD/view?usp=sharing)