Question: Regulatory Network Inference from Single-cell RNAseq Data
0
gravatar for whou
19 months ago by
whou0
whou0 wrote:

Dear all,

I am a postdoc with applied mathematics and bioinformatics background. I recently proceed to work on dynamic network inference from single-cell RNA-seq (scRNA-seq) data. We already got paired-ended scRNA-seq data generated from Illumina HiSeq but haven't started analysis yet. I have machine learning skills but have no idea how to analyze scRNA-seq. I've explored network inference methods from papers and started to take online courses on molecular biology.

Could anyone recommend up-to-date gene regulatory network inference methods or scRNA-seq analysis methods?

========================================================================

Here are the sources that I have found so far:

[papers]

  1. Bayesian Approach to Single-Cell RNA-Seq Differential Expression Analysis (June 12, 2014) http://nextgenseek.com/2014/06/bayesian-approach-to-single-cell-rna-seq-differential-expression-analysis/

  2. MAGIC: A diffusion-based imputation method reveals gene-gene interactions in single-cell RNA-sequencing data. (2017) https://www.biorxiv.org/content/early/2017/02/25/111591

  3. SCENIC: single-cell regulatory network inference and clustering. (2017) https://www.nature.com/articles/nmeth.4463

[Youtube tutorial]

  1. How to analyze RNA-Seq data? Find differentially expressed genes in your research. (Oct 6, 2016) https://www.nature.com/articles/nmeth.4463
ADD COMMENTlink modified 19 months ago by genomax73k • written 19 months ago by whou0
2
gravatar for genomax
19 months ago by
genomax73k
United States
genomax73k wrote:

All you want to know about scRNA: https://github.com/seandavi/awesome-single-cell
Single Cell RNAseq data analysis protocol

ADD COMMENTlink modified 19 months ago • written 19 months ago by genomax73k
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1830 users visited in the last hour