Basics of Bioinformatics research – from idea to article

سرفصل های دوره

Learn the basics of computer aided drug designing and how to publish your first paper from scratch in Bioinformatics.

1 - Introduction

1 - Intro to the course

2 - Study Plan

2 - Study Plan

3 - Data analysis and Manipulation

3 - Procuring Data

3 - gene expression omnibus.zip

4 - Data Manipulation

4 - Finding the Differentially Expressed Genes DEGs

5 - Creating Venn diagram

5 - FunRich tool download link.txt

5 - Identifying Hub genes from Proteinprotein interaction network

6 - Creating PPI and using STRING tool and identifying Hub genes using Cytoscape

6 - cytoscape.zip

6 - string db.zip

6 - Identifying drugs associated with hub genes

7 - Identification of drugs using Drug gene interaction database DGIdb

7 - drug gene interaction database.zip

7 - Screening of drugs

8 - Using DruLiTo and OSIRIS for Screening of Drugs

8 - drulito.zip

8 - osiris.zip

8 - Molecular Docking study

9 - Downloading PDB files of proteins

10 - UCSF Chimera and AutoDock Vina Installation

10 - autodock vina.zip

10 - ucsf chimera.zip

11 - Energy minimization of protein and preparing the protein for molecular docking

11 - swiss pdb viewer.zip

12 - Energy minimization of ligand and preparing it for docking

12 - avogadro.zip

13 - Finding pockets for our protein of interest

13 - castp 30.zip

14 - Molecular Docking study

15 - Creating the docked complex file

15 - open babel.zip

15 - open babel online version.zip

16 - Visualization of the docked complex

16 - biovia discovery studio.zip

9 - Producing publication quality images

17 - Using Adobe Photoshop for producing images for publication

18 - Using Adobe Photoshop for Producing publication quality images

18 - adobe photoshop.zip

10 - Enrichment analysis

19 - Enrichment analysis using Enrichr

19 - enrichr.zip

19 - paper where enrichr is used.zip

11 - Identification of microRNAs associated with top ten hub genes

20 - Using miRNet for identification of microRNAs associated with top ten hub genes

20 - mirnet.zip

12 - Writing your first paper

21 - Anatomy of a research article and selection of correct journal

22 - Preparing manuscript for journal and using Zotero for reference management

22 - zotero.zip

23 - Uploading your manuscript to BioRxiv

23 - paper on multiple sclerosis and huntingtons disease.zip

13 - Course Conclusion

24 - Course Conclusion

24 - Research-week-routine-3.pdf

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تولید کننده: Udemy-Training