Motif discovery and enrichment in genomic regions (ChIP-Seq) using TRANSFAC

In this comprehensive video, we perform motif discovery and find enriched transcription factor binding sites (TFBS) using TRANSFAC in genomic regions of interest i.e ChIP-Seq peaks. geneXplain's point and click interface requires no programming to run the workflows and generate meaningful insights from high throughput data. In this demonstration, we run the workflows using geneXplain's platform and generated detailed insights on the TFBS of interest.
This video is in collaboration with geneXplain GmbH ( / @genexplain ) which is one of the worldwide known providers of top bioinformatics, systems biology and cheminformatics databases, software and services.
I hope you find this video helpful! Leave your thoughts in the comment section below!
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The content presented on this CZcams video channel is designed exclusively for educational purposes. It should be noted that the creator of the channel makes every possible effort to ensure the accuracy and credibility of the information shared. However, due to the ever-evolving nature of knowledge and certain subjects, occasional inaccuracies or outdated information might occur. Therefore, viewers are strongly advised to complement the provided content with their personal research and seek guidance from qualified professionals or experts before making any decisions or inferences based on the information presented in the videos. Moreover, the perspectives and opinions expressed in the videos are those of the creator alone. They do not necessarily reflect the viewpoints of any affiliated organization, institution, or entity associated with the creator.
▸ Part 1 of this video:
• Introduction to Motif ...
▸ What are Position Weight Matrices (PWMs)?:
• Introduction to Motif ...
▸ Data used for demonstration:
www.ncbi.nlm.nih.gov/geo/quer...
▸ Contact geneXplain:
genexplain.com/contact/
Chapters:
0:00 Intro
0:47 Case Study
1:36 About geneXplain
2:16 Searching for enriched TFBS using TRANSFAC
3:03 Exploring geneXplain’s platform
5:13 Uploading the data onto the platform
6:53 Subsetting data using filters
8:18 Converting peaks in tabular format to track format
10:23 Running the workflow to find enriched TFBS using TRANSFAC
11:58 Exploring the Sites Search Summary results
14:06 Exploring the resulting transcription factors
15:36 Exploring instances of PWMs of interest in more detail
18:32 Visualizing TFBS in a genome browser
20:14 Mapping peaks to genes
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To get in touch:
Website: bioinformagician.org/
Github: github.com/kpatel427
Email: [e-mail]
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[@user-cd4jk2kh1d]

Really nice videos

[@user-nl1tg5tk6n]

Hey! you make nice videos, just a request, would you please make on enrichment analysis and why background genes are needed as a baseline? Please share some relevant resources to understand it better from the basics.

[@anaidmontesinos4857]

I created my count but we have to pay. I to use it. Do you have your license of this software?

[@DataDude-oi7si]

Mam I'm currently studying BSc Bioinformatics and I'm confused about which college should I apply for can you make. Video on MSc For Bioinformatics colleges in India and you have done your MSc from Khalasa college can you plz provide some information about it and also how to apply and which University to apply for outside India

[@tolga1292]

Cell-Cell-Communication Tutorial please