Find Active Compounds/Phytochemicals | Integrating Network Pharmacology approach | SALMAN AKBAR

Summary

The video script discusses network pharmacology, explaining how to identify active compounds and targets. It guides through the process of collecting compounds from databases like 'IMPACT' and 'Indian Medicinal Plants - Phytochemistry', screening them, and performing gene enrichment analysis. The tutorial covers practical steps, including how to download and modify data, remove unnecessary links, and use tools like 'PubChem' for compound identification, ultimately constructing a database for further analysis.

Takeaways

• 🌿 The script discusses network pharmacology and its application in analyzing active compounds.
• 📈 The process involves planning, identifying active compounds, targets, genes, and performing GEO enrichment analysis and gene ontology.
• 🔍 The script explains how to collect active compounds through literature review and database searches, specifically using databases like 'IMPACT' and 'Indian Medicinal Plants - Phytochemistry'.
• 📝 It details the steps to perform a basic search in the database, input a plan name, and wait for results.
• 📑 The script instructs on how to download results, manually select and copy data, and manipulate it in Excel for further analysis.
• 🔗 It mentions the removal of hyperlinks and justifications from the data to refine the list of active compounds.
• 📋 The process includes creating a new column for compound names and using 'PubChem' to find the best matches and their corresponding IDs.
• 🔎 The script emphasizes the importance of identifying and removing unnecessary data to focus on the essential compound information.
• 📊 It outlines the creation of a database with compound information and the identification of each compound's name.
• 💻 The final database is expected to display compound numbers and the results of the analysis.

Q & A

What does the term 'Network Pharmacology' refer to?

Network Pharmacology is a field that integrates pharmacology with network theory to analyze complex interactions within biological systems and drug actions.

What are the steps involved in Network Pharmacology?

The steps include planning, identifying active compounds, finding targets, gene finding, gene ontology, gene enrichment analysis, network construction, and molecular networking.

How does one collect active compounds in Network Pharmacology?

Active compounds are collected through literature review and mining from databases such as 'Indian Medicinal Plants' and 'Phytochemistry'.

What is the purpose of the 'Basic Search' mentioned in the script?

The 'Basic Search' is used to find active compounds by entering a plan name and retrieving results from the database.

How many entities does the script mention are shown in the results?

The script mentions that initially 10 entities are shown, but the user maximizes it to 100 out of a total of 305.

How can one download the results from the database?

The script suggests manually dragging and selecting the results, copying them, and pasting into an Excel sheet.

What modifications are made to the data in Excel?

Modifications include removing hyperlinks, justifying text, and selecting only the necessary data such as the phytochemical name.

What is the next step after collecting compound names?

After collecting compound names, the next step is to use the PubChem database to find more information about these compounds.

How does one perform a search in PubChem?

A search is performed in PubChem by entering the compound name into the search bar and copying the results into a meta-boltight column.

What is meant by 'Smiles' in the context of the script?

In the script, 'Smiles' refers to the unique notations used to represent the structure of a molecule in cheminformatics.

What is the final output of the database creation process described in the script?

The final output is a database with compound identification names and other relevant data organized in a structured format.